VMD-L Mailing List

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About this archive

Starting: Thu Dec 19 1996 - 11:40:41 CST
Ending: Fri Sep 22 2023 - 11:07:47 CDT

• $B:,>k(J $B6Q(J
  • vizualization of modes (Tue Sep 30 2003 - 03:31:55 CDT)
  • Re: ftp failed (Thu Aug 29 2002 - 03:21:12 CDT)
  • Re: ftp failed (Tue Aug 27 2002 - 02:35:49 CDT)
• Chavent Mathieu
  • graphics: not enough parameters (Fri Jun 14 2013 - 12:56:24 CDT)
  • Re: hide/display VMD graphics primitives (Sun May 12 2013 - 08:50:49 CDT)
  • hide/display VMD graphics primitives (Fri May 10 2013 - 12:09:52 CDT)
• Y. U. Sasidhar
  • displaying hydrogen bonds when hydrogens are not available (Thu Jun 19 2008 - 07:34:23 CDT)
• #ANG YUN MEI ELISA#
  • HBonds Plugin - Hbonds criteria (Tue Jan 24 2017 - 18:24:49 CST)
• #WONG CHEE HOW#
  • Fullerene coordinates (Fri Aug 27 2004 - 03:50:03 CDT)
  • Colouring (Wed Jun 18 2003 - 01:02:39 CDT)
  • RE: animation question (Fri Mar 28 2003 - 00:10:24 CST)
  • Maximum number of atoms/bonds (Tue Jan 14 2003 - 19:04:54 CST)
  • Loading XYZ trajectory file (Mon Dec 09 2002 - 19:17:00 CST)
  • Problems with color (Mon Nov 11 2002 - 09:52:17 CST)
  • Beta color of atoms (Thu Nov 07 2002 - 19:57:26 CST)
  • RE: VMD 1.8 alpha 29 available for testing! (Fri Nov 01 2002 - 22:48:10 CST)
  • RE: VMD 1.8 alpha 29 available for testing! (Fri Nov 01 2002 - 22:47:01 CST)
  • Coloring of atoms/molecules (Thu Oct 31 2002 - 23:24:13 CST)
  • How to show the strain energies of each atom (Thu Sep 19 2002 - 02:36:27 CDT)
• #YEO JINGJIE#
  • Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Wed Sep 18 2019 - 20:23:54 CDT)
  • Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Mon Sep 09 2019 - 20:08:27 CDT)
  • Errors in FFTK during bond opt using VMD 1.9.4a37 (Mon Sep 09 2019 - 02:17:54 CDT)
  • Re: FFTK for diazonium-modified tyrosine (Thu Jan 12 2017 - 09:47:40 CST)
  • Re: FFTK for diazonium-modified tyrosine (Sun Jan 08 2017 - 11:24:40 CST)
  • Re: FFTK for diazonium-modified tyrosine (Fri Jan 06 2017 - 15:47:00 CST)
  • FFTK for diazonium-modified tyrosine (Fri Jan 06 2017 - 12:52:40 CST)
  • Error when using orient command (Wed Aug 31 2016 - 16:46:17 CDT)
  • Unable to patch RNA to obtain DNA (Wed Mar 23 2016 - 14:48:35 CDT)
• .
  • VMD 1.2b2 Linux & MSMS ... (Sun May 17 1998 - 08:55:16 CDT)
• . Juita
  • RE: self-diffusion coefficient from RMSD (Fri Jan 31 2014 - 00:55:55 CST)
  • self-diffusion coefficient from RMSD (Thu Jan 30 2014 - 03:21:45 CST)
  • RDF calculation (Mon Jan 13 2014 - 18:27:09 CST)
• 04215287d_at_polyu.edu.hk
  • .pdb file from XMD (Thu Nov 02 2006 - 08:39:44 CST)
• 1(484)993-7152 Marty
  • ! Obtain degrees from Prestigious non-accredite dUniversities (Sat Jun 23 2007 - 01:45:28 CDT)
• 16.zdsmith_at_gmail.com
  • New Cartoon representation - Ubuntu (Wed Mar 01 2023 - 12:09:48 CST)
• 3D SIG
  • May 18th, Late abstract submission deadline for 3Dsig Structural Bioinformatics & Computational Biophysics (Wed May 11 2011 - 16:57:22 CDT)
  • 3Dsig 2011: Structural Bioinformatics & Computational Biophysics, Vienna, 15-16 July 2011 (abstract deadline May 1st) (Fri Apr 15 2011 - 14:38:03 CDT)
  • 3Dsig 2011: Structural Bioinformatics & Computational Biophysics, Vienna, 15-16 July 2011 (abstract deadline May 1st). (Wed Mar 23 2011 - 06:15:19 CDT)
• _at_huji.ac.il
  • Re: sending arguments to tcl (Sun Feb 04 2007 - 02:21:02 CST)
  • sending arguments to tcl (Thu Feb 01 2007 - 13:39:20 CST)
  • Re: [Fwd: pdb from trajectory] some clarification (Wed Jan 24 2007 - 04:37:40 CST)
  • [Fwd: pdb from trajectory] some clarification (Tue Jan 23 2007 - 09:41:49 CST)
  • pdb from trajectory (Tue Jan 23 2007 - 09:16:29 CST)
  • Re: [Fwd: Re: create new topology file for new molecule] (Wed Jan 10 2007 - 03:01:50 CST)
  • create new topology file for new molecule (Tue Jan 09 2007 - 10:06:25 CST)
  • recenter peptide in PBC (Tue Dec 26 2006 - 04:54:20 CST)
  • vmd questions (Thu Dec 21 2006 - 05:09:59 CST)
• a a
  • FW: How to set VMD_Plugin_path? (Sat Mar 31 2012 - 23:25:30 CDT)
  • Re: redhat linux vmd (Mon May 22 2006 - 21:18:43 CDT)
  • redhat linux vmd (Mon May 22 2006 - 03:51:59 CDT)
• A D
  • MDFF plug-in (Fri Mar 05 2010 - 15:09:06 CST)
  • VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 (Mon Jan 25 2010 - 13:50:06 CST)
  • PBCTools-problem getting unitcell parameters (Thu Nov 12 2009 - 19:40:31 CST)
  • How to translate my diffused protein back to COM? (Mon Oct 05 2009 - 18:20:15 CDT)
  • animate read and write (Wed Apr 22 2009 - 15:36:00 CDT)
  • putting a set of selections in a list or an array (Sun Jan 11 2009 - 12:14:08 CST)
  • vmd shuts itself down (Thu Jun 26 2008 - 19:20:58 CDT)
• A. Gomez-Sicilia
  • Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:11:03 CDT)
  • Installing VMD with PYTHON support (Thu Oct 10 2013 - 07:09:29 CDT)
• A. M. Carmen Pérez
  • Compatibility with Orcad (PSpice) ? (Thu Sep 16 2010 - 05:06:29 CDT)
• A. M.M
  • Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:37:52 CDT)
  • Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:37:01 CDT)
  • Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:27:31 CDT)
• AA
  • XYZ trajectory with different atom types? (Fri Jan 16 2009 - 13:21:15 CST)
• Aaron Blanchard, Ph.D.
  • Issue with Timeline Plugin related to "geometry manager pack" (Mon Jan 17 2022 - 23:23:51 CST)
• Aaron Larsen
  • Re: Forcing FFTK to treat aminos as planar (Thu Jun 18 2015 - 14:57:16 CDT)
  • Re: Forcing FFTK to treat aminos as planar (Thu Jun 18 2015 - 14:27:55 CDT)
  • Forcing FFTK to treat aminos as planar (Fri Jun 12 2015 - 08:03:25 CDT)
• Aaron Oakley
  • Shannon entropy in MultiSeq? (Tue Aug 03 2021 - 00:11:26 CDT)
  • Re: Reduce Waterbox Dimensions Post Simulation (Mon Mar 01 2021 - 20:07:39 CST)
  • Re: CHARMM parameters for ADP-ribosylated arginine? (Tue Dec 29 2020 - 18:03:21 CST)
  • Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 20:13:58 CDT)
  • MultiSeq: STAMP fails (Thu Sep 26 2019 - 20:40:31 CDT)
  • Re: Unable to find bond parameters for NOH P4 (ATOMS 292 294) (Thu May 02 2013 - 18:50:39 CDT)
  • measure sasa (Wed Feb 29 2012 - 17:50:08 CST)
  • Implicit Ligand Sampling-molecule rotation issue (Sun Jan 08 2012 - 18:30:08 CST)
  • Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 20:58:20 CST)
  • Maximum length of an extended peptide? (Tue Nov 15 2011 - 17:53:14 CST)
  • Xenon binding site free energies (Thu Oct 27 2011 - 01:30:23 CDT)
  • RE: trajectory of water within 5 A of protein (Tue May 10 2011 - 05:47:47 CDT)
  • Re: Issues with Paratools and Gaussian (Tue Jan 11 2011 - 19:57:49 CST)
  • PMF vs distance plot from isosurface (Tue Dec 14 2010 - 22:17:48 CST)
  • ILS tool fails (Fri Jul 09 2010 - 20:25:38 CDT)
  • Script to rendering ANISOU records in VMD (Tue Jun 19 2007 - 21:22:51 CDT)
  • Compute B-factor from MD run (Fri Sep 12 2003 - 03:02:42 CDT)
  • protein/carbohydrate (Tue Sep 02 2003 - 03:07:53 CDT)
  • protein/carbohydrate (Fri Aug 08 2003 - 22:48:54 CDT)
• Aaron Taudt
  • Hotkeys don't work (Wed Mar 27 2013 - 03:50:41 CDT)
  • Use Movie Maker Plugin in Script (Wed Dec 05 2012 - 08:40:46 CST)
• Aaron.Oakley_at_csiro.au
  • RE: How to get rid of default patch for NTER and CTER (Sun Jan 18 2009 - 19:24:36 CST)
  • RE: B factor calculation (Tue Nov 04 2008 - 16:27:02 CST)
  • contour plots (Wed Jul 09 2008 - 22:50:54 CDT)
  • problem loading trajectory in VMD under windows XP (Tue Jun 10 2008 - 18:41:24 CDT)
• Aashish Bhatt
  • NAMD energy plugin reference (Mon Jun 01 2020 - 06:30:56 CDT)
  • Re: BOND distance (Sun Mar 31 2019 - 04:55:13 CDT)
  • BOND distance (Sat Mar 30 2019 - 06:23:35 CDT)
  • Vibrational spectra script (Sat Aug 04 2018 - 03:59:48 CDT)
  • IR spectral density calculation (Sun Jul 22 2018 - 12:53:34 CDT)
  • Z-axis data extraction (Thu Jun 21 2018 - 23:13:00 CDT)
  • z-direction selection (Mon Jun 18 2018 - 00:33:50 CDT)
  • Regarding RDF calculation (Fri Dec 01 2017 - 09:32:36 CST)
• AB
  • problem to render .cms file (Thu Aug 04 2011 - 02:11:34 CDT)
  • vmd 1.9 sur doesn't work (Tue Aug 02 2011 - 13:58:43 CDT)
• ABEL Stephane
  • RE:MolID error using fftk with VMD 1.94a49 on windows 10 - [Solved] (Sun Jul 18 2021 - 09:25:50 CDT)
  • RE:MolID error using fftk with VMD 1.94a49 on windows 10 (Tue Jul 13 2021 - 12:35:20 CDT)
  • TR : MolID error using fftk with VMD 1.94a49 on windows 10 (Tue Jul 13 2021 - 08:51:45 CDT)
  • RE:Building micelles (Mon Jun 14 2021 - 04:42:05 CDT)
  • RE: truncated atom types with fftk v.1.93 - Resolved (Mon Aug 27 2018 - 10:45:37 CDT)
  • truncated atom types with fftk v.1.93 (Mon Aug 27 2018 - 08:48:47 CDT)
  • RE: 1.9.4 beta version of VMD (Sun Aug 26 2018 - 10:12:23 CDT)
  • 1.9.4 beta version of VMD (Sun Aug 26 2018 - 07:43:43 CDT)
  • RE: Derivation of parameters for a ligand with a Cl atom with fftk (Tue Aug 07 2018 - 05:17:10 CDT)
  • Derivation of parameters for a ligand with a Cl atom with fftk (Mon Aug 06 2018 - 08:21:57 CDT)
  • Optimization of torsion angles with fftk, large force constant (Thu Jan 26 2017 - 03:37:43 CST)
• ABEL Stephane 175950
  • Problem with NAMD, fftk and Windows 7 64bits (Wed Aug 12 2015 - 08:17:26 CDT)
  • Questions about the optimization of a molecule with fftk (Fri Jul 24 2015 - 08:31:54 CDT)
  • RE : use gelato render with VMD 1.8.7 for movie (Fri Dec 03 2010 - 12:18:26 CST)
  • RE : Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 12:15:22 CST)
  • Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 09:51:44 CST)
  • TR : Plot a time line in the movie made with VMD (Thu Dec 02 2010 - 06:48:01 CST)
  • use gelato render with VMD 1.8.7 for movie (Thu Dec 02 2010 - 06:22:36 CST)
  • Plot a time line in the movie made with VMD (Wed Dec 01 2010 - 11:08:39 CST)
  • Time line (Tue Nov 30 2010 - 08:55:05 CST)
  • RE : plot residues without hydrogen atoms (Tue May 20 2008 - 11:11:46 CDT)
  • plot residues without hydrogen atoms (Tue May 20 2008 - 07:02:41 CDT)
  • problem with time line plugin in VMD (Fri Jan 18 2008 - 03:36:30 CST)
• Abhijit Ghosh
  • (no subject) (Thu Dec 03 2015 - 12:35:43 CST)
• Abhijit Muley
  • Re: How to find rmsd of energy minimized structure of protein (Wed Dec 03 2014 - 00:10:12 CST)
  • Re: can we delete in command line? (Wed Aug 20 2014 - 09:09:27 CDT)
• Abhik Ghosh Moulick
  • Save specific atoms from multiple frame pdb (Wed Nov 07 2018 - 01:33:10 CST)
• abhik.ghosh_at_bose.res.in
  • RMSD for specific residue (Wed Sep 05 2018 - 09:42:29 CDT)
  • Re: split multi frame pdb (Mon Jul 30 2018 - 04:14:26 CDT)
  • Re: split multi frame pdb (Mon Jul 30 2018 - 01:01:47 CDT)
  • split multi frame pdb (Mon Jul 30 2018 - 00:18:10 CDT)
  • (no subject) (Sun Jul 22 2018 - 05:16:07 CDT)
  • (no subject) (Sun Jul 22 2018 - 05:00:41 CDT)
• Abhishek Bagusetty
  • Writing Wrapped coordinates to a xyz file using TCL script (Sat Oct 24 2015 - 14:19:36 CDT)
  • Re: Installing VMD on MACOSX 10.10.4 Yosemite (Fri Aug 07 2015 - 21:21:56 CDT)
  • Installing VMD on MACOSX 10.10.4 Yosemite (Fri Aug 07 2015 - 09:36:19 CDT)
• ABHISHEK GUPTA
  • RE: How to draw a box in VMD and plot the coordinates of the system (Mon Mar 28 2016 - 00:50:24 CDT)
  • Re: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Sat Mar 19 2016 - 00:06:59 CDT)
  • Visualization problem of random Polyethylene chains in VMD. (Tue Mar 15 2016 - 01:17:07 CDT)
  • Unable to visualize my polymer chains generated using RIS theory using VMD properly (Fri Mar 11 2016 - 21:09:52 CST)
• Abhishek TYAGI
  • Re: (Mon Nov 16 2020 - 01:05:52 CST)
  • Query for coarse grain system (Thu Apr 05 2018 - 09:53:36 CDT)
  • Re: Graphics card requirement for VMD (Tue Mar 13 2018 - 07:13:06 CDT)
  • Re: ffTK (Mon Aug 14 2017 - 06:41:21 CDT)
  • Re: namd-l: Modifying the equilibrium distance for a specific region of carbon nanotube in the parameter file (Mon Dec 26 2016 - 08:59:58 CST)
  • Re: vmd installation (Thu Nov 24 2016 - 09:34:11 CST)
  • for surface area calculation (Fri Oct 14 2016 - 08:36:56 CDT)
  • Coarse Grain model for graphene (Wed May 04 2016 - 22:20:34 CDT)
  • Re: error loading dcd (Wed Mar 30 2016 - 04:14:05 CDT)
  • Re: namd-l: Including two parameters for protein-ligand simulation (Wed Oct 28 2015 - 01:59:21 CDT)
• Abi Ghanem josephine
  • Draw a circle (Fri Mar 23 2007 - 09:47:12 CDT)
• abinayar_at_imsc.res.in
  • rmsf to b-factor conversion (Wed Mar 07 2012 - 04:06:29 CST)
  • incorrect number of coordinates in .dcd file error (Tue Feb 21 2012 - 00:53:08 CST)
• Abolfazl Bayat
  • Lennard-Jones parameters of rubidium (Fri Oct 05 2012 - 10:44:19 CDT)
  • Lennard-Jones parameters (Tue Oct 02 2012 - 10:28:38 CDT)
  • DX potential files (Thu Jun 28 2012 - 04:10:23 CDT)
  • computing potential using pmepot (Mon Jun 25 2012 - 11:16:49 CDT)
  • PMEpot plugin (Tue Jun 19 2012 - 11:43:42 CDT)
• Abolfazl Musavi
  • Re: how to draw boxes with semi-transparent sides (Wed Jun 05 2019 - 11:46:01 CDT)
  • Re: how to draw boxes with semi-transparent sides (Sun Jun 02 2019 - 18:47:26 CDT)
  • how to draw boxes with semi-transparent sides (Sat Jun 01 2019 - 21:58:10 CDT)
  • Re: how to change material and color of an atom selection in TkConsole (Thu Nov 08 2018 - 19:16:41 CST)
  • how to change material and color of an atom selection in TkConsole (Thu Nov 08 2018 - 16:11:17 CST)
• Abramyan, Tigran
  • Clustering algorithm (Fri Sep 02 2016 - 12:27:59 CDT)
• Abu Naser
  • Building zeolite cage (Fri Nov 28 2014 - 07:08:00 CST)
  • movie (Sun Nov 09 2008 - 11:06:20 CST)
  • pick atom id script (Fri Jul 11 2008 - 06:07:05 CDT)
  • RE: (Thu Jul 10 2008 - 11:23:19 CDT)
  • (no subject) (Thu Jul 10 2008 - 10:43:17 CDT)
• accomp lin
  • atom name can not exceed four characters in pdb and psf? (Mon Jun 29 2009 - 21:59:36 CDT)
  • Can bonds radius be controlled by tcl command? (Wed May 13 2009 - 03:54:47 CDT)
  • Re: installed plugin won't show up next time (Fri Apr 24 2009 - 04:59:22 CDT)
  • installed plugin won't show up next time (Thu Apr 23 2009 - 06:58:38 CDT)
  • How to use " segment " in tcl script. (Wed Mar 11 2009 - 01:31:13 CDT)
• accutone_at_atlsky.com
  • 99 Toyotas as low as 2% over invoice (Sat Sep 05 1998 - 19:10:53 CDT)
• Achar, Sid
  • Steered Molecular Dynamics for Metal-organic frameworks (Mon Mar 09 2020 - 11:15:14 CDT)
• achchirangeebi
  • Vmd uninstallation and reinstallation (Sat Oct 03 2020 - 05:23:49 CDT)
• Ackad, Edward
  • Re: keeping two ligands in a box (Mon Jul 24 2023 - 08:06:19 CDT)
  • Re: keeping two ligands in a box (Sun Jul 23 2023 - 07:55:48 CDT)
  • keeping two ligands in a box (Sat Jul 22 2023 - 09:00:19 CDT)
  • Re: Period images not appearing (Mon Sep 26 2022 - 14:38:12 CDT)
  • Period images not appearing (Fri Sep 23 2022 - 13:29:45 CDT)
  • Re: measure sasa and memory issue (Mon May 23 2022 - 08:47:00 CDT)
  • measure sasa and memory issue (Sun May 22 2022 - 10:54:55 CDT)
  • Re: Using namdEnergy from an external python script (Thu Jan 16 2020 - 10:05:10 CST)
  • Using namdEnergy from an external python script (Wed Jan 15 2020 - 13:23:09 CST)
• Ada Zhan
  • Timeline plugin (Thu Aug 11 2011 - 19:12:01 CDT)
  • RE: ParseFEP_domain error (Tue Apr 26 2011 - 15:02:24 CDT)
  • RE: RE: New NAMD version 2011-03-03 uses (Fri Apr 22 2011 - 16:04:52 CDT)
  • ParseFEP_domain error (Fri Apr 22 2011 - 14:50:57 CDT)
  • RE: New NAMD version 2011-03-03 uses (Fri Apr 22 2011 - 13:35:30 CDT)
• Adam Brenner
  • Re: VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 20:27:25 CST)
  • Re: VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 20:17:43 CST)
  • VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 19:32:00 CST)
• Adam Goler
  • Re: Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 11:18:10 CDT)
  • manually generate PSF for small molecules (Wed Apr 09 2014 - 20:04:56 CDT)
  • Re: Writing DCD from modified coordinates (Sat Mar 22 2014 - 14:08:10 CDT)
  • Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 18:08:49 CDT)
  • Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 12:21:16 CDT)
  • Writing DCD from modified coordinates (Thu Mar 20 2014 - 23:59:33 CDT)
  • Re: removing water from dcd file (Tue Mar 18 2014 - 09:09:38 CDT)
  • Re: radial pair distribution function (Wed Mar 12 2014 - 13:02:04 CDT)
  • Re: radial pair distribution function (Tue Mar 11 2014 - 23:55:56 CDT)
  • radial pair distribution function (Tue Mar 11 2014 - 20:03:55 CDT)
• Adam Gross
  • Re: Problem w/ DCD Title Block When Saving - Using 'Animate Write' vs Saving Via GUI (Tue Mar 08 2022 - 13:13:32 CST)
  • Problem w/ DCD Title Block When Saving - Using 'Animate Write' vs Saving Via GUI (Tue Mar 08 2022 - 11:39:05 CST)
• Adam Kells
  • Combining PDB/PSF of Protein and CNT (Wed Jul 02 2014 - 04:15:55 CDT)
• Adam Kraut
  • Render surface colored by electrostatic potential (Tue Oct 28 2008 - 13:27:52 CDT)
• Adam Kubach
  • docking (Wed Sep 29 2004 - 20:20:38 CDT)
  • Phantom and VMD (Mon Sep 20 2004 - 15:18:18 CDT)
• Adam Marcus
  • Copying a selection (Mon Mar 22 2004 - 01:04:29 CST)
• Adam MatÄ›j
  • VMD 1.9.4 crash on MacOS (Thu Sep 05 2019 - 02:55:20 CDT)
• Adelene Sim
  • Plotting Number of Hbonds and % Helicity with Time (Sat Nov 11 2006 - 18:11:22 CST)
• Adelman, Joshua Lev
  • Re: Counting water transition through a channel (Thu Mar 19 2015 - 08:29:51 CDT)
• adil mughal
  • Re: run_vmd_tmp: Permission denied (Thu Apr 22 2010 - 11:38:37 CDT)
  • run_vmd_tmp: Permission denied (Tue Apr 20 2010 - 10:37:09 CDT)
• Adilah Hussien
  • Tracking bond length changes in a simulation (Tue Jun 19 2007 - 04:33:22 CDT)
• Aditi Gotkhindikar
  • Fwd: pbc wrap issue (Tue Jan 25 2022 - 00:11:51 CST)
  • pbc wrap issue (Sun Jan 23 2022 - 23:55:55 CST)
  • Fwd: issue with protein- ligand psfgen (Mon Dec 27 2021 - 22:33:03 CST)
  • issue with protein- ligand psfgen (Mon Dec 27 2021 - 05:39:04 CST)
• Aditya Padhi
  • Zinc ion visualization from Amber trajectory (Tue Oct 25 2016 - 19:44:12 CDT)
  • Linking 4 proteins (Thu Jul 21 2016 - 22:49:35 CDT)
  • Query on GPI-anchor proteins (Tue Jun 16 2015 - 14:03:15 CDT)
  • Query on introducing a protein (Tue Feb 04 2014 - 23:12:10 CST)
  • Hydrogen bond energy calculation (Wed May 23 2012 - 22:56:10 CDT)
  • H-bond distance measurement (Tue Nov 01 2011 - 03:53:57 CDT)
  • SASA calculation (Mon May 09 2011 - 05:26:36 CDT)
• Adkins, Laura R
  • RE: Atom ID/Color change with timesteps (Thu May 12 2011 - 16:04:26 CDT)
  • Atom ID/Color change with timesteps (Wed May 11 2011 - 19:17:05 CDT)
• Adrain Koh
  • Apologies (Wed Nov 10 2004 - 04:12:55 CST)
  • Conversion of trajectory files (Tue Nov 09 2004 - 21:43:52 CST)
  • Re: Converting .txt trajectory files to VMD compatible format (Tue Nov 09 2004 - 21:40:18 CST)
  • Converting .txt trajectory files to VMD compatible format (Fri Nov 05 2004 - 04:43:40 CST)
• Adrian E. Roitberg
  • pdb naming convention (Wed Apr 17 2002 - 07:59:32 CDT)
  • Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 07:22:32 CST)
  • immersadesk (Tue Apr 16 2002 - 09:06:25 CDT)
• Adrian Jasiñski
  • python simple script (Fri Dec 21 2012 - 04:52:41 CST)
  • paratool CHARMM style charges (Tue Dec 27 2011 - 08:24:49 CST)
• Adrian Kaats
  • Re: How to see the original Origin (0,0,0, coordinate) of a system (Thu Mar 27 2008 - 15:56:52 CDT)
  • Re: Loading a PDB file with different atom counts in models (Tue Mar 25 2008 - 07:41:38 CDT)
  • Loading a PDB file with different atom counts in models (Fri Mar 21 2008 - 09:19:35 CDT)
  • atomselect protein (Thu Mar 20 2008 - 16:39:54 CDT)
  • ion 'channel axis' (Wed Mar 28 2007 - 15:55:17 CDT)
  • OmpF biological unit (Thu Mar 15 2007 - 18:58:17 CDT)
  • Re: Displaying biological unit revisited (Thu Nov 02 2006 - 14:23:41 CST)
  • Displaying biological unit revisited (Tue Oct 31 2006 - 12:22:19 CST)
• Adrian Koh
  • RE: Displaying Counter alongside animation (Mon Feb 11 2008 - 03:08:44 CST)
  • Displaying Counter Alongside Animation (Tue Feb 05 2008 - 00:20:36 CST)
  • Assigning Color Codes for stress/force in .xyz trajectory files (Fri Feb 09 2007 - 00:08:26 CST)
  • Re: VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 (Thu Nov 23 2006 - 23:31:49 CST)
  • VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 (Thu Nov 23 2006 - 22:07:27 CST)
  • Installing VMD Windows version on 64-bit Windows Environment (Tue Nov 21 2006 - 21:30:01 CST)
  • Re: Altering Definition of Molecular Coloring Method (Mon Jul 31 2006 - 23:18:19 CDT)
  • Altering Definition of Molecular Coloring Method (Mon Jul 31 2006 - 05:08:56 CDT)
  • Movie Maker in VMD (Wed Jul 05 2006 - 04:30:49 CDT)
  • Re: Renaming Molecule Names in existing .xyz trajectory files (Tue Jul 04 2006 - 23:07:57 CDT)
  • Renaming Molecule Names in existing .xyz trajectory files (Tue Jul 04 2006 - 01:44:28 CDT)
  • Changing Graphical Representations (Wed Jan 25 2006 - 00:15:54 CST)
  • Adding New Color Definitions to Color Form (Tue Jan 24 2006 - 03:08:48 CST)
  • Changing Default Settings for VMD Main Window (Thu Jan 19 2006 - 05:08:23 CST)
  • Error Encountered in making vmdmovie (Tue May 03 2005 - 02:42:00 CDT)
  • Re: Customizing VMD Sessions (Thu Apr 14 2005 - 06:03:41 CDT)
  • Customizing VMD Sessions (Thu Apr 14 2005 - 02:49:19 CDT)
  • Defining Bonds in .xyz file format (Wed Feb 16 2005 - 02:29:09 CST)
• Adrian Roitberg
  • align axes (Wed Jun 22 2011 - 14:17:50 CDT)
  • CMYK (Tue Oct 30 2007 - 16:08:37 CDT)
  • RNA (Mon May 14 2007 - 14:25:03 CDT)
  • vmd/gaussian cubes (Fri Mar 02 2007 - 10:11:08 CST)
  • question about rotations (Fri Feb 09 2007 - 08:33:34 CST)
  • Volume Slice (Wed Jan 31 2007 - 15:07:45 CST)
  • Re: visualising protein dynamics (Wed Jun 22 2005 - 16:57:47 CDT)
• Adrian turjanski
  • Clip (Wed Sep 28 2005 - 20:49:04 CDT)
  • X error (Sun Sep 04 2005 - 16:00:59 CDT)
  • Problems with VMD in Federa 4 (x86_64) (Sat Aug 27 2005 - 17:22:00 CDT)
• Adriano Santana Sanchez
  • h-bond water molecules (Sat Aug 18 2018 - 08:54:38 CDT)
• Adupa Vasista
  • Re: Unable to open TkConsole, Possible bug! (Wed Oct 14 2020 - 09:27:24 CDT)
  • Unable to open TkConsole, Possible bug! (Wed Oct 14 2020 - 01:51:21 CDT)
  • Re: TCL force script (Thu Oct 01 2020 - 02:57:45 CDT)
  • Re: high quality videos (Wed Sep 30 2020 - 11:45:08 CDT)
  • Re: Fwd: N-glycosylation in AutoPSF (Sun Aug 30 2020 - 02:20:32 CDT)
  • Fwd: N-glycosylation in AutoPSF (Sat Aug 29 2020 - 03:21:23 CDT)
  • Re: VMD on HPC (Wed Jul 01 2020 - 04:06:33 CDT)
  • VMD on HPC (Wed Jul 01 2020 - 00:00:28 CDT)
  • Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 09:44:21 CDT)
  • Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 08:24:27 CDT)
  • Re: namd-l: Pair interaction calculation is not supported in CUDA version (Sun Mar 15 2020 - 23:48:52 CDT)
  • Pair interaction calculation is not supported in CUDA version (Sun Mar 15 2020 - 12:10:53 CDT)
  • Re: How to increase the number of core (Tue Feb 25 2020 - 23:28:13 CST)
  • Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 11:43:16 CST)
  • Re: [EXT] Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 11:29:49 CST)
  • Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 10:59:21 CST)
  • atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 09:32:22 CST)
  • Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 09:34:57 CST)
  • Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 08:24:27 CST)
  • Re: could not read file no atoms found error (Thu Jan 23 2020 - 04:51:21 CST)
  • Re: Using namdEnergy from an external python script (Wed Jan 15 2020 - 23:08:49 CST)
  • Re: PBC wrap deleting PBC boundaries during wrapping (Wed Jan 08 2020 - 04:41:12 CST)
  • Re: Reg: RMSF (Wed Nov 13 2019 - 02:40:29 CST)
  • Reg: RMSF (Tue Nov 05 2019 - 10:25:13 CST)
  • Re: query on how to allow the protein to interact with the water molecules (Mon Oct 07 2019 - 02:26:32 CDT)
  • Re: (Sun Jul 14 2019 - 04:31:25 CDT)
  • Fwd: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Wed Jul 10 2019 - 10:32:16 CDT)
  • Re: Getting the topology,PSF files (Sun Jul 07 2019 - 08:38:25 CDT)
  • AutoPSF charge generation (Sat Jul 06 2019 - 04:28:55 CDT)
  • Re: Getting the topology,PSF files (Fri Jul 05 2019 - 08:23:33 CDT)
  • Getting the topology,PSF files (Thu Jul 04 2019 - 14:54:25 CDT)
• Afnan Sultan
  • Re: Unequal atoms size (Wed Jul 26 2017 - 03:08:01 CDT)
• Afroditi Maria Zaki
  • Graphics card suitable for VMD (Fri Oct 31 2014 - 09:46:10 CDT)
• Agarwal, Silvi
  • IR Spectra plugin (Wed Sep 29 2010 - 10:59:59 CDT)
• Agarwal, Silvi
  • RE: pbc in water count (Sat Mar 06 2010 - 11:52:55 CST)
  • pbc in water count (Thu Mar 04 2010 - 12:07:37 CST)
• Agnieszka Sobkiewicz
  • input file (Mon Aug 09 2010 - 06:41:18 CDT)
• agustina_at_cabm.rutgers.edu
  • waters selection (Mon Apr 18 2011 - 15:49:09 CDT)
• Ahmad Alqaisi
  • Changing color scale bar location in VMD (Fri Mar 25 2022 - 20:30:06 CDT)
  • Question about error while using QwikMD files (Fri Dec 24 2021 - 15:25:30 CST)
  • Question about error while using QwikMD files (Mon May 10 2021 - 03:12:25 CDT)
• Ahmed Nawar
  • freevr tool transformation (Thu Jan 03 2008 - 00:28:31 CST)
  • FreeVR wand (Tue Dec 04 2007 - 03:42:13 CST)
  • Re: cave (Tue Nov 27 2007 - 01:00:42 CST)
  • cave (Mon Nov 26 2007 - 06:12:41 CST)
  • RE: Suspected SpamFR:RE: cave (Mon Nov 26 2007 - 00:54:23 CST)
  • RE: cave (Sun Nov 25 2007 - 09:06:37 CST)
  • cave (Thu Nov 22 2007 - 06:09:24 CST)
• ahmed sengab
  • Atom ID Change (Mon Apr 11 2016 - 12:45:41 CDT)
• Ahmet Bakan
  • Re: windows usage question (Wed Nov 20 2013 - 10:14:41 CST)
  • Re: performing PCA in VMD (Wed May 15 2013 - 16:08:17 CDT)
  • Re: performing PCA in VMD (Wed May 15 2013 - 09:24:15 CDT)
  • Re: Disable display resetview (Thu Apr 04 2013 - 08:38:56 CDT)
  • Re: Problem with generating psf using CGENFF (Fri Apr 27 2012 - 11:27:08 CDT)
  • Bug in VMD main? (Sat Mar 03 2012 - 12:25:05 CST)
  • Re: movie out of principal component analysis (Wed Nov 23 2011 - 21:27:45 CST)
  • NMWiz - a new VMD plugin (Tue Apr 12 2011 - 11:51:36 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:38:57 CDT)
  • Re: Representation problem (Thu Oct 15 2009 - 12:16:26 CDT)
  • Re: Representation problem (Tue Sep 29 2009 - 09:42:41 CDT)
  • Representation problem (Mon Sep 28 2009 - 16:22:36 CDT)
  • RE: Counting number of hydrogen bonds in the representation (Wed Sep 15 2004 - 07:44:29 CDT)
  • RE: Counting number of hydrogen bonds in the representation (Wed Sep 15 2004 - 03:39:56 CDT)
  • Euro QSAR 2004 (Sun Sep 05 2004 - 15:42:27 CDT)
  • RE: namd-l: cff91 force field in namd + A Question (Wed Aug 25 2004 - 10:53:59 CDT)
  • How to enable Python on Windows XP (Fri Jul 30 2004 - 16:30:09 CDT)
  • Average coordinates (Thu Jun 24 2004 - 13:51:12 CDT)
  • RE: Torsional Angles (Mon May 31 2004 - 15:54:52 CDT)
  • RE: Torsional Angles (Sun May 30 2004 - 19:41:49 CDT)
  • Torsional Angles (Wed May 26 2004 - 13:52:53 CDT)
  • RE: measuring distances in vmd tkon (Thu May 06 2004 - 17:45:21 CDT)
  • RE: Selection problem on TkCon (Tue May 04 2004 - 18:57:39 CDT)
  • RE: Selection problem on TkCon (Tue May 04 2004 - 06:47:55 CDT)
  • RE: Selection problem on TkCon (Mon May 03 2004 - 13:42:43 CDT)
  • RE: Selection problem on TkCon (Mon May 03 2004 - 05:56:25 CDT)
  • Selection problem on TkCon (Sun May 02 2004 - 19:55:43 CDT)
  • RE: MOE discussion (Wed Apr 28 2004 - 17:26:07 CDT)
  • TCL string operation (Sat Apr 03 2004 - 07:48:40 CST)
  • Sine Cosine (Sat Mar 13 2004 - 18:06:04 CST)
  • RE: Rotatind a chain (some further Qs) (Fri Mar 12 2004 - 13:43:41 CST)
  • Rotatind a chainn (Fri Mar 12 2004 - 08:59:09 CST)
• Ahmet yýldýrým
  • Re: APBS Output file missing or unreadable (Fri Nov 08 2013 - 14:31:42 CST)
  • Re: APBS Output file missing or unreadable (Thu Nov 07 2013 - 07:33:26 CST)
  • Re: APBS Output file missing or unreadable (Thu Nov 07 2013 - 03:11:40 CST)
  • APBS Output file missing or unreadable (Wed Nov 06 2013 - 07:05:09 CST)
  • APBS electrostatics: Output file missing or unreadable. (Wed Nov 06 2013 - 05:57:40 CST)
  • gromacs trajectory file (Thu May 03 2012 - 01:49:13 CDT)
  • removing all water molecules (Thu Jan 27 2011 - 06:51:34 CST)
• ailong
  • antialiasing problem (Thu Nov 20 2003 - 12:54:22 CST)
• Aishwarya Smriti
  • Re: Error in merging two PDB files (Mon Sep 18 2017 - 10:23:36 CDT)
  • Error in merging two PDB files (Sun Sep 17 2017 - 04:05:44 CDT)
  • Error in merging two PDB files (Sat Sep 16 2017 - 05:19:34 CDT)
• Aiswarya
  • Error while calculating rotational angle (Thu Oct 09 2014 - 13:32:55 CDT)
• Aiswarya Pawar
  • Re: mapping values on protein structure (Fri Apr 24 2020 - 11:23:53 CDT)
  • Re: mapping values on protein structure (Fri Apr 24 2020 - 02:47:37 CDT)
  • mapping values on protein structure (Fri Apr 24 2020 - 00:44:24 CDT)
  • Re: Error while calculating rotational angle (Thu Oct 09 2014 - 22:51:41 CDT)
  • radial pair distribution problems (Wed Sep 21 2011 - 01:27:50 CDT)
  • calculate the solvent molecule within a cut off from protein (Thu Sep 15 2011 - 05:36:25 CDT)
• Aitor Gonzalez
  • Re: bond length definition (Wed Apr 25 2001 - 04:41:32 CDT)
  • Re: animation and reps (Mon Apr 09 2001 - 08:17:52 CDT)
  • python vmd interface (Thu Mar 29 2001 - 08:57:32 CST)
  • Re: python loop (Fri Mar 16 2001 - 12:39:34 CST)
  • python loop (Fri Mar 16 2001 - 04:40:38 CST)
  • Re: switching off the location axes (Fri Mar 09 2001 - 03:10:03 CST)
  • switching off the location axes (Fri Mar 09 2001 - 02:48:53 CST)
  • Re: making a movie with a serie of pdb's (Fri Dec 08 2000 - 05:26:00 CST)
  • making a movie with a serie of pdb's (Thu Dec 07 2000 - 06:51:07 CST)
• aizoon_at_gmx.net
  • Arbitrary values of isosurface (Mon Oct 19 2009 - 06:25:32 CDT)
• Ajasja LjubetiÄ�
  • Re: Question (Tue Apr 16 2019 - 00:00:41 CDT)
  • Re: namd-l: Strange Bond Behavior Question (Sat Jun 23 2018 - 04:54:04 CDT)
  • Re: Unable to load molecule (Fri May 04 2018 - 03:05:11 CDT)
  • Re: CellPack (Fri May 04 2018 - 03:17:20 CDT)
  • Re: Unable to load molecule (Thu May 03 2018 - 08:38:53 CDT)
  • Re: Unable to load molecule (Thu May 03 2018 - 06:31:23 CDT)
  • Re: MultiSeq conflicting with DYLD_LYBRARY_PATH (Thu Jan 18 2018 - 06:12:12 CST)
  • Re: Loading multiple dcd files crashes VMD (Thu Jan 11 2018 - 08:17:22 CST)
  • Re: removing rotation in trajectories (Wed Dec 20 2017 - 10:29:56 CST)
  • Re: install VMD IN parallel (Fri Sep 01 2017 - 06:34:59 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 14:43:31 CDT)
  • Re: CG builder in script (Wed Jun 14 2017 - 04:42:40 CDT)
  • Re: (Wed Apr 05 2017 - 10:06:54 CDT)
  • Re: How to extract data from log file (Thu Mar 30 2017 - 02:54:05 CDT)
  • Re: Using variables inside Atomselect (Tue Feb 07 2017 - 08:35:38 CST)
  • Re: reading big xtc file (Fri Jan 06 2017 - 02:14:07 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 08:50:20 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:29:58 CST)
  • Re: Atom selections for measure - index sorting (Thu Dec 15 2016 - 02:31:16 CST)
  • Re: MD movie making of fluent movements (Fri Nov 04 2016 - 05:54:32 CDT)
  • Re: Size of POPC membrane (Fri Oct 07 2016 - 04:49:36 CDT)
  • Re: Script runs slow afterwards (Thu Aug 04 2016 - 03:31:05 CDT)
  • Re: System requirement for MD 10ns (Tue Jun 28 2016 - 07:57:07 CDT)
  • Re: GPU acceleration on tachyon rendering (Fri Jun 24 2016 - 06:52:47 CDT)
  • Re: radius of gyration autocorrelation function (Tue Jun 07 2016 - 17:08:46 CDT)
  • Re: Wrapping problem (Mon May 30 2016 - 03:11:25 CDT)
  • Wrapping problem (Fri May 27 2016 - 11:10:05 CDT)
  • Re: error loading dcd (Wed Mar 30 2016 - 02:45:46 CDT)
  • Re: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 06:04:25 CDT)
  • Re: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 05:26:44 CDT)
  • Re: default drawing style (Tue Mar 15 2016 - 08:59:58 CDT)
  • Re: Not all frames loaded (Tue Mar 01 2016 - 05:02:32 CST)
  • Re: tcl command to write amber format files (Wed Jan 27 2016 - 03:28:24 CST)
  • Re: Unable to access config file (Fri Dec 11 2015 - 11:24:18 CST)
  • Re: Unable to access config file (Fri Dec 11 2015 - 02:31:41 CST)
  • Re: fitting a line to 3D data points (Thu Nov 26 2015 - 02:41:44 CST)
  • Re: gromacs to charmm conversion (Fri Oct 23 2015 - 03:28:28 CDT)
  • Re: Align only translation not rotation (Tue Sep 15 2015 - 03:20:41 CDT)
  • Re: Namd Plot Plugin (Thu Aug 20 2015 - 10:37:12 CDT)
  • Re: .mdcrd to .trr conversion problem (Wed Aug 05 2015 - 03:35:46 CDT)
  • Re: 64 bit windows VMD (Mon Jul 27 2015 - 15:22:07 CDT)
  • Re: How to super impose NMR structures (Wed May 20 2015 - 02:21:42 CDT)
  • Re: (Fri Mar 27 2015 - 12:38:49 CDT)
  • Re: Running VMD in user folder on Windows (bug fix?) (Wed Mar 25 2015 - 05:03:52 CDT)
  • Re: namd-l: velocity IO with psfgen? (Thu Feb 26 2015 - 10:37:55 CST)
  • Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 07:56:14 CST)
  • Re: query about the force field toolkit (Tue Dec 02 2014 - 03:58:11 CST)
  • Re: A box of amino acids (Mon Nov 24 2014 - 10:54:04 CST)
  • Re: (Tue Nov 18 2014 - 08:24:59 CST)
  • Re: Query about the NAMD user forum (Wed Nov 12 2014 - 04:12:23 CST)
  • Re: removing water inside the nanotube (Wed Oct 29 2014 - 05:07:28 CDT)
  • Re: removing water inside the nanotube (Tue Oct 28 2014 - 11:54:41 CDT)
  • Re: Reg: Peptide dimer (Wed Oct 01 2014 - 04:45:43 CDT)
  • Re: vmd in windows 8 (64bite) (Tue Sep 09 2014 - 13:36:57 CDT)
  • Re: averaged structure (Tue Aug 12 2014 - 12:21:28 CDT)
  • Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 14:59:45 CDT)
  • Re: Combining PDB/PSF of Protein and CNT (Wed Jul 02 2014 - 07:03:26 CDT)
  • Re: running a C code in VMD (Thu Jun 26 2014 - 05:25:30 CDT)
  • Re: any way to rotate and translate with mouse without changing modes? (Tue Jun 24 2014 - 15:37:39 CDT)
  • Re: surface charge calculations (Fri Apr 25 2014 - 15:55:48 CDT)
  • Re: selection manager (Tue Apr 22 2014 - 06:38:16 CDT)
  • Re: Matal binding protein prediction 3d (Tue Apr 15 2014 - 05:22:11 CDT)
  • Re: selecting every nth residue in a protein (Thu Mar 27 2014 - 18:20:55 CDT)
  • Re: cant find output file from tachyon render. (Thu Mar 27 2014 - 15:41:47 CDT)
  • Re: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 14:58:37 CST)
  • Re: VMD crash on large DCD files. (Thu Jan 30 2014 - 03:34:27 CST)
  • Re: Surface Area Calculation (Tue Jan 07 2014 - 14:04:19 CST)
  • Re: loading pdb files from multiple directories (Fri Nov 29 2013 - 06:39:48 CST)
  • Re: genetaring psf file for HEME ( hemoglobin) (Tue Nov 05 2013 - 04:30:53 CST)
  • Re: Creating very large solvation boxes (Thu Oct 03 2013 - 09:06:37 CDT)
  • Re: Center a trajectory (Tue Jul 16 2013 - 11:27:16 CDT)
  • Re: Center a trajectory (Tue Jul 16 2013 - 10:57:40 CDT)
  • Re: autoionization error in VMD (Fri Jul 12 2013 - 04:53:34 CDT)
  • Re: auto ionise error (Tue Jul 09 2013 - 14:25:25 CDT)
  • Re: center of mass (Fri Jul 05 2013 - 13:18:19 CDT)
  • Re: VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 16:22:47 CDT)
  • Re: VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 14:29:06 CDT)
  • Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 09 2013 - 12:22:56 CDT)
  • Re: VMD 1.9.1 for 64-bit Windows (Wed Mar 20 2013 - 08:12:34 CDT)
  • Re: Problem related to the save trajectory (Mon Feb 18 2013 - 01:46:49 CST)
  • Head Tracking for Desktop VR Displays using the WiiRemote and VMD (Thu Feb 07 2013 - 15:48:00 CST)
  • Re: How to calculate the Hydrogen bond strengh (Tue Nov 20 2012 - 07:05:53 CST)
  • Re: Solvating protein in water sucrose solution (Tue Nov 06 2012 - 13:39:07 CST)
  • Re: tutorial (Tue Sep 11 2012 - 04:54:37 CDT)
  • Re: Scripting API: are arguments to representation types documented somewhere? (Mon Aug 20 2012 - 07:34:55 CDT)
  • Re: Getting the internal coordinates table (Tue Jun 19 2012 - 04:06:50 CDT)
  • Getting the internal coordinates table (Mon Jun 18 2012 - 04:11:03 CDT)
  • Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Thu Jun 14 2012 - 08:29:40 CDT)
  • Re: Using psfgen with long atom names (How to prepare PDB file?) (Wed Jun 13 2012 - 05:41:27 CDT)
  • Using psfgen with long atom names (How to prepare PDB file?) (Wed Jun 13 2012 - 05:33:27 CDT)
  • Re: cg_bonds.tcl (Sat May 19 2012 - 15:07:20 CDT)
  • Re: how to calculate PBC box volume in VMD? (Thu May 17 2012 - 02:25:15 CDT)
  • Re: lib/stride/README (Tue Mar 20 2012 - 02:39:29 CDT)
  • Re: Memory used by VMD is much less than installed (Wed Mar 07 2012 - 07:11:22 CST)
  • Re: Adsorption VMD Tcl script error (Wed Feb 29 2012 - 16:09:59 CST)
  • Re: incorrect number of coordinates in .dcd file error (Tue Feb 21 2012 - 02:17:37 CST)
  • Re: Stand-alone VMD ? (Fri Feb 10 2012 - 07:29:36 CST)
  • Re: how to display the full molecule when use "within" option? (Fri Feb 03 2012 - 06:21:29 CST)
  • Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Tue Jan 31 2012 - 08:32:01 CST)
  • Re: how to enlarge the menu font? (Fri Jan 27 2012 - 01:29:11 CST)
  • Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 07:06:28 CST)
  • Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 03:04:29 CST)
  • Re: script to modify cysteines with spinlabel (Tue Jan 24 2012 - 13:35:22 CST)
  • Re: is it possible to hide ONLY non-polar hydrogens? (Fri Jan 20 2012 - 04:49:36 CST)
  • Re: New "surf" calculations in VMD 1.9.1 beta (Wed Jan 18 2012 - 07:17:32 CST)
  • Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 12:40:13 CST)
  • Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 13:52:28 CST)
  • Re: vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 05:28:06 CST)
  • vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 05:08:18 CST)
  • Re: Tachyon render problem (Fri Dec 09 2011 - 08:22:26 CST)
  • Re: Coloring particular atom with particular index (Wed Dec 07 2011 - 12:57:42 CST)
  • Re: average structure script (Fri Nov 25 2011 - 11:09:59 CST)
  • Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 05:05:32 CST)
  • Re: VMD slows down at multiple windows (Tue Nov 15 2011 - 03:08:28 CST)
  • Re: Secondary structure elements in VMD (Sat Nov 05 2011 - 03:00:01 CDT)
  • Re: find avgstruct (Fri Nov 04 2011 - 06:03:16 CDT)
  • Re: radius of gyration (Wed Nov 02 2011 - 16:14:59 CDT)
  • Re: Locked files in Windows 7 (Thu Sep 22 2011 - 07:17:55 CDT)
  • Re: Problem with measuring dihedrals (Tue Sep 20 2011 - 04:54:54 CDT)
  • Re: how to rename a representation in vmd (Wed Aug 17 2011 - 05:11:31 CDT)
  • Re: a file for commands of console (Sat Jul 30 2011 - 09:40:23 CDT)
  • Re: creating chiral molecules (Thu Jul 28 2011 - 05:09:29 CDT)
  • Re: Understand a script (Tue Jul 26 2011 - 03:54:58 CDT)
  • Re: loading saved state from command line (Tue Jul 26 2011 - 01:47:56 CDT)
  • Re: Mutating a residue to a nonstandard amino acid (Wed Jul 20 2011 - 16:57:49 CDT)
  • Re: script (Tue Jul 12 2011 - 13:01:26 CDT)
  • Re: script (Tue Jul 12 2011 - 12:08:12 CDT)
  • Does this work with VMD: Nvidia 3DVision Glasses + SyncMaster 2233RZ + GTX 580 + Win7? (Sat Jul 09 2011 - 17:06:19 CDT)
  • Re: Changing representations on a per-atom per-timestep basis (Tue Jun 28 2011 - 12:48:11 CDT)
  • Re: Molefacture: creating model helices (Mon Jun 27 2011 - 07:10:23 CDT)
  • Re: protein-water RDF (Mon Jun 27 2011 - 03:05:03 CDT)
  • Re: invisible files in windows (Thu Jun 16 2011 - 02:27:34 CDT)
  • Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Tue Jun 07 2011 - 09:02:10 CDT)
  • Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Tue Jun 07 2011 - 09:07:08 CDT)
  • Re: Tachyon post-render commands under Win-XP (Mon Jun 06 2011 - 09:32:09 CDT)
  • Re: use variable in atomselect (Sat May 28 2011 - 02:24:03 CDT)
  • Re: use variable in atomselect (Fri May 27 2011 - 16:28:34 CDT)
  • Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 05:57:10 CDT)
  • Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 12:22:00 CDT)
  • Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 09:48:15 CDT)
  • Re: problem in overlapping atoms (Sun May 22 2011 - 05:52:14 CDT)
  • Re: Displaying protein AND ligand from an amber trajectory (Fri May 20 2011 - 09:11:24 CDT)
  • Re: hi to all (Tue May 17 2011 - 12:27:50 CDT)
  • Re: PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 07:04:26 CDT)
  • Re: Save molecule in pdb format (Sat Apr 30 2011 - 02:29:35 CDT)
  • Re: Generate a PSF file for small, simple molecules (Fri Apr 01 2011 - 02:15:51 CDT)
  • Re: measure dipole (Wed Mar 30 2011 - 09:16:21 CDT)
  • Re: phi-psi plot (Mon Mar 28 2011 - 08:08:32 CDT)
  • Re: size of box (Mon Mar 28 2011 - 02:50:18 CDT)
  • Re: Problem with using bigdcd.tcl (Mon Mar 21 2011 - 03:36:15 CDT)
  • Re: script for projection of c-alpha atom cordinates on xy plane (Fri Mar 18 2011 - 15:23:12 CDT)
  • Re: to block the information appearing during the run (Thu Mar 17 2011 - 08:16:14 CDT)
  • Re: tcl script (Fri Mar 11 2011 - 10:17:15 CST)
  • VMD beta3 windows installer (Wed Mar 09 2011 - 08:21:46 CST)
  • Re: how to make default background color to white (Tue Mar 08 2011 - 10:29:54 CST)
  • Re: Compiling on Windows (Fri Feb 18 2011 - 11:07:59 CST)
  • Re: Compiling on Windows (Fri Feb 18 2011 - 04:03:41 CST)
  • Re: PBC & Solvate Tool in VMD (Wed Feb 16 2011 - 03:20:25 CST)
  • Re: bring z-axis along a new vector (Wed Feb 16 2011 - 03:00:01 CST)
  • Re: Side-chain Dihedrals (Tue Feb 01 2011 - 16:13:36 CST)
  • Re: Side-chain Dihedrals (Tue Feb 01 2011 - 14:46:23 CST)
  • Re: Re: Trouble rendering tranparent atoms with Tachyon (Sat Jan 29 2011 - 06:42:06 CST)
  • Re: removing all water molecules (Thu Jan 27 2011 - 07:37:57 CST)
  • Re: Where can I download VMD alpha version (Sat Jan 15 2011 - 11:05:34 CST)
  • Re: problem in extracting frame number (Thu Jan 13 2011 - 15:46:48 CST)
  • Re: selection of amino acids with certain distance each others (Sun Dec 19 2010 - 14:07:03 CST)
  • Re: delete water molecules (Fri Dec 17 2010 - 08:29:52 CST)
  • Re: load of information on B factor as independent file (Tue Dec 14 2010 - 02:38:42 CST)
  • Re: apocynin/1k4u (Tue Dec 07 2010 - 10:31:25 CST)
  • Re: generating lipid membrane psf file (Sat Dec 04 2010 - 14:57:11 CST)
  • Re: print numerical values in a Ramachandran plot (Wed Dec 01 2010 - 01:54:32 CST)
  • Re: VASP crystal structure visualisation (Thu Nov 25 2010 - 14:57:13 CST)
  • Re: VASP crystal structure visualisation (Thu Nov 25 2010 - 14:14:58 CST)
  • Re: atom selection in vmd (Wed Nov 17 2010 - 10:25:55 CST)
  • Re: Headtracking software (Tue Nov 16 2010 - 09:00:27 CST)
  • Re: dynamic atom selection (Tue Nov 09 2010 - 08:06:58 CST)
  • Re: Vega ZZ DCD trajectory crashes VMD (Tue Nov 09 2010 - 06:56:26 CST)
  • Re: 3D protein visualization (Mon Nov 08 2010 - 15:10:33 CST)
  • Re: vmd: Saving output (Mon Nov 01 2010 - 06:00:58 CDT)
  • Re: Where to download Hbond plugin (Sun Oct 31 2010 - 05:50:10 CDT)
  • Re: vmd: Tcl script help (Fri Oct 29 2010 - 15:10:54 CDT)
  • Re: namd-I : Constraint failure in RATTLE algorithm for atom 268 (Fri Oct 29 2010 - 01:41:51 CDT)
  • Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 17:23:16 CDT)
  • Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 13:05:33 CDT)
  • Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 08:16:14 CDT)
  • Possible bug in freeing global selections (Thu Oct 28 2010 - 06:56:02 CDT)
  • Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 11:56:26 CDT)
  • Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 09:21:44 CDT)
  • Re: Real-time ambient occlusion lighting (Wed Oct 13 2010 - 11:12:57 CDT)
  • Re: Real-time ambient occlusion lighting (Wed Oct 13 2010 - 06:01:01 CDT)
  • Real-time ambient occlusion lighting (Tue Oct 12 2010 - 15:54:00 CDT)
  • Re: superimpose residues across several protein structures (Wed Sep 22 2010 - 08:57:04 CDT)
  • Re: vmd can't display Pt-Cl bond (Mon Sep 20 2010 - 03:12:18 CDT)
  • Re: turning on the tcl/tk console in .vmdrc (Tue Sep 14 2010 - 07:47:49 CDT)
  • Re: Anaglyph rendering problem (Mon Sep 13 2010 - 08:55:39 CDT)
  • Anaglyph rendering problem (Mon Sep 13 2010 - 03:50:27 CDT)
  • Re: How to set the default mol style as VDW? (Fri Sep 03 2010 - 06:36:08 CDT)
  • Re: Using Bigdcd with RMSD Trajectory tool in VMD (Tue Aug 31 2010 - 05:42:16 CDT)
  • Re: DCD Based on a parameter (Thu Aug 26 2010 - 10:12:42 CDT)
  • Re: (Sat Aug 21 2010 - 02:14:19 CDT)
  • Re: Problem Material Studio/VMD (Wed Aug 11 2010 - 03:48:44 CDT)
  • Re: Inserting amino acids to a protein (Fri Aug 06 2010 - 02:40:35 CDT)
  • Re: Dihedrals Angle (Thu Jul 29 2010 - 02:13:30 CDT)
  • Re: "can not find channel named ... (Wed Jul 28 2010 - 05:04:28 CDT)
  • Re: Modifying amino acid to a non-standard amino acid using VMD (proline to hydroxyproline) (Fri Jul 09 2010 - 02:33:13 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Tue Jun 29 2010 - 09:14:08 CDT)
  • Re: namd-l: Simulation configuration file not accesible (Fri Jun 25 2010 - 16:19:34 CDT)
  • Re: Deleting/modifying specific molecule representations (Wed Jun 02 2010 - 11:53:00 CDT)
  • Re: How to remove hydrogens from a pdb file? (Fri May 07 2010 - 02:45:30 CDT)
  • Re: problem with "animate delete all" (Wed May 05 2010 - 02:44:02 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 14:24:17 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 12:36:36 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 08:45:13 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 06:38:16 CDT)
  • calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 03:43:25 CDT)
  • Re: Turn off initial VMD animation and "menu tkcon on" problem (Fri Apr 09 2010 - 09:12:05 CDT)
  • AutoHotkey script for managing VMD windows (Fri Apr 09 2010 - 07:56:42 CDT)
  • Turn off initial VMD animation and "menu tkcon on" problem (Fri Apr 09 2010 - 07:18:57 CDT)
  • Re: build dependency (Fri Apr 09 2010 - 03:43:19 CDT)
  • Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 11:29:10 CDT)
  • Re: implicit solvent (Tue Mar 23 2010 - 10:57:54 CDT)
  • Re: Selecting AMBER ions Cl- and Na+ using VMD (Wed Mar 17 2010 - 09:31:12 CDT)
  • Re: CUDA out of memory (Mon Mar 15 2010 - 04:41:14 CDT)
  • CUDA out of memory (Fri Mar 12 2010 - 08:22:40 CST)
  • Re: WIN64 build (Fri Mar 12 2010 - 07:46:55 CST)
• Ajasja Ljubetiè
  • Re: tcl script (Fri Mar 11 2011 - 14:12:52 CST)
  • Re: Trouble rendering tranparent atoms with Tachyon (Fri Jan 28 2011 - 09:06:11 CST)
  • Re: Visualisation of VTF trajectories using VMD under Windows ? (Mon Mar 29 2010 - 08:09:36 CDT)
• Ajeeta kaushiki
  • Re: script for area per lipid (Tue Mar 09 2010 - 05:04:27 CST)
  • VMD 1.8.7 installation problem (Mon Jul 20 2009 - 06:55:41 CDT)
• Ajith Gunaratne
  • (no subject) (Sun Apr 11 2004 - 23:36:05 CDT)
• Ajith Rathnaweera Rajapaksha Mudalige
  • Using Measure SASA in NAMD Simulation (Mon Apr 16 2012 - 18:54:32 CDT)
• Akash Banerjee
  • Re: Re: Unable to fit dihedral to QM target data in FFTK (Tue Feb 02 2021 - 08:20:56 CST)
  • Re: Re: Unable to fit dihedral to QM target data in FFTK (Mon Feb 01 2021 - 11:10:34 CST)
  • Re: Unable to fit dihedral to QM target data in FFTK (Thu Jan 28 2021 - 16:28:57 CST)
  • Unable to fit dihedral to QM target data in FFTK (Mon Jan 18 2021 - 16:31:20 CST)
  • Re: FFTK Issue: Not able to visualize dihedral scan (Sun Jan 10 2021 - 08:43:12 CST)
  • FFTK Issue: Not able to visualize dihedral scan (Fri Jan 08 2021 - 17:41:07 CST)
  • Re: FFTK dihedral paramterization (Fri Jan 08 2021 - 07:30:11 CST)
  • FFTK dihedral paramterization (Thu Jan 07 2021 - 16:06:23 CST)
• Akash Mondal
  • Re: patching of sucrose (Sat Sep 03 2022 - 01:37:41 CDT)
  • patching of sucrose (Sat Sep 03 2022 - 01:14:51 CDT)
  • Mutation of Amino Acid (Sat Aug 20 2022 - 01:11:34 CDT)
• Akash Pandya
  • Number of water molecules as a function of residue (Tue Nov 24 2020 - 04:07:02 CST)
  • Phi and Psi angles for particular residues as a function of time (Tue Jul 14 2020 - 10:38:28 CDT)
  • Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 10:27:16 CDT)
  • Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 09:22:00 CDT)
  • Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 07:17:02 CDT)
• Akemi Matsuno-Yagi
  • Re: bonds not created as desired (Tue Jun 09 2009 - 15:09:25 CDT)
  • bonds not created as desired (Tue Jun 09 2009 - 13:01:09 CDT)
• Akemi Yagi
  • Main window (button bars) does not start (Tue May 14 2002 - 10:02:18 CDT)
• Akif Ramzan
  • Chiral indices in VMD Nanotube Builder (Wed Jun 13 2018 - 08:10:11 CDT)
• Akiyama, Jotaro
  • Re: Coloring by type? (Fri Nov 12 2004 - 02:45:10 CST)
  • Re: Coloring by type? (Thu Nov 11 2004 - 18:56:02 CST)
  • Re: LAMMPS visualization (Thu Nov 11 2004 - 18:27:15 CST)
  • Coloring by type? (Mon Nov 08 2004 - 03:06:34 CST)
• Akshata Rudrapatna
  • vmd-I: Using the MergeMultiFramesPDB code (Sat Mar 21 2015 - 17:06:42 CDT)
  • Re: Why NAMD??? a general question (Sun Feb 15 2015 - 13:01:52 CST)
  • RE: vmd-I: Fatal Error: Unable to Open CHARMM Parameter File (Tue Feb 03 2015 - 08:26:31 CST)
  • vmd-I: Fatal Error: Unable to Open CHARMM Parameter File (Mon Feb 02 2015 - 19:44:56 CST)
  • Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 16:08:31 CST)
  • vmd-1: Colors in Representations Tab (Tue Jan 20 2015 - 16:09:28 CST)
  • Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 15:53:44 CST)
  • vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 14:57:14 CST)
• Akshay Bhatnagar
  • representation for multiple molecules (Sun Aug 21 2016 - 21:23:15 CDT)
  • how to tackle atoms in a PDB with multiple occupancies (Sat Apr 09 2016 - 04:22:08 CDT)
  • Re: psfgen on proteins with multiple chains (Sun Apr 03 2016 - 11:19:07 CDT)
  • psfgen on proteins with multiple chains (Sun Apr 03 2016 - 11:17:30 CDT)
  • concatenate two pdb files? (Wed Mar 30 2016 - 23:08:34 CDT)
  • tcl command to write amber format files (Tue Jan 26 2016 - 22:40:18 CST)
  • Re: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 22:24:24 CST)
  • Fwd: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 18:19:18 CST)
  • Re: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 18:25:59 CST)
  • Query for eliminating proteins with unusual amino acids (Wed Nov 04 2015 - 23:46:02 CST)
  • Re: unable to view .pdb file (Tue Sep 08 2015 - 11:17:14 CDT)
  • Re: Generating PSF for several proteins in one shot (Sat Aug 08 2015 - 03:35:47 CDT)
  • Re: Generating PSF for several proteins in one shot (Tue Jul 28 2015 - 01:10:19 CDT)
  • Re: Generating PSF for several proteins in one shot (Fri Jul 24 2015 - 02:29:08 CDT)
  • Re: Generating PSF for several proteins in one shot (Thu Jul 23 2015 - 23:33:56 CDT)
  • Generating PSF for several proteins in one shot (Tue Jul 21 2015 - 02:04:36 CDT)
• Akshay Patny
  • RE: measure XYZ dimensions of a system (Wed Jan 24 2007 - 12:47:47 CST)
  • measure XYZ dimensions of a system (Wed Jan 24 2007 - 10:47:00 CST)
  • cutting short a DMPC bilayer in VMD (Thu Oct 05 2006 - 21:23:43 CDT)
  • VMD PDB to LEAP Readable PDB (Wed Oct 04 2006 - 20:09:14 CDT)
  • Solvate Plug-In -b Boundary variable (Thu Sep 21 2006 - 10:18:10 CDT)
  • which POPC Bilayer is better to start? (Wed Sep 20 2006 - 16:40:07 CDT)
  • GPCR-Membrane Issue (Wed Sep 20 2006 - 12:29:49 CDT)
  • RE: Centering GPCR onto Lipid Bilayer (Tue Sep 19 2006 - 16:19:59 CDT)
  • Centering GPCR onto Lipid Bilayer (Mon Sep 18 2006 - 14:28:35 CDT)
  • FW: Membrane PlugIn issue (Sat Sep 16 2006 - 14:20:23 CDT)
  • RE: DPPC Bilayer Size (Fri Sep 15 2006 - 12:07:51 CDT)
  • DPPC Bilayer Size (Thu Sep 14 2006 - 13:49:06 CDT)
  • RE: protein in membrane (Tue Sep 12 2006 - 16:05:04 CDT)
  • RE: protein in membrane (Tue Sep 12 2006 - 15:45:31 CDT)
• Al Courey
  • rendering high resolution images (Mon Apr 24 2006 - 16:19:52 CDT)
• Al-Ali, Hassan
  • C-terminus link to side chain amine (Tue Oct 12 2010 - 08:33:46 CDT)
  • Link Patch? (Fri Oct 08 2010 - 23:39:15 CDT)
  • Ubiquitin - patch? (Thu Oct 07 2010 - 22:33:23 CDT)
  • K-linked Ub, ACE patch, and autoPSF (Tue Oct 05 2010 - 22:49:42 CDT)
  • K-linked Ub, ACE patch, and autoPSF (Tue Oct 05 2010 - 22:49:37 CDT)
  • K-linked Ub, ACE patch, and autoPSF (Tue Oct 05 2010 - 22:49:34 CDT)
  • RE: Vmd on Fedora 9 (Wed Jul 30 2008 - 19:16:09 CDT)
  • RE: Vmd on Fedora 9 (Wed Jul 30 2008 - 15:12:38 CDT)
  • Vmd on Fedora 9 (Wed Jul 30 2008 - 11:43:28 CDT)
• Al-Rawi, Ahlam
  • external force (Tue Oct 24 2006 - 11:41:54 CDT)
  • external force (Wed Oct 18 2006 - 19:33:51 CDT)
  • RE: psf for protein (Tue Sep 19 2006 - 12:03:55 CDT)
  • psf for protein (Mon Sep 18 2006 - 17:24:27 CDT)
  • Water and protein (Wed May 03 2006 - 13:40:44 CDT)
• alamng_at_uci.edu
  • Replica Exchange (Fri Apr 15 2011 - 02:35:05 CDT)
  • ParaTool (Sat Feb 19 2011 - 15:43:36 CST)
• Alan
  • Re: namdenergy and simulation with amber ff (Fri Aug 01 2008 - 02:05:23 CDT)
  • VMD with amber rst7 and parm7 files (Thu Jul 31 2008 - 03:26:33 CDT)
• Alan Wilter Sousa da Silva
  • Re: secondary structure update (Mon Nov 03 2003 - 04:16:27 CST)
  • nvidia driver (Tue Sep 30 2003 - 09:30:48 CDT)
  • Re: Python's future in VMD (Tue Sep 30 2003 - 07:48:28 CDT)
  • Re: stereo (Wed May 28 2003 - 13:02:00 CDT)
  • Re: Surfaces/Cavities (Thu Jan 23 2003 - 06:21:18 CST)
  • Re: Which drawing method is used in the picture? (Wed Apr 10 2002 - 10:20:05 CDT)
  • Re: Plotting elect. pot. surface (Wed Mar 13 2002 - 08:05:14 CST)
  • Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 07:58:33 CST)
  • Molscript (Wed Mar 13 2002 - 07:32:50 CST)
  • Re: Removing perspective projection at startup (Thu Feb 28 2002 - 12:27:47 CST)
  • Re: Plotting elect. pot. surface (Tue Feb 26 2002 - 14:16:22 CST)
  • Re: Plotting elect. pot. surface (Mon Feb 25 2002 - 14:40:57 CST)
  • Plotting elect. pot. surface (Mon Feb 25 2002 - 12:15:52 CST)
• alarcon_at_lncc.br
  • STL files (Thu Jul 17 2003 - 11:07:02 CDT)
  • STL format file - rendering (Thu Dec 19 2002 - 13:39:20 CST)
• Alba Colet Subirachs
  • VMD 3D stereo hardware (Thu Mar 06 2008 - 03:16:25 CST)
  • VMD languaje information (Tue Mar 04 2008 - 10:24:09 CST)
• Albers, Thomas
  • Re: [EXTERNAL] Re: polar hydrogens (Thu Sep 14 2017 - 10:20:12 CDT)
  • polar hydrogens (Wed Sep 13 2017 - 12:07:46 CDT)
  • Re: segname field in pdb files (Wed Sep 13 2017 - 11:22:25 CDT)
  • RE: autoionize not neutralizing the system (Sun Aug 06 2017 - 12:26:58 CDT)
  • pdb download bug (Mon Jun 26 2017 - 13:44:07 CDT)
  • measure surface usage (Fri Feb 17 2017 - 14:47:07 CST)
  • Colouring atoms individually (Thu Sep 29 2016 - 16:31:24 CDT)
• Albert
  • visualization of a normal mode analysis (Wed Feb 28 2018 - 14:44:25 CST)
  • a question about force field toolkit (Tue Oct 03 2017 - 12:47:03 CDT)
  • Re: bond updating in VMD (Sat Aug 19 2017 - 04:11:22 CDT)
  • bond updating in VMD (Sat Aug 19 2017 - 00:20:27 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 14:18:32 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 12:25:55 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 09:00:59 CDT)
  • vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 03:59:33 CDT)
  • Amber visualization problem (Tue Jan 31 2017 - 10:09:50 CST)
  • Re: pdb was not generated (Thu Jan 14 2016 - 13:48:28 CST)
  • Re: pdb was not generated (Thu Jan 14 2016 - 13:59:54 CST)
  • Re: pdb was not generated (Thu Jan 14 2016 - 13:48:46 CST)
  • pdb was not generated (Thu Jan 14 2016 - 11:53:36 CST)
  • Re: extract certain part of atoms into separate file (Thu Nov 19 2015 - 01:46:40 CST)
  • extract certain part of atoms into separate file (Wed Nov 18 2015 - 09:49:53 CST)
  • problem of x3d in chrome and IE (Sun Oct 18 2015 - 13:11:26 CDT)
  • Re: can we export VMD scene as webGL file? (Sat Oct 17 2015 - 02:23:54 CDT)
  • Re: can we export VMD scene as webGL file? (Sat Oct 17 2015 - 02:23:18 CDT)
  • Re: can we export VMD scene as webGL file? (Sat Oct 17 2015 - 02:22:56 CDT)
  • Re: can we export VMD scene as webGL file? (Fri Oct 16 2015 - 16:52:19 CDT)
  • can we export VMD scene as webGL file? (Fri Oct 16 2015 - 16:22:59 CDT)
  • Re: should commercial user pay for VMD (Mon Jul 06 2015 - 09:45:23 CDT)
  • should commercial user pay for VMD (Mon Jul 06 2015 - 08:48:50 CDT)
  • nvidia optimus problem for 1.9.2 (Wed Jan 21 2015 - 12:05:14 CST)
  • 1.9.2 beta2 doesn't pop up window (Thu Dec 25 2014 - 05:34:25 CST)
  • Molspace volume calculation failed (Tue Dec 16 2014 - 02:48:53 CST)
  • Re: program errors (Wed Dec 03 2014 - 15:24:52 CST)
  • program errors (Sun Nov 30 2014 - 02:32:36 CST)
  • plotchart problem (Thu Nov 13 2014 - 03:11:24 CST)
  • can we visualize sos file? (Sat Nov 08 2014 - 10:18:08 CST)
  • can we delete in command line? (Wed Aug 20 2014 - 04:29:42 CDT)
  • when will 1.9.2 be released? (Sun May 25 2014 - 12:12:31 CDT)
  • Re: why tutorial cannot be played? (Fri Dec 27 2013 - 15:51:08 CST)
  • why tutorial cannot be played? (Fri Dec 27 2013 - 14:32:17 CST)
  • how can we improve it in VMD? (Tue Dec 10 2013 - 01:55:04 CST)
  • Re: how shall we fill in clipped molecules? (Wed Oct 16 2013 - 09:57:36 CDT)
  • how shall we fill in clipped molecules? (Wed Oct 16 2013 - 09:08:10 CDT)
  • Re: AW: how to enable multiple core rendering? (Thu Sep 05 2013 - 04:02:10 CDT)
  • how to enable multiple core rendering? (Wed Sep 04 2013 - 03:05:15 CDT)
  • Re: problem of pbc command (Mon Apr 22 2013 - 02:34:36 CDT)
  • problem of pbc command (Mon Apr 22 2013 - 01:39:37 CDT)
  • how to write pbc option in python? (Sun Apr 21 2013 - 11:50:19 CDT)
  • same problem (Tue Feb 05 2013 - 12:31:29 CST)
  • Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 04:43:59 CST)
  • Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 04:02:00 CST)
  • how to configure VMD plugin location? (Tue Jan 29 2013 - 01:35:26 CST)
  • Re: NameError: name 'AtomSel' is not defined (Tue Jan 29 2013 - 01:12:23 CST)
  • NameError: name 'AtomSel' is not defined (Mon Jan 28 2013 - 11:38:16 CST)
  • plugin path problem (Thu Jan 24 2013 - 12:33:04 CST)
  • Re: compiling stopped without any obvious erros (Thu Jan 24 2013 - 10:40:55 CST)
  • Re: compiling stopped without any obvious erros (Thu Jan 24 2013 - 01:16:17 CST)
  • Re: tc.h problem (Wed Jan 23 2013 - 13:37:11 CST)
  • compiling stopped without any obvious erros (Wed Jan 23 2013 - 13:00:41 CST)
  • Re: tc.h problem (Wed Jan 23 2013 - 12:17:49 CST)
  • Re: tc.h problem (Wed Jan 23 2013 - 11:37:28 CST)
  • Re: another tachyon problem (Wed Jan 23 2013 - 11:41:52 CST)
  • another tachyon problem (Wed Jan 23 2013 - 11:15:04 CST)
  • tc.h problem (Wed Jan 23 2013 - 10:50:27 CST)
  • Re: Re: tachyon configuration failed (Wed Jan 23 2013 - 10:11:17 CST)
  • Re: Re: tachyon configuration failed (Wed Jan 23 2013 - 09:32:58 CST)
  • Re: Re: tachyon configuration failed (Tue Jan 22 2013 - 11:28:08 CST)
  • Re: tachyon configuration failed (Sat Jan 19 2013 - 11:53:19 CST)
  • tachyon configuration failed (Sat Jan 19 2013 - 11:52:07 CST)
  • problem of selection (Wed Dec 19 2012 - 02:52:30 CST)
  • compiled failed (Mon Nov 26 2012 - 12:16:28 CST)
  • python script failed (Mon Nov 26 2012 - 04:44:12 CST)
  • pbc box problem (Thu Nov 15 2012 - 01:37:27 CST)
  • problem of VMD-1.91 in MacOS10.8 (Sat Oct 13 2012 - 11:09:44 CDT)
  • bug of VMD (Fri Jun 29 2012 - 03:40:15 CDT)
  • Re: how to calculate water density in the 'hole'? (Thu Jun 28 2012 - 07:18:11 CDT)
  • how to calculate water density in the 'hole'? (Wed Jun 27 2012 - 13:26:01 CDT)
  • how to calculate PBC box volume in VMD? (Thu May 17 2012 - 01:26:36 CDT)
  • PBC missed in Amber MD (Thu May 10 2012 - 02:53:00 CDT)
  • what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? (Mon May 07 2012 - 10:07:43 CDT)
  • Re: an old question (Tue Apr 10 2012 - 14:23:16 CDT)
  • Re: an old question (Tue Apr 10 2012 - 00:08:23 CDT)
  • Re: an old question (Mon Apr 09 2012 - 23:36:16 CDT)
  • an old question (Sat Apr 07 2012 - 00:28:29 CDT)
  • Re: python error? (Mon Apr 02 2012 - 14:17:08 CDT)
  • python error? (Mon Apr 02 2012 - 11:28:14 CDT)
  • Re: load propka3.1 results error (Tue Mar 13 2012 - 00:35:36 CDT)
  • Re: load propka3.1 results error (Mon Mar 12 2012 - 16:18:11 CDT)
  • Re: load propka3.1 results error (Mon Mar 12 2012 - 15:40:12 CDT)
  • load propka3.1 results error (Mon Mar 12 2012 - 15:24:37 CDT)
  • how to configure PROPKA3 in VMD 1.91? (Mon Mar 12 2012 - 15:11:39 CDT)
  • Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 23:54:00 CST)
  • Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 23:54:35 CST)
  • how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 15:33:44 CST)
  • Re: problem with catdcd (Sun Feb 12 2012 - 08:24:29 CST)
  • PROPKA doesn't work in recent VMD1.9.1 (Sun Feb 12 2012 - 05:25:14 CST)
  • problem with catdcd (Sun Feb 12 2012 - 02:23:40 CST)
  • how to display the full molecule when use "within" option? (Fri Feb 03 2012 - 05:31:10 CST)
  • how to measure residues' chi angle in VMD? (Thu Feb 02 2012 - 03:34:27 CST)
  • how to merge two PDB trajectories? (Wed Feb 01 2012 - 23:34:31 CST)
  • is it possible to enable GPU rendering? (Wed Feb 01 2012 - 14:04:02 CST)
  • how to configure Tachyon image render size? (Mon Jan 30 2012 - 11:52:02 CST)
  • problem with new plugin installation. (Sat Jan 28 2012 - 08:08:16 CST)
  • problem with new plugin installation. (Sat Jan 28 2012 - 01:18:14 CST)
  • Re: how to enlarge the menu font? (Fri Jan 27 2012 - 01:33:48 CST)
  • how to enlarge the menu font? (Fri Jan 27 2012 - 00:18:36 CST)
  • is it possible to hide ONLY non-polar hydrogens? (Fri Jan 20 2012 - 03:54:32 CST)
• albert albert
  • removed all proton in protein with vmd (Mon Jul 27 2009 - 01:40:34 CDT)
• Albert Solernou
  • Re: writing a new plugin (Wed Mar 11 2015 - 05:39:50 CDT)
  • Re: writing a new plugin (Tue Mar 10 2015 - 12:12:14 CDT)
  • Re: writing a new plugin (Tue Mar 10 2015 - 05:53:09 CDT)
  • writing a new plugin (Mon Mar 09 2015 - 10:11:26 CDT)
• Albert Sun
  • Re: Picking atoms: romoving or changing the position of atoms (Mon Jul 19 2004 - 11:51:50 CDT)
  • Picking atoms: romoving or changing the position of atoms (Sun Jul 18 2004 - 09:17:00 CDT)
  • could not make avi file (Tue Apr 13 2004 - 10:58:49 CDT)
  • subscribe and questions (Fri Nov 14 2003 - 13:06:34 CST)
• alberto
  • Re: cannot visualize GROMACS trajectories in VMD 1.9.4 on MacOS Big Sur (Tue Mar 16 2021 - 06:37:37 CDT)
  • lammpstrj move out zoom (Fri Sep 18 2020 - 08:53:22 CDT)
  • read vector lammps with VMD (Fri Mar 08 2019 - 04:14:34 CST)
  • center of mass 4 rdf VMD (Thu Mar 07 2019 - 09:42:48 CST)
  • Re: RDF witth center of mass as selection (Tue Feb 26 2019 - 12:04:15 CST)
  • RDF witth center of mass as selection (Tue Feb 26 2019 - 10:08:03 CST)
  • minimal distance between atoms in all frame (Tue Feb 05 2019 - 12:04:43 CST)
  • measure distance atom from plane (Tue Feb 05 2019 - 04:54:20 CST)
• alberto baldelli
  • view temperature, forces and velocities (Fri Mar 04 2011 - 09:35:18 CST)
• Alberto Perez
  • Re: complete residues within (Thu Mar 06 2008 - 04:38:02 CST)
• Alberto Sergio Garay
  • tcl script causes VMD crash... (Wed Jun 25 2014 - 07:55:08 CDT)
  • Problem using rotate command in a script ...(2) (Fri Jun 10 2011 - 07:10:05 CDT)
  • Problem using rotate command in a script ...(2) (Thu Jun 09 2011 - 13:11:01 CDT)
  • Problem using rotate command in a script .... (Thu Jun 09 2011 - 09:36:33 CDT)
  • Problem using rotate in a script .... (Wed Jun 08 2011 - 10:33:49 CDT)
  • Re: tcl script problem using -dispdev text .. (Fri Nov 19 2010 - 04:33:33 CST)
  • tcl script problem using -dispdev text .. (Thu Nov 18 2010 - 07:12:46 CST)
  • Is it possible to load a part of a big xtc file faster... (Wed Aug 18 2010 - 09:44:56 CDT)
  • Question about running tcl/tk script without graphic interface (vmd option -dispdev none ...) (Fri Oct 16 2009 - 17:48:04 CDT)
  • Re: Funny tcl/tk script behavior.... (Tue Jun 30 2009 - 12:08:32 CDT)
  • Funny tcl/tk script behavior.... (Tue Jun 30 2009 - 08:02:57 CDT)
  • Re: Problem using pbc wrap..... (Fri Jun 26 2009 - 15:01:35 CDT)
  • Problem using pbc wrap..... (Fri Jun 26 2009 - 07:13:44 CDT)
  • Memory Problem with tcl/tk script...(Solved!) (Thu Jun 04 2009 - 07:08:19 CDT)
  • Memory Problem with tcl/tk script...(3) (Wed Jun 03 2009 - 14:17:07 CDT)
  • Memory Problem with tcl/tk script...(2) (Wed Jun 03 2009 - 12:54:53 CDT)
  • Memory Problem with tcl/tk script... (Tue Jun 02 2009 - 07:25:16 CDT)
  • Question3 about introducing variables in "mol selection..." (Fri May 22 2009 - 16:47:25 CDT)
  • Question2 about introducing variables in "mol selection..." (Fri May 22 2009 - 15:31:51 CDT)
  • Question about introducing variables in "mol selection..." (Fri May 22 2009 - 10:06:54 CDT)
  • VMD Animation example doesn't work... (Fri Dec 19 2008 - 06:52:05 CST)
  • VMD Animation example doesn't work... (Tue Dec 16 2008 - 04:43:23 CST)
  • rmsd per residue (Tue Jul 01 2008 - 05:36:46 CDT)
  • Slow tcl/tk script for trajectory analysis (Fri May 16 2008 - 14:34:40 CDT)
• Alberto Torres
  • Color of bond betwen atoms with different colors (Fri May 16 2008 - 15:35:40 CDT)
• aldo jongejan
  • Babel and VMD (Tue Mar 03 1998 - 11:05:07 CST)
• Ale Gomez
  • Re: installation problem (Tue Dec 22 2009 - 20:54:29 CST)
  • Re: vmd bug in ubuntu 9.10 (Wed Nov 11 2009 - 17:56:44 CST)
  • Re: Align membrane (Fri Oct 16 2009 - 19:18:41 CDT)
  • Align membrane (Fri Oct 16 2009 - 13:24:48 CDT)
  • Lipid Membrane (Sun Oct 11 2009 - 22:58:08 CDT)
• Alec Robertson
  • Re: fglrx driver workaround? (Thu Mar 31 2005 - 10:18:45 CST)
  • fglrx driver workaround? (Thu Mar 31 2005 - 09:53:21 CST)
• Alec Zander
  • Re: Asymmetric concentration gradient (Tue Aug 24 2021 - 13:01:21 CDT)
  • Re: Defining a layer for a micelle (Wed May 15 2019 - 08:22:50 CDT)
  • Re: Defining a layer for a micelle (Mon May 13 2019 - 12:12:42 CDT)
• Alejandro Ortega
  • Re: TXT program editor (Fri Aug 29 2008 - 13:11:13 CDT)
  • TXT program editor (Thu Aug 28 2008 - 14:43:14 CDT)
  • Maximum velocities (Thu Jul 03 2008 - 16:03:13 CDT)
  • Writepdb with Solvation Box (Tue May 06 2008 - 12:50:23 CDT)
  • Topology file (Fri Apr 04 2008 - 11:24:14 CDT)
  • DCD file (Fri Mar 07 2008 - 12:07:23 CST)
• Aleksander Debinski
  • lags on VDW (Mon Dec 12 2005 - 03:54:33 CST)
• Aleksandr Kivenson
  • How to parse very large trajectories? (Wed Nov 09 2011 - 14:41:55 CST)
• Aleksei
  • FFTK baOpt electronic effects (Wed Apr 13 2022 - 22:28:14 CDT)
  • Re: FFTK baOpt electronic effects (Wed Apr 13 2022 - 20:53:46 CDT)
  • Re: Switching from MP2 in FFTK? (Fri Mar 26 2021 - 14:19:52 CDT)
  • Re: FFTK: Charge Optimization (Water Int.) (Thu May 28 2020 - 01:39:15 CDT)
  • Re: FFTK: Charge Optimization (Water Int.) (Fri May 22 2020 - 11:50:36 CDT)
  • Re: ATOM LPH (Tue Apr 14 2020 - 15:19:45 CDT)
• Aleksei Aksimentiev
  • Re: ellipsoidal particles (Mon May 03 2010 - 16:14:13 CDT)
  • Postdoc position in computational biophysics and nanotehnology (Tue May 05 2009 - 14:28:20 CDT)
• Alessandro Cembran
  • Trajectory title (Wed Apr 16 2008 - 07:53:47 CDT)
  • Re: how to visualize Charmm generated files (Wed Jun 06 2007 - 18:15:41 CDT)
  • NAMD Energy - Hexagonal Cell (Mon Mar 12 2007 - 18:10:14 CDT)
  • Re: namd-l: Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 18:57:05 CST)
  • Re: namd-l: Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 11:37:20 CST)
• Alessandro Mariani
  • NetCDF type is missing (Mon Jun 15 2015 - 07:31:59 CDT)
  • Re: Graphic window does not refresh (Mon Dec 22 2014 - 19:58:34 CST)
  • Graphic window does not refresh (Mon Dec 22 2014 - 20:04:41 CST)
  • Re: Graphic window does not refresh (Sun Dec 21 2014 - 15:28:47 CST)
  • Graphic window does not refresh (Sun Dec 21 2014 - 13:19:41 CST)
  • Clusters help (Wed Sep 17 2014 - 03:57:10 CDT)
• Alessandro Mascioni
  • VMD 1.9.1 namdenergy plugin problem with GPU acceleration (Sun Jun 30 2013 - 15:42:38 CDT)
• Alessandro Ruda
  • get coordinates for each frame in a trjectory (Sun Feb 27 2022 - 08:03:44 CST)
  • command measure inertia (Sat Feb 26 2022 - 09:59:14 CST)
  • Error during minimizazion - Number of atoms in fixed atoms PDB... (Mon Jun 17 2019 - 17:12:26 CDT)
• Alessandro.Maiorana_at_roma2.infn.it
  • Remove PBC (Sun Dec 21 2008 - 04:09:38 CST)
• Alessio Alexiadis
  • dipole (Wed Mar 19 2008 - 06:54:21 CDT)
  • combine together two PBD/PSF files (Wed Nov 07 2007 - 07:38:42 CST)
  • merge pbd psf files (update) (Wed Nov 07 2007 - 07:47:48 CST)
  • time step (Wed Oct 03 2007 - 07:44:13 CDT)
  • hbonds (how to count) (Wed Oct 03 2007 - 03:28:52 CDT)
• Alex Angerhofer
  • rendering question (Thu Jan 19 2012 - 10:56:59 CST)
• Alex Hahn
  • H Bond Plug-in Questions (Thu Sep 29 2011 - 11:53:13 CDT)
• Alex Hummels
  • VMD Compatible with Windows with 64-bit OS? (Thu Apr 09 2020 - 15:44:24 CDT)
  • Re: Tcl foreach/for loop error (Fri Sep 06 2019 - 08:50:48 CDT)
  • Re: Tcl foreach/for loop error (Fri Sep 06 2019 - 07:23:54 CDT)
  • Tcl foreach/for loop error (Thu Sep 05 2019 - 16:28:51 CDT)
  • Re: Atoms on top of each in wrapped trajectory (Thu Aug 15 2019 - 16:18:57 CDT)
  • Atoms on top of each in wrapped trajectory (Thu Aug 15 2019 - 14:42:02 CDT)
  • How the Within Command Works (Thu Aug 08 2019 - 09:28:30 CDT)
• alex lin
  • Re: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 17:31:31 CST)
  • VMD crashing when loading prmtop files (Tue Dec 16 2014 - 17:37:58 CST)
• Alex Liu
  • RMSF measurement (Wed Feb 23 2011 - 12:51:16 CST)
  • average structure/solute and solvent (Wed Nov 24 2010 - 10:19:28 CST)
  • average structure/solute and solvent (Tue Nov 23 2010 - 09:21:31 CST)
  • Re: atom selection in vmd (Mon Nov 22 2010 - 16:16:45 CST)
  • atom selection in vmd (Wed Nov 17 2010 - 08:49:55 CST)
• Alex Nazlidis
  • Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 19:10:18 CDT)
  • Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 16:49:29 CDT)
  • Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 15:41:45 CDT)
  • VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 15:31:11 CDT)
• Alex Peralvarez Marin
  • Re: VMD and BigSur (Thu Dec 17 2020 - 00:46:10 CST)
  • VMD and BigSur (Wed Dec 16 2020 - 08:32:01 CST)
• Alex Richards
  • can't read "::vmd_pick_event": no such variable (Wed Jun 26 2013 - 11:13:33 CDT)
  • Re: Atom Selection & List Generation (Wed Jun 19 2013 - 16:49:40 CDT)
  • Re: Atom Selection & List Generation (Tue Jun 18 2013 - 15:31:54 CDT)
  • Atom Selection & List Generation (Mon Jun 17 2013 - 16:32:12 CDT)
• Alex Saad-Falcon
  • New OSX Requires 64-bit DMG (Fri Jan 03 2020 - 11:42:11 CST)
  • Need FFTK Help from Someone w/ Gaussian (Mon May 21 2018 - 13:05:32 CDT)
  • Solvent PDB and PSF Files (Thu Mar 29 2018 - 10:50:45 CDT)
• Alex Sha
  • Re: Compiling VMD 1.9.3 64-bit on MacOS 10.13.6 (Mon Nov 26 2018 - 00:28:12 CST)
  • Compiling VMD 1.9.3 64-bit on MacOS 10.13.6 (Fri Nov 23 2018 - 00:48:06 CST)
• Alex Vakhrouchev
  • Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Tue Jun 07 2005 - 00:09:22 CDT)
• Alexander A. Vakhrushev
  • Re: Windows version: Loading/writing files (Mon Oct 13 2008 - 08:49:21 CDT)
  • Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS (Wed Oct 08 2008 - 23:37:06 CDT)
  • Re: Problems after installation (ubuntu 8.04) (Tue Oct 07 2008 - 12:08:35 CDT)
  • Re: Problems after installation (ubuntu 8.04) (Tue Oct 07 2008 - 12:03:16 CDT)
  • Re: Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 22:55:52 CDT)
  • Re: Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 08:43:39 CDT)
  • Re: water box (Tue Sep 30 2008 - 09:24:43 CDT)
  • Re: water box (Tue Sep 30 2008 - 04:55:46 CDT)
  • Re: question about sscache (Fri Sep 26 2008 - 22:41:50 CDT)
  • Re: counting gas molecules inside the nanotube (Thu Sep 18 2008 - 12:11:04 CDT)
• Alexander Adams
  • Re: Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 19:53:58 CDT)
  • Re: Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 19:35:44 CDT)
  • Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 17:50:41 CDT)
  • Re: qwrap installation (Wed Apr 29 2020 - 14:30:31 CDT)
  • qwrap installation (Tue Apr 28 2020 - 12:36:40 CDT)
  • CG Martini File for Cholesterol (Mon May 20 2019 - 10:45:50 CDT)
• Alexander Balaeff
  • Re: [VMD TECH] Tracing VMD Variables (Part II) (Thu May 01 1997 - 16:29:52 CDT)
  • How can I make VMD use the correct graphics card in a Remote Desktop session? (Thu Oct 14 2021 - 15:17:59 CDT)
  • Re: Running out of memory due to multiple mol addfile's (?) (Wed Mar 01 2017 - 13:42:37 CST)
  • Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 13:07:23 CST)
  • Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 12:59:17 CST)
  • Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 00:03:15 CST)
  • Re: Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 13:12:06 CDT)
  • Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 10:59:22 CDT)
  • Which Linux distribution works best with Quadro cards? (Tue Jun 04 2013 - 01:39:26 CDT)
  • Re: RMSD (Sun Mar 18 2012 - 12:59:28 CDT)
  • Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 13:59:55 CST)
  • VMD stereo for NVidia Quadro 5000? (Mon Dec 19 2011 - 12:07:18 CST)
  • Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 11:37:36 CST)
  • Files closing/Memory issues in VMD (Mon Feb 19 2007 - 14:03:54 CST)
• Alexander Beerhoff
  • Re: can't build VMD on MacOs Ventura: use of undeclared identifier 'msms' (Tue Mar 07 2023 - 19:55:15 CST)
  • can't build VMD on MacOs Ventura: use of undeclared identifier 'msms' (Tue Mar 07 2023 - 08:56:42 CST)
  • Re: Re: Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: ‘OSPModel’ does not name a typ (Fri Feb 24 2023 - 16:09:58 CST)
  • Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: ‘OSPModel’ does not name a typ (Thu Feb 23 2023 - 22:47:16 CST)
• Alexander Farley
  • Re: Chromium (Sun Sep 08 2002 - 09:44:58 CDT)
  • Re: stereo on linux: DTI monitors? (Sun Sep 08 2002 - 09:36:48 CDT)
• Alexander Howard
  • MultiSeq Database Downloading Error (Fri Jul 30 2021 - 19:03:22 CDT)
• Alexander Metz
  • How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 09:37:02 CST)
• Alexander Peyser
  • Re: VMD 1.8.2 and 1.8.3 fail on MacOS X after upgrade to 10.3.8 (Wed Mar 02 2005 - 12:45:30 CST)
  • Re: User colors and povray (Wed Feb 23 2005 - 16:01:19 CST)
• Alexander Spaar
  • Re: AMBER pbsa electrostatic potential map (Tue Apr 19 2005 - 03:58:55 CDT)
  • UHBD-grids (Fri Apr 15 2005 - 04:12:57 CDT)
• Alexandr Bezginov
  • Fullscreen mode in VMD (Tue Oct 07 2008 - 12:34:59 CDT)
• Alexandr Isayev
  • Re: MultiSeq on the windows vista OS (Mon Sep 24 2007 - 14:25:00 CDT)
  • Re: Displaying the periodic box ... (Thu May 24 2007 - 10:59:08 CDT)
  • Re: Tachyon renderer (Wed May 16 2007 - 23:40:54 CDT)
  • count variable number of molecules (Wed Feb 28 2007 - 14:23:11 CST)
  • Re: rendering time bars or other vmd added graphics with povray (Mon Feb 05 2007 - 11:23:12 CST)
  • Re: Beginner's problem (Tue Nov 14 2006 - 12:01:36 CST)
  • Re: .pdb file from XMD (Thu Nov 02 2006 - 09:18:20 CST)
  • Re: CPK Graphical Representation (Fri Oct 20 2006 - 11:48:40 CDT)
  • Re: movie (Wed Oct 11 2006 - 18:46:16 CDT)
  • Re: puts format (Wed Sep 13 2006 - 16:18:04 CDT)
  • Re: Movie Maker in VMD (Wed Jul 05 2006 - 10:27:02 CDT)
  • Re: Making a Movie (Tue Jun 20 2006 - 13:07:45 CDT)
• Alexandr Kornev
  • NetCDF plugin (Tue Sep 20 2011 - 17:55:59 CDT)
• Alexandra Ringsby
  • Re: MDAnalysis/VMD discrepancy (Fri May 08 2020 - 16:44:31 CDT)
  • MDAnalysis/VMD discrepancy (Fri May 08 2020 - 15:22:28 CDT)
• alexandra.marques_at_fc.up.pt
  • secondary_struct script (Wed Apr 18 2007 - 11:28:43 CDT)
  • hbond calculation (Mon Mar 26 2007 - 15:49:19 CDT)
  • hbonds problem (Sat Feb 17 2007 - 17:52:45 CST)
  • Re: sasa by residue (Thu Jan 11 2007 - 13:42:07 CST)
  • sasa by residue (Mon Jan 08 2007 - 19:01:04 CST)
  • python (Sun Nov 12 2006 - 11:23:39 CST)
  • Re: output file format (Fri Sep 01 2006 - 14:20:35 CDT)
  • output file format (Thu Aug 31 2006 - 10:20:14 CDT)
  • Re: water numbering (Mon Aug 28 2006 - 10:52:03 CDT)
  • water numbering (Mon Aug 28 2006 - 06:50:33 CDT)
  • gyration radius for a trajectory (Fri Aug 25 2006 - 05:38:06 CDT)
  • large mdcrd files (Sun Aug 20 2006 - 07:56:30 CDT)
• Alexandre A. Vakhrouchev
  • Re: contour plots (Mon Jul 21 2008 - 02:25:51 CDT)
  • Re: Away from VMD-L/email until July 8th... (Thu Jun 19 2008 - 21:09:17 CDT)
  • Re: Dipole moment? (Sat Jun 07 2008 - 13:25:40 CDT)
  • Dipole moment? (Sat Jun 07 2008 - 07:21:55 CDT)
  • Re: Total list of Tcl features (Sat Jun 07 2008 - 10:31:31 CDT)
  • Re: Total list of Tcl features (Sat Jun 07 2008 - 01:14:37 CDT)
  • Total list of Tcl features (Sat Jun 07 2008 - 00:15:05 CDT)
  • Re: Individual atoms trajectory (Fri May 16 2008 - 02:08:59 CDT)
  • Re: Individual atoms trajectory (Fri May 16 2008 - 01:08:22 CDT)
  • Energy plot script (Wed May 14 2008 - 22:11:19 CDT)
  • Individual atoms trajectory (Wed May 14 2008 - 00:34:38 CDT)
  • Re: Recompile VMD with larger index types (Sun May 11 2008 - 11:20:47 CDT)
  • Recompile VMD with larger index types (Sat May 10 2008 - 07:36:43 CDT)
  • Atomselect in loops (Fri Nov 24 2006 - 03:50:34 CST)
• Alexandre Barrozo
  • Reordering atom numbers on a XYZ file (Mon Dec 05 2016 - 18:39:01 CST)
• Alexandre PERRET
  • hydrogen bond criteria (Thu Dec 05 2013 - 04:31:55 CST)
  • Re: problem with trr file (Fri Nov 08 2013 - 10:35:24 CST)
  • Re: problem with trr file (Fri Nov 08 2013 - 01:43:41 CST)
  • problem with trr file (Thu Nov 07 2013 - 09:31:15 CST)
• Alexandre Suman de Araujo
  • TachyonL-OptiX not shown in renderer list (Thu Jan 22 2015 - 04:56:22 CST)
  • Units used by Volmap Tool (Fri Aug 15 2014 - 12:54:58 CDT)
  • Re: Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 13:25:44 CDT)
  • Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 12:57:30 CDT)
  • Re: Question about FFTK charge optimization procedure to CGENFF modeling (Tue May 14 2013 - 08:12:10 CDT)
  • Question about FFTK charge optimization procedure to CGENFF modeling (Fri May 03 2013 - 15:40:41 CDT)
  • Re: Does Paratool support CgenFF? (Wed Sep 28 2011 - 09:28:14 CDT)
  • Re: Does Paratool support CgenFF? (Wed Sep 28 2011 - 08:39:04 CDT)
  • Does Paratool support CgenFF? (Wed Sep 14 2011 - 07:22:33 CDT)
  • Re: Problem with creation of child fragment in Molefacture (Wed Apr 21 2010 - 08:06:07 CDT)
  • Re: Problem with creation of child fragment in Molefacture (Tue Apr 20 2010 - 20:04:05 CDT)
  • Problem with creation of child fragment in Molefacture (Tue Apr 20 2010 - 14:04:31 CDT)
  • Re: MergeStructs Plugin in text mode (Fri Mar 12 2010 - 13:40:03 CST)
  • Re: MergeStructs Plugin in text mode (Thu Mar 11 2010 - 12:04:44 CST)
  • Re: MergeStructs Plugin in text mode (Wed Mar 10 2010 - 06:03:01 CST)
  • MergeStructs Plugin in text mode (Tue Mar 09 2010 - 12:24:46 CST)
  • Problem using psfgen and carbohydrate charmm parameters. (Thu Oct 08 2009 - 16:19:26 CDT)
  • Building polymer psf from monomer topology (Thu Jul 30 2009 - 14:48:13 CDT)
  • Bug in molefacture proline residue of official version (1.8.6 LINUXAMD64) (Mon Feb 02 2009 - 12:51:46 CST)
  • Problems to load Gaussian .log file in Paratool (Mon Jul 30 2007 - 13:05:56 CDT)
  • Molecular Display component (Mon Mar 28 2005 - 10:56:17 CST)
  • Adding Atoms in Colors Menu (Fri Apr 02 2004 - 03:33:52 CST)
• Alexandre Suman de Araújo
  • Re: Show tcl console selections in VMD graphical display (Thu Mar 23 2023 - 09:53:42 CDT)
  • Show tcl console selections in VMD graphical display (Thu Mar 23 2023 - 04:06:05 CDT)
  • Re: Error "vecscale: parameters must have data" in water interaction step of FFTK (Wed Nov 18 2020 - 15:44:56 CST)
  • Error "vecscale: parameters must have data" in water interaction step of FFTK (Mon Nov 16 2020 - 08:49:36 CST)
• Alexandre Vakhrouchev
  • (no subject) (Wed Nov 19 2003 - 02:11:14 CST)
  • Re: POV-Ray (Wed Nov 12 2003 - 03:33:03 CST)
  • (no subject) (Thu Nov 06 2003 - 06:43:18 CST)
  • VMD and Mandrake Linux 9.1 (Thu Nov 06 2003 - 02:59:04 CST)
• Alexe Bojovschi
  • Small molecules alignment with VMD (Sun Jun 04 2006 - 23:16:47 CDT)
• Alexei Podtelezhnikov
  • RE: dihedral angles cleaned up (Fri Aug 05 2005 - 17:47:13 CDT)
  • dihedral angles cleaned up! (Thu Aug 04 2005 - 11:19:31 CDT)
  • dihedral angles cleaned up (Thu Aug 04 2005 - 10:09:38 CDT)
• Alexei Rossokhin
  • (no subject) (Mon Jul 10 2023 - 07:26:50 CDT)
  • covalent bond (Wed Jul 05 2023 - 09:18:37 CDT)
  • water bridges (Wed Jun 15 2022 - 09:14:46 CDT)
  • Re: energy partitioning (Thu Oct 28 2021 - 09:14:27 CDT)
  • energy partitioning (Tue Oct 26 2021 - 06:19:49 CDT)
• Alexey Kozlenkov
  • python disabled (Wed Jan 30 2002 - 14:53:54 CST)
  • 3 simple questions from a newbie (Mon Jul 23 2001 - 07:01:43 CDT)
• Alexis Salas
  • problem with DPPC topology (Tue Mar 08 2005 - 14:29:43 CST)
  • Activation energy (Thu Aug 19 2004 - 13:33:36 CDT)
  • Solvating with TIP4 or SPC (Tue Aug 03 2004 - 16:01:03 CDT)
  • TIP3 by TIP4 (Tue Aug 03 2004 - 13:57:40 CDT)
  • How i can changue the charge of my protein (Mon Aug 02 2004 - 13:13:06 CDT)
• Alfred Shaohui Zheng
  • how to draw the bonds in VMD? (Sat Sep 06 2008 - 03:07:16 CDT)
• Alfredo Quevedo
  • Re: Question about the Main Menu window display (Wed Oct 15 2008 - 13:31:58 CDT)
  • Question about the Main Menu window display (Fri Oct 10 2008 - 14:15:47 CDT)
• Alfredo Valles
  • Re: Python's future in VMD (Tue Sep 30 2003 - 08:01:05 CDT)
  • python question 2 (Mon Aug 25 2003 - 04:02:10 CDT)
  • python question (Sat Aug 23 2003 - 09:41:37 CDT)
  • hi (Sat Aug 23 2003 - 06:15:08 CDT)
• Ali Ahmed
  • Reading DL_POLY trajectory (Sat May 26 2018 - 20:02:17 CDT)
• Ali Alizadeh
  • Re: writing improper dihedral in topotools, (Wed Aug 13 2014 - 00:33:51 CDT)
  • writing improper dihedral in topotools, (Tue Aug 12 2014 - 16:31:15 CDT)
  • snapshot including molecules in a distance interval (Mon May 26 2014 - 05:55:37 CDT)
  • Re: Webinar on VMD's use of GPUs to accelerate MD visualization and analysis (Mon Feb 24 2014 - 10:07:36 CST)
  • Re: Webinar on VMD's use of GPUs to accelerate MD visualization and analysis (Mon Feb 24 2014 - 02:00:02 CST)
  • Re: Atomic trajectory to COM trajectory, (Wed Feb 05 2014 - 14:20:17 CST)
  • Re: Atomic trajectory to COM trajectory, (Wed Feb 05 2014 - 05:31:39 CST)
  • Re: Atomic trajectory to COM trajectory, (Tue Feb 04 2014 - 15:21:03 CST)
  • Re: self-diffusion coefficient from RMSD (Fri Jan 31 2014 - 12:45:41 CST)
  • Re: self-diffusion coefficient from RMSD (Thu Jan 30 2014 - 06:57:55 CST)
  • Re: Atomic trajectory to COM trajectory, (Wed Dec 11 2013 - 17:29:26 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 13:13:49 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 12:43:57 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 10:26:49 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 09:55:58 CST)
  • Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 07:09:30 CST)
  • Re: Add a gap in my simulation (Thu Sep 05 2013 - 14:41:00 CDT)
  • Add a gap in my simulation (Thu Sep 05 2013 - 11:40:46 CDT)
  • Add a gap in my simulation (Thu Sep 05 2013 - 11:36:54 CDT)
  • Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 16:07:29 CDT)
  • Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 15:03:10 CDT)
  • Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 12:42:56 CDT)
  • Considering special bonds not all of bonds, (Wed Aug 07 2013 - 08:03:40 CDT)
  • Re: Dihedrals (Wed Jun 05 2013 - 10:22:45 CDT)
  • Re: Dihedrals (Wed Jun 05 2013 - 09:28:19 CDT)
  • Dihedrals (Wed Jun 05 2013 - 07:48:14 CDT)
  • Re: problem with g(r) (Sun Feb 10 2013 - 03:01:41 CST)
  • problem with g(r) (Sat Feb 09 2013 - 08:29:46 CST)
• Ali Deyhim
  • Re: free sample!!! (Wed May 09 2001 - 10:35:13 CDT)
• Ali Khanlarkhani
  • Convergence of the Gram-Charlier expansion (Wed Sep 26 2012 - 15:24:20 CDT)
  • Convergence of the Gram-Charlier expansion (Wed Sep 26 2012 - 15:25:54 CDT)
  • Convergence of the Gram-Charlier expansion (Wed Sep 26 2012 - 10:36:37 CDT)
• Ali Morshedi
  • Re: Creating and using a tk button (Tue Apr 09 2019 - 01:22:22 CDT)
  • Creating and using a tk button (Sun Apr 07 2019 - 03:34:39 CDT)
• Ali Osman Acar
  • Re: Loading files (Wed Apr 07 2021 - 15:50:54 CDT)
  • Re: Loading files (Wed Apr 07 2021 - 14:07:11 CDT)
• Ali Sheikholeslam
  • Needing to visualize lots of spheres during solution steps (Tue Jan 25 2022 - 13:34:14 CST)
• Ali, Rejwan
  • RE: Issues with Paratools and Gaussian (Wed Jan 12 2011 - 12:13:54 CST)
  • FW: Issues with Paratools and Gaussian (Wed Jan 12 2011 - 11:57:16 CST)
  • RE: Issues with Paratools and Gaussian (Wed Jan 12 2011 - 11:54:33 CST)
  • Issues with Paratools and Gaussian (Tue Jan 11 2011 - 14:51:18 CST)
• ali.kamrani91_at_REMOVE_yahoo.com
  • Transparent QuickSurf (Tue May 26 2020 - 12:29:29 CDT)
• Aliakbartehrani Zahra
  • Dynamical network analysis-NetworkView-error (Mon Nov 25 2019 - 04:56:22 CST)
• Aliasghar Alizadeh-Mojarad
  • Re: merging independent dcd files, (Thu Jul 28 2016 - 14:35:26 CDT)
  • merging independent dcd files, (Tue Jul 26 2016 - 22:05:10 CDT)
  • much larger diameter of ssDNA, (Sat Jun 04 2016 - 04:22:41 CDT)
• Alicia Hopkins
  • measuring h-bonds (Sun Sep 19 2004 - 08:42:12 CDT)
  • measuring h-bonds (Thu Sep 16 2004 - 09:24:33 CDT)
  • measuring h-bond distances (Sat Sep 11 2004 - 12:01:58 CDT)
• Alilovic,Kata
  • RBCG models using Martini forces - psf file (Mon Jul 13 2020 - 09:13:19 CDT)
  • Re: Unable to create PSF file (Fri Jul 03 2020 - 12:55:10 CDT)
  • Unable to create PSF file (Thu Jul 02 2020 - 16:04:29 CDT)
• Alin Marin Elena - UKRI STFC
  • Re: VR (Wed Aug 22 2018 - 15:49:22 CDT)
• Alin-Marin Elena - STFC UKRI
  • Re: VMD high DPI (Fri Jul 30 2021 - 03:06:33 CDT)
• Alisha \
  • cyclic peptides (Fri Jul 22 2011 - 13:09:55 CDT)
  • Mutating a residue to a nonstandard amino acid (Tue Jul 19 2011 - 16:14:56 CDT)
• Alison Grinthal
  • list of residue contacts (Wed Sep 23 2009 - 15:02:23 CDT)
  • Re: measure rmsf (Fri Jul 10 2009 - 13:10:14 CDT)
  • measure rmsf (Fri Jul 10 2009 - 08:31:26 CDT)
  • alignment (Fri Jun 19 2009 - 09:45:28 CDT)
  • movie maker (Tue Jun 16 2009 - 09:44:48 CDT)
  • helix axes (Tue Mar 31 2009 - 07:34:56 CDT)
  • center of mass (Mon Jan 12 2009 - 13:51:43 CST)
  • plotting on Mac (Fri Aug 10 2007 - 14:50:11 CDT)
  • overlay (Tue May 29 2007 - 15:58:18 CDT)
  • overlay (Mon May 28 2007 - 06:45:38 CDT)
• ALIYUN
  • how to make the structures in the movie look better (Mon Sep 29 2014 - 05:06:14 CDT)
• Allen, Caley R
  • Positioning protein on membrane-water interface (Fri Jun 17 2016 - 14:27:23 CDT)
  • SMD Force TCL Script in NAMD (Sun May 01 2016 - 19:54:09 CDT)
  • Re: FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Mon Jan 27 2014 - 12:32:45 CST)
  • Re: FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Thu Jan 23 2014 - 16:00:54 CST)
  • FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Thu Jan 23 2014 - 13:37:06 CST)
• Allison Rossetto
  • Re: Command not found Error (Thu Feb 14 2013 - 11:55:58 CST)
  • Command not found Error (Mon Feb 11 2013 - 16:02:50 CST)
• Allison, Jane
  • PhD and postdoctoral positions in biomolecular simulation (Thu Jan 07 2016 - 15:50:48 CST)
• Almeida-Hernández, Yasser, Dr.
  • Re: Re: FFTK Opt Torsions: can not find channel named "" (Tue Sep 29 2020 - 11:49:53 CDT)
  • Re: FFTK Opt Torsions: can not find channel named "" (Tue Sep 29 2020 - 04:25:09 CDT)
  • FFTK Opt Torsions: can not find channel named "" (Mon Sep 28 2020 - 05:45:50 CDT)
  • Re: New LAMMPS atom style for TopoTools (Thu Aug 20 2020 - 03:16:52 CDT)
• Almira Ovagimyan
  • Re: Tcl (Fri Jul 19 2019 - 02:14:51 CDT)
  • Tcl (Thu Jul 18 2019 - 07:36:15 CDT)
  • Tcl (Thu Apr 11 2019 - 15:20:42 CDT)
• Althea Lake
  • You and a Rolex watch (Tue Apr 15 2008 - 17:12:00 CDT)
• Alvea Tasneem
  • measure sasa algorithm? (Fri Jan 06 2023 - 11:25:23 CST)
  • Issue in wat_hbond.tcl script (Thu Mar 24 2022 - 12:47:24 CDT)
  • Any TCL script to identify specific MD water molecules with their respective IDs, forming hbond with certain residues in every frame (Wed Feb 02 2022 - 11:48:23 CST)
• Amadeu
  • Re: povray problem: degenerate cylinder (Fri May 05 2006 - 09:48:43 CDT)
  • povray problem: degenerate cylinder (Fri May 05 2006 - 07:09:51 CDT)
• Amali Guruge
  • VMD Slices (Wed May 06 2020 - 19:38:02 CDT)
• Aman Jindal
  • Re: Adding Hydroxide Ions to the simulation box (Wed Mar 21 2018 - 00:56:31 CDT)
  • Adding Hydroxide Ions to the simulation box (Tue Mar 20 2018 - 01:56:10 CDT)
  • Unable to build a symmetric (m=0) zigzag BN nanotube in VMD (Wed Feb 28 2018 - 01:29:20 CST)
  • replicating a trajectory in VMD (Sun Mar 19 2017 - 06:01:28 CDT)
  • Re: change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 06:26:33 CST)
  • Re: change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 07:15:31 CST)
  • labeling index of atoms of a particular type (Sat May 14 2016 - 05:19:40 CDT)
• Amanda Jenkins
  • Re: Ramachandran Dihedral Angles Suspiciously Constant (Sun Sep 25 2022 - 21:35:55 CDT)
  • Re: Ramachandran Dihedral Angles Suspiciously Constant (Sat Sep 24 2022 - 21:22:13 CDT)
  • Re: Ramachandran Dihedral Angles Suspiciously Constant (Sat Sep 24 2022 - 17:20:27 CDT)
  • Re: Ramachandran Dihedral Angles Suspiciously Constant (Fri Sep 23 2022 - 21:19:26 CDT)
  • Ramachandran Dihedral Angles Suspiciously Constant (Fri Sep 23 2022 - 05:14:30 CDT)
• Amarda Shehu
  • Re: how to reset a timed out connection (Tue Apr 24 2007 - 13:55:24 CDT)
  • how to reset a timed out connection (Tue Apr 24 2007 - 09:23:44 CDT)
  • Re: Best fit plane axis (Fri Dec 08 2006 - 14:21:19 CST)
  • special instructions in psfgen for circular proteins? (Thu Mar 30 2006 - 16:50:02 CST)
  • understanding NOE restraints (Mon May 02 2005 - 18:56:34 CDT)
  • criteria for detecting hydrogen bonds (Sun Apr 17 2005 - 18:14:21 CDT)
  • handling electron density maps (.mrc and .map files) (Sat Dec 18 2004 - 15:29:30 CST)
  • outputing xyz coordinates of selection (Sat Oct 23 2004 - 14:58:21 CDT)
  • Re: superimposing frames (Wed Sep 22 2004 - 12:16:56 CDT)
  • superimposing frames (Wed Sep 22 2004 - 10:51:57 CDT)
• Amaury Pupo Meriño
  • saltbr plugging problem: too many open files (Fri Dec 21 2007 - 09:31:07 CST)
• Amendra Fernando Hewa Dewage
  • atoms within a radius cutoff and a percentage cutoff of a trajectory (Fri Jun 21 2019 - 15:27:01 CDT)
• Ameya Harmalkar
  • Color specific frames with specific colors in a trajectory (Sat Aug 01 2020 - 17:58:24 CDT)
• Amin Koochaki
  • Re: Coloring of a trajectory with atom types more than 9 (Thu Mar 29 2018 - 14:58:09 CDT)
  • Coloring of a trajectory with atom types more than 9 (Thu Mar 29 2018 - 05:12:36 CDT)
• amin sagar
  • Re: Image render in VMD (Tue Jan 31 2023 - 07:58:50 CST)
  • Using VolMap for center of mass (Mon Aug 10 2020 - 11:16:29 CDT)
  • Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 11:30:24 CDT)
  • Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 05:27:38 CDT)
  • Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 02:54:16 CDT)
  • Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 02:47:31 CDT)
  • Network Path Backtraces (Sat Aug 18 2018 - 13:13:41 CDT)
  • Re: display residues near ligand (Sat Aug 11 2018 - 03:14:12 CDT)
  • Re: split multi frame pdb (Mon Jul 30 2018 - 00:57:09 CDT)
  • Drastically different number of suboptimal paths in similar simulations (Tue Apr 10 2018 - 10:17:54 CDT)
  • Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:36:17 CST)
  • Re: selecting residues within 5-10A of another molecule (Wed Jan 10 2018 - 23:57:28 CST)
  • Re: Smoothening labels in vmd (Tue Oct 10 2017 - 10:57:57 CDT)
  • Re: Error while using Alanine Scanning Plugin (Fri Sep 01 2017 - 08:33:17 CDT)
  • Re: Error while using Alanine Scanning Plugin (Thu Aug 31 2017 - 01:28:35 CDT)
  • Error while using Alanine Scanning Plugin (Tue Aug 29 2017 - 08:37:47 CDT)
• amin_at_imtech.res.in
  • RE: Problem while using multiseq (Sun Dec 25 2016 - 07:57:03 CST)
  • Problem while using multiseq (Thu Dec 22 2016 - 08:01:57 CST)
  • Calculate angles using fit_angle.tcl (Sat Oct 15 2016 - 03:25:48 CDT)
  • Re: removing water from dcd file (Tue Mar 18 2014 - 12:03:26 CDT)
  • Re: how to visualize water movement over trajectory (Sun Apr 07 2013 - 02:12:49 CDT)
  • Re: Solvating protein in water sucrose solution (Tue Nov 06 2012 - 22:18:43 CST)
  • Solvating protein in water sucrose solution (Tue Nov 06 2012 - 11:01:17 CST)
  • RE: Joining DCD files with overlapping frames. (Fri Jul 20 2012 - 08:53:47 CDT)
  • RE: Joining DCD files with overlapping frames (Fri Jul 20 2012 - 05:21:58 CDT)
  • Joining DCD files with overlapping frames. (Thu Jul 19 2012 - 21:53:08 CDT)
  • Re: gromacs trajectory file (Thu May 03 2012 - 02:51:23 CDT)
  • Re: Free software for building peptide (Wed May 02 2012 - 04:06:30 CDT)
  • Re:Problem with generating psf using CGENFF (Fri Apr 27 2012 - 22:46:21 CDT)
  • Re:Problem with generating psf using CGENFF (Fri Apr 27 2012 - 22:35:16 CDT)
  • RE: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 23:34:55 CDT)
  • Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 13:00:01 CDT)
  • Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 12:26:50 CDT)
  • Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 11:37:56 CDT)
  • Problem with generating psf using CGENFF (Thu Apr 26 2012 - 04:42:40 CDT)
  • segmentation fault with NAMDenergy (Thu Apr 19 2012 - 20:12:53 CDT)
  • Simulations with alpha methylated amino acids (Wed Mar 14 2012 - 20:17:04 CDT)
• Amir Afshar
  • Re: Build graphene sheets using VMD (Thu Feb 20 2020 - 16:12:17 CST)
  • Build graphene sheets using VMD (Thu Feb 20 2020 - 15:47:46 CST)
  • Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 17:14:23 CST)
  • Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 15:18:32 CST)
  • Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 13:31:55 CST)
  • Check and remove the overlapping between atoms (Sat Feb 15 2020 - 10:26:43 CST)
• Amir Hajiahmadi Farmahini
  • RDF and Coordination Number (Fri May 28 2010 - 05:40:15 CDT)
  • Re: Atom Selection for RDF (Sat May 22 2010 - 12:15:36 CDT)
  • Atom Selection for RDF (Sat May 22 2010 - 09:19:18 CDT)
• Amir Hossein Saeedi Dehaghani
  • Deleting a given bond type by topo tool (Wed Jul 18 2018 - 07:15:40 CDT)
  • Deleting a given bond type by topo tool (Tue Jul 17 2018 - 02:58:20 CDT)
• Amir Suhail
  • Re: topotool lammps data_file viewing (Sun Sep 06 2020 - 06:50:38 CDT)
  • NAMD .coor file to pdb, WRITE PDB ERROR. (Thu Oct 03 2019 - 05:27:35 CDT)
  • solvate protein in triclinic box (Wed Oct 02 2019 - 10:37:26 CDT)
• Amir Zeb
  • VMD Error: vecsub: two vectors don't have the same size (Thu Aug 26 2021 - 02:03:51 CDT)
  • how to solvate the membrane in vmd?? (Thu Aug 05 2021 - 07:55:38 CDT)
  • Autopsf error (Mon Jul 05 2021 - 21:48:42 CDT)
• Amira Yu
  • Re: Charge optimization in ffTK (Thu Nov 05 2015 - 07:20:32 CST)
  • Re: Charge optimization in ffTK (Wed Nov 04 2015 - 14:05:26 CST)
  • Charge optimization in ffTK (Wed Nov 04 2015 - 09:09:39 CST)
  • ffTK charge optimizations (Fri Oct 30 2015 - 09:22:24 CDT)
  • Re: IR Spectroscopy plugin questions (Wed Jun 03 2015 - 20:42:41 CDT)
  • IR Spectroscopy plugin questions (Wed Jun 03 2015 - 17:39:49 CDT)
  • FFTK: Running optimizations in batch? (Wed Mar 25 2015 - 22:09:15 CDT)
• amirhossein taghavi
  • VMD warnings (Fri Oct 24 2014 - 01:58:41 CDT)
  • select a group of atoms/distance measurement (Fri Sep 26 2014 - 07:59:17 CDT)
• Amit
  • Small molecules (Fri Oct 12 2007 - 18:02:51 CDT)
• amit dong
  • glycerol box (Thu Jun 28 2007 - 11:14:12 CDT)
  • H-bonds (Tue Apr 24 2007 - 10:58:13 CDT)
  • contact map (over all frames) (Fri Apr 13 2007 - 15:53:24 CDT)
  • H-bond energy (Thu Jan 18 2007 - 18:13:11 CST)
• Amit Gupta
  • Re: Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 04:16:44 CDT)
  • Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 01:41:09 CDT)
  • Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 07:30:10 CST)
  • Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 02:58:58 CST)
  • Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 00:32:03 CST)
  • Rendering images like those shown on VMD home page (Fri Jan 13 2017 - 22:57:34 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 09:54:03 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:25:02 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 06:28:54 CST)
  • Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 03:45:40 CST)
  • Draw arrows in trajectory file (Tue Dec 20 2016 - 00:31:18 CST)
• Amit Jaiswal
  • Re: Reg: Peptide dimer (Wed Oct 01 2014 - 23:12:13 CDT)
  • Reg: Peptide dimer (Wed Oct 01 2014 - 03:42:30 CDT)
  • Reg: Peptide dimer (Tue Sep 30 2014 - 06:18:14 CDT)
  • Re: vmd-l digest V1 #2344 (Sun Mar 24 2013 - 02:26:04 CDT)
• amit kunte
  • Re: Dynamic number of atoms visualization (Sat Jul 20 2013 - 07:31:42 CDT)
  • Dynamic number of atoms visualization (Sat Jul 20 2013 - 05:36:19 CDT)
  • Visualise variable atoms (Thu Jun 27 2013 - 01:34:09 CDT)
  • variable atoms visualization (Wed Jun 26 2013 - 23:28:17 CDT)
  • Change atom color dynamically. (Wed Jun 05 2013 - 02:12:49 CDT)
• Amit Paliwal
  • dcd to coor files (Fri May 14 2004 - 15:18:26 CDT)
  • Re: trouble loading dcd files (Sun May 09 2004 - 09:48:37 CDT)
  • Re: RE: trouble loading dcd files (Sun May 09 2004 - 09:53:07 CDT)
  • trouble loading dcd files (Sat May 08 2004 - 23:43:13 CDT)
• amit_at_mbu.iisc.ernet.in
  • Dynamic selection of residues on a trajectory (Tue Nov 07 2006 - 11:07:13 CST)
  • Dynamic selection of residues on a trajectory (Tue Nov 07 2006 - 10:45:19 CST)
  • Selection of residues in a trajectory (Tue Oct 31 2006 - 13:50:23 CST)
• Amnah Alalmaie
  • VR movie (Wed Aug 25 2021 - 21:18:01 CDT)
  • Place complex in the center (Wed May 12 2021 - 14:13:11 CDT)
  • Problem with the Box (Thu Mar 18 2021 - 15:43:30 CDT)
• amodzelewska_at_dns.iimcb.gov.pl
  • autoionize script (Sun May 16 2004 - 13:21:58 CDT)
• amodzelewska_at_iimcb.gov.pl
  • Re: error when solvating protein/vmd1.8.4a22 (Tue Nov 08 2005 - 08:44:30 CST)
• Amor San Juan
  • VMD: Ability to add terminal carbonyl oxygen (Sun Nov 07 2010 - 23:32:20 CST)
• Amr Rizq
  • RE: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 09:20:20 CST)
  • RE: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 08:55:33 CST)
  • Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 06:00:58 CST)
  • Equivalent Mouse Capabilities to Tracker CAVELib (Mon Feb 09 2009 - 07:06:26 CST)
• Amrit Kalra
  • Viewing Amber6 trajectory with VMD 1.8.1 (Mon Oct 20 2003 - 01:21:03 CDT)
• Amy Rice
  • Re: Difference in ParseFEP result with versions 1.9.2 and 2.1 (Tue Feb 19 2019 - 10:34:03 CST)
  • Difference in ParseFEP result with versions 1.9.2 and 2.1 (Mon Feb 18 2019 - 15:16:00 CST)
  • Re: Custom Water Box (Wed Jul 27 2016 - 12:46:51 CDT)
  • Re: ffTK: Charge optimization (Tue Sep 22 2015 - 11:26:48 CDT)
  • ffTK: Charge optimization (Thu Sep 17 2015 - 14:39:05 CDT)
• Ana Celia Araujo Vila Verde
  • RE: tcl variable withing variable name (Thu Apr 19 2007 - 10:29:43 CDT)
  • RE: Calculate End-End distance for DCD (Tue Mar 13 2007 - 16:17:48 CDT)
  • RE: Delete frames in a script (Tue Jan 30 2007 - 10:08:50 CST)
  • RE: rotation to align (Fri Jan 19 2007 - 07:59:55 CST)
  • script to load dcds from Replica Exchange simulations by Temperature (Mon Jan 15 2007 - 17:30:44 CST)
  • RE: imposing period boundary conditions in a simulation with a crystal (Wed Sep 06 2006 - 08:31:59 CDT)
  • imposing period boundary conditions in a simulation with a crystal (Tue Sep 05 2006 - 11:13:06 CDT)
  • Re: problem with measure command (Fri Jun 23 2006 - 11:02:14 CDT)
  • problem with measure command (Fri Jun 23 2006 - 10:22:49 CDT)
  • the crystal structure of gold: questions about making the psf and about visualization in VMD; update (Tue May 23 2006 - 14:47:00 CDT)
  • the crystal structure of gold: questions about making the psf and about visualization in VMD (Tue May 23 2006 - 11:36:54 CDT)
  • RE: problem with script to get RMSD-solved (Tue Feb 21 2006 - 10:53:16 CST)
  • RE: problem with script to get RMSD (Fri Feb 17 2006 - 14:10:10 CST)
  • RE: problem with script to get RMSD (Fri Feb 17 2006 - 08:41:20 CST)
  • RE: problem with script to get RMSD (Thu Feb 16 2006 - 15:49:23 CST)
  • problem with script to get RMSD (Thu Feb 16 2006 - 13:31:28 CST)
  • RE: printing to a file from a procedure to get RMSD (Thu Feb 02 2006 - 08:35:30 CST)
  • printing to a file from a procedure to get RMSD (Tue Jan 31 2006 - 10:28:37 CST)
  • psfgen error: MOLECULE DESTROYED BY FATAL ERROR (Tue Nov 22 2005 - 13:13:15 CST)
• Ana Celia Vila Verde
  • Re: a question about g(r) (Thu Mar 03 2016 - 09:30:18 CST)
  • Re: A nanosphere with mass (Mon Feb 01 2016 - 01:55:14 CST)
  • possible issue with specden package (Mon Nov 23 2015 - 09:19:35 CST)
  • a question regarding the signalproc package (Thu Jul 09 2015 - 10:34:08 CDT)
  • Fwd: namd-l: Free Energy Workshop, Münster, March 9-11, 2015 (Fri Jan 09 2015 - 06:34:01 CST)
  • Fwd: namd-l: Free Energy Workshop, Münster, March 9-11, 2015 (Fri Jan 09 2015 - 03:35:00 CST)
  • Re: Protein went out of the Box (Mon Sep 29 2014 - 09:21:18 CDT)
  • Re: measure hbonds in VMD tcl script (Fri Sep 19 2014 - 06:31:36 CDT)
  • Re: measure hbonds in VMD tcl script (Fri Sep 19 2014 - 05:57:45 CDT)
  • Re: Selection along line in 3D (Sat Sep 06 2014 - 03:39:38 CDT)
  • Re: hbonds (Tue Jul 15 2014 - 06:56:42 CDT)
  • Re: number of water molecules within 5 angstroms of the ligand (Tue May 06 2014 - 01:35:14 CDT)
  • Re: topology file for metal in the protein (Fri Aug 10 2012 - 02:30:51 CDT)
  • Re: Selecting based on parameters from another file (Fri Aug 10 2012 - 02:23:27 CDT)
  • Re: diffusion coefficient plug-in in VMD (Tue May 08 2012 - 11:17:41 CDT)
  • Re: counting specific atom types (Tue May 08 2012 - 09:31:23 CDT)
  • Re: get avg ca distance (Fri Mar 09 2012 - 02:10:56 CST)
  • Re: Using VMD to plot coordination number of solvated ion v/s time (Fri Mar 02 2012 - 10:15:23 CST)
  • possible memory leak with pbc wrap (Fri Feb 24 2012 - 09:16:59 CST)
  • package ::struct::set not available (Thu Jan 26 2012 - 08:36:56 CST)
  • RE: a question about dcd files (Thu Feb 02 2006 - 08:32:35 CST)
  • a question about dcd files (Wed Feb 01 2006 - 13:53:39 CST)
• Ana Célia Vila Verde
  • problem with density map obtained by volmap (Sun Sep 20 2009 - 08:01:12 CDT)
• Ana Vila Verde
  • Re: measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 05:54:50 CDT)
  • measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 02:54:08 CDT)
• Anand Kaushal
  • python callback!!!! (Wed Jul 28 2004 - 16:19:15 CDT)
• Ananyo Bandyopadhyay
  • Creating a cuboid box to fit in atoms (Thu Sep 25 2008 - 13:29:15 CDT)
  • Movie maker problem in VMD (Wed Sep 24 2008 - 11:11:14 CDT)
• anas forum
  • How to create a color ramp in VMD? (Wed Oct 27 2021 - 06:55:37 CDT)
• Anatoliy
  • question about ionization (Wed Nov 07 2007 - 12:10:12 CST)
  • question about water sphere script (Mon Nov 05 2007 - 11:21:54 CST)
• Anatoly Chernyshev
  • PSFgen failure (Mon Nov 05 2018 - 07:13:11 CST)
• Anders Gabrielsson
  • PMEPot plugin: epilon-surface (Wed Sep 16 2015 - 04:29:29 CDT)
  • Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 11:18:18 CDT)
  • Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 10:56:20 CDT)
  • Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 10:19:26 CDT)
  • Interactive Optix ray tracing on multiple GPUs? (Tue Aug 25 2015 - 09:08:04 CDT)
• Andras Borosy
  • automatic extraction of RMSD values of the heavy atoms of residues from NAMD output? (Tue Aug 05 2014 - 03:10:51 CDT)
• andras.borosy_at_givaudan.com
  • unique opportunity - 20% discount for the EuroQSAR 2006 (Tue Aug 15 2006 - 10:54:04 CDT)
  • Periodic builder? (Tue Aug 08 2006 - 07:26:51 CDT)
• Andre Farias de Moura
  • Re: mpg image speed (Mon Apr 11 2005 - 09:40:46 CDT)
  • drawing the edges of a non-rectangular box (Fri Mar 11 2005 - 06:17:46 CST)
  • center of mass position (Tue Aug 24 2004 - 07:07:24 CDT)
• andre padilla
  • macosx 10.6 compilation issue (Thu Apr 19 2018 - 07:23:47 CDT)
  • source download (Mon Apr 16 2018 - 08:17:40 CDT)
• andrea
  • Re: GTP and GDP parameter files (Wed Oct 15 2014 - 15:38:14 CDT)
  • Re: Making trajectory movie last longer. (Wed Sep 03 2014 - 09:38:21 CDT)
• Andrea Bernini
  • H-bonds? (Wed Mar 05 1997 - 06:36:47 CST)
• Andrea Carotti
  • Bigdcd and Namdenergy batch problem (Wed Feb 24 2010 - 10:21:34 CST)
  • Atom sorting according to resid (Wed Oct 21 2009 - 10:16:33 CDT)
  • CatDCD Desmond Support (Wed Oct 07 2009 - 10:31:53 CDT)
  • SAS values for a residue (Wed Jul 27 2005 - 07:58:45 CDT)
  • Re: Script for automated selection (Wed Jun 22 2005 - 03:28:54 CDT)
  • Script for automated selection (Mon Jun 20 2005 - 09:38:51 CDT)
• Andrea Cristiani
  • Fixed number of solvatation water (Wed Apr 25 2007 - 04:56:41 CDT)
• Andrea Holfelder
  • Re: Saving ionized.psf from add ions plug in of VMD (Wed Aug 31 2011 - 14:27:04 CDT)
  • Saving ionized.psf from add ions plug in of VMD (Wed Aug 31 2011 - 10:35:45 CDT)
• Andrea Kirkpatrick
  • psfgen, mutate, and multiple chains (Mon Jul 09 2012 - 17:31:35 CDT)
• Andrea Spitaleri
  • Re: Accessing tachyon optix from commandline and dat file generation (Tue Apr 04 2017 - 05:04:45 CDT)
  • Re: Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 02:36:37 CDT)
  • open position in Computational Physics (Tue Mar 08 2016 - 06:00:24 CST)
  • Re: Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 07:35:06 CDT)
  • Re: Problems_calling_VMD_remotely_from_cluster (Tue Sep 29 2015 - 10:58:41 CDT)
  • Re: nvidia cuda mismatch (Sun Aug 23 2015 - 11:21:05 CDT)
  • Re: nvidia cuda mismatch (Wed Aug 19 2015 - 02:02:47 CDT)
  • Re: nvidia cuda mismatch (Tue Aug 18 2015 - 04:10:24 CDT)
  • nvidia cuda mismatch (Thu Aug 13 2015 - 10:58:39 CDT)
  • Re: Updated VMD 1.9.2. Gromacs plugins posted for download (Tue Apr 14 2015 - 01:46:02 CDT)
  • Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 08:23:58 CDT)
  • Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 08:14:50 CDT)
  • crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 07:14:52 CDT)
  • Re: optixRender error (Sun Jan 25 2015 - 15:45:57 CST)
  • optixRender error (Fri Jan 23 2015 - 12:37:43 CST)
  • Re: AW: AW: The quality of movie made by VMD (Thu Jan 22 2015 - 04:40:35 CST)
  • Re: AW: ion visualization in VMD (Thu Jan 22 2015 - 04:30:00 CST)
  • Re: transparent material: set different opacity (Fri Mar 08 2013 - 09:19:38 CST)
  • transparent material: set different opacity (Fri Mar 08 2013 - 08:19:14 CST)
  • Re: About PLUMED with NAMD VMD (Thu Feb 28 2013 - 02:46:34 CST)
  • Re: silly rmsd script doesn' t work ... (Fri May 30 2008 - 08:28:40 CDT)
  • silly rmsd script doesn' t work ... (Fri May 30 2008 - 07:17:16 CDT)
  • Re: resolution screen in Linux (Mon Apr 28 2008 - 02:54:15 CDT)
  • resolution screen in Linux (Thu Apr 24 2008 - 07:33:24 CDT)
  • color by frame? (Mon May 07 2007 - 04:58:40 CDT)
  • rmsf (Tue Sep 19 2006 - 10:40:15 CDT)
  • select only border of the water box (Fri Aug 04 2006 - 04:41:00 CDT)
  • Re: number of frames in pdb file? (Fri May 26 2006 - 03:01:41 CDT)
  • rms and align strucs (Wed Apr 19 2006 - 06:05:50 CDT)
  • contact map lig-pro (Wed Apr 19 2006 - 05:37:23 CDT)
  • Re: dict command (Thu Apr 06 2006 - 02:43:21 CDT)
  • dict command (Wed Apr 05 2006 - 09:44:50 CDT)
  • find neighbour ligand-protein (Thu Mar 23 2006 - 08:53:40 CST)
  • Re: VMD script (Tue Mar 14 2006 - 05:05:00 CST)
  • Re: VMD script (Mon Mar 13 2006 - 04:19:55 CST)
  • Re: tcl-reading files (Mon Feb 13 2006 - 08:42:49 CST)
  • Re: vmd installation on the server (Tue Jan 31 2006 - 03:25:19 CST)
  • vmd installation on the server (Mon Jan 30 2006 - 09:31:46 CST)
  • contact map [Re: vmd-xplor and noe call ] (Thu Dec 15 2005 - 10:13:30 CST)
  • vmd-xplor and noe call (Thu Dec 15 2005 - 05:16:58 CST)
  • discriminate aromatic ring face (Mon Dec 05 2005 - 09:54:38 CST)
  • Re: s-s bond in vmd not visualized (Mon Dec 05 2005 - 03:24:16 CST)
  • Re: s-s bond in vmd not visualized (Tue Nov 29 2005 - 03:22:52 CST)
  • Re: s-s bond in vmd not visualized (Wed Nov 23 2005 - 03:05:39 CST)
  • s-s bond in vmd not visualized (Tue Nov 22 2005 - 07:03:52 CST)
  • Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 10:16:01 CST)
  • Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 05:31:21 CST)
  • Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 03:42:29 CST)
  • Re: Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 04:14:01 CST)
  • calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 02:50:19 CST)
  • increase size membrane (Fri Nov 04 2005 - 02:58:43 CST)
  • Re: position of protein respect to membrane (Tue Sep 27 2005 - 04:00:31 CDT)
  • Re: position of protein respect to membrane (Tue Sep 27 2005 - 03:41:35 CDT)
  • position of protein respect to membrane (Mon Sep 26 2005 - 09:35:10 CDT)
• Andrea.Cristiani_at_pharm.unige.ch
  • Create a PSF (Fri Sep 21 2007 - 04:16:37 CDT)
• Andreas Kukol
  • Using QwikMD with latest CHARMM36 force fields (Sat Apr 17 2021 - 03:58:22 CDT)
  • RE: QwikMD Glycoside Hydrolase Tutorial step 2 (Fri Apr 26 2019 - 04:30:30 CDT)
  • QwikMD Glycoside Hydrolase Tutorial step 2 (Thu Apr 25 2019 - 10:35:16 CDT)
• Andreas Tosstorff
  • MultiSeq error (Wed Jun 29 2016 - 03:26:50 CDT)
• Andreas Wagenmann
  • Re: Frame creation (Fri Sep 25 2009 - 02:01:27 CDT)
  • Frame creation (Thu Sep 24 2009 - 09:28:50 CDT)
• Andrei A Golosov
  • Re: electrostatic potential maps in vmd (Fri Mar 10 2006 - 12:17:50 CST)
  • electrostatic potential maps in vmd (Fri Mar 10 2006 - 10:52:14 CST)
• Andrei Tudor
  • RE : NVIDIA GeForce GT 750M and CUDA (Sat Oct 26 2013 - 11:32:18 CDT)
  • RE : NVIDIA GeForce GT 750M and CUDA (Sat Oct 26 2013 - 10:26:38 CDT)
  • Vmd visualizing occupancy maps (Tue Aug 13 2013 - 10:21:14 CDT)
  • RE : namd-l: AW: Occupancy maps (Mon Aug 12 2013 - 10:40:27 CDT)
  • Occupancy maps (Fri Aug 09 2013 - 11:27:25 CDT)
  • RE : Replica exchange, colvars & harmonic restraints (Mon Jul 29 2013 - 13:22:45 CDT)
  • Replica exchange, colvars & harmonic restraints (Mon Jul 29 2013 - 11:14:01 CDT)
  • Center a trajectory (Tue Jul 16 2013 - 09:18:15 CDT)
  • Combine volmap occupancy maps (Mon Jul 15 2013 - 14:44:54 CDT)
• Andrej Tekel
  • fftk dihedrals error (Sun Apr 12 2020 - 03:32:05 CDT)
• Andres Bynum
  • Your Pharm4cy 0rder #3747312 (Sat Apr 21 2007 - 19:50:21 CDT)
• Andres Morales
  • Andres Morales sent you a little gift (Sun Apr 11 2010 - 20:33:52 CDT)
• Andres Morales N
  • FW: Disulfide bonds (Tue Oct 13 2009 - 01:02:30 CDT)
  • Disulfude bonds (Tue Oct 13 2009 - 01:00:39 CDT)
  • Average structure and NamdEnergy (Thu Sep 17 2009 - 00:03:36 CDT)
  • Average structure and NamdEnergy (Wed Sep 16 2009 - 14:27:23 CDT)
  • get coordinates (Sat Sep 12 2009 - 12:05:35 CDT)
  • RE: namd-l: Re: rmsd matrix (Thu Sep 03 2009 - 15:00:30 CDT)
  • rmsd matrix (Thu Sep 03 2009 - 07:45:06 CDT)
  • NAMDEnergy Plugin (Tue Jul 28 2009 - 00:34:43 CDT)
  • NAMDEnergy (Wed Jun 10 2009 - 08:59:51 CDT)
  • NAMDEnergy (Sun Jun 07 2009 - 15:23:35 CDT)
  • NAMDEnergy (Sun Jun 07 2009 - 15:24:33 CDT)
  • Energy (Wed Jun 03 2009 - 21:50:41 CDT)
  • Align mistake (Tue May 19 2009 - 11:14:21 CDT)
  • RE: Average strcuture (Tue May 19 2009 - 10:21:28 CDT)
  • Average strcuture (Tue May 19 2009 - 08:51:23 CDT)
  • Translate (Wed May 13 2009 - 22:25:22 CDT)
  • Axes (Wed May 13 2009 - 08:42:45 CDT)
  • Alignment (Mon May 11 2009 - 21:44:55 CDT)
  • Using clustering tool (Fri Apr 24 2009 - 22:56:48 CDT)
  • iTrajComp plugin. (Fri Apr 24 2009 - 22:23:45 CDT)
  • RE: Load multiple files (Thu Feb 12 2009 - 08:59:39 CST)
  • rmsd matrix (Tue Feb 03 2009 - 10:01:28 CST)
  • rmsd matrix (Mon Feb 02 2009 - 10:59:50 CST)
  • get a PDB file from DCD file (Tue Jan 27 2009 - 07:58:23 CST)
  • (no subject) (Mon Jan 26 2009 - 14:37:40 CST)
• Andres Palencia
  • Re: duration of video mpeg (Mon Dec 04 2006 - 06:12:51 CST)
  • Re: duration of video mpeg (Sun Dec 03 2006 - 13:07:28 CST)
  • duration of video mpeg (Sat Dec 02 2006 - 11:39:04 CST)
  • VMD installation problem (Fri Nov 10 2006 - 10:38:41 CST)
• Andrew
  • Re: surface representation question (Thu Dec 09 2010 - 18:47:43 CST)
  • Re: Graphics card for VMD, number of atoms, file format (Mon Nov 08 2010 - 14:29:07 CST)
  • Re: VMD / Tachyon Questions (Tue Jul 06 2010 - 17:05:13 CDT)
  • VMD / Tachyon Questions (Sun Jun 27 2010 - 19:27:21 CDT)
• Andrew Dalke
  • Re: translations with fixed and unfixed molecules (Thu Apr 15 1999 - 23:18:33 CDT)
  • Re: moving molecules and getting the new positions (Tue Mar 30 1999 - 18:50:35 CST)
  • Re: questions about MSMS and H-bonds (Fri Mar 05 1999 - 15:04:39 CST)
  • Re: questions about MSMS and H-bonds (Fri Mar 05 1999 - 14:54:07 CST)
  • Re: extracting distances (Thu Dec 10 1998 - 20:06:25 CST)
  • convex hull and VMD (Mon Sep 28 1998 - 17:31:10 CDT)
  • Re: Transparent graphics (Fri Sep 18 1998 - 12:32:30 CDT)
  • Re: VMDTECH: CONECTing atoms (Mon Aug 24 1998 - 15:01:05 CDT)
  • Re: calculation of RMS values (Wed Aug 19 1998 - 13:49:12 CDT)
  • VMDTECH: CONECTing atoms (Fri Aug 14 1998 - 17:16:26 CDT)
  • Re: The pdb format of vmd (Thu Jan 22 1998 - 12:02:32 CST)
  • protein surface and volume code (Wed Jan 14 1998 - 22:17:10 CST)
  • Re: VMD on a DEC? (Wed Jan 14 1998 - 22:07:30 CST)
  • Re: problem with getting started. (Sun Dec 21 1997 - 11:47:00 CST)
  • Re: unable to animate alanine.dcd (Mon Dec 08 1997 - 13:34:06 CST)
  • Re: unable to animate alanine.dcd (Sun Dec 07 1997 - 23:16:55 CST)
  • Re: tcl script for writinging modified pdb co-ordinates (Thu Dec 04 1997 - 18:41:03 CST)
  • Re: drawing spheres (Wed Nov 19 1997 - 08:03:35 CST)
  • Re: VMD only read 58 frames from XYZ file (Thu Nov 06 1997 - 04:24:54 CST)
  • Re: MSMS in VMD (Wed Oct 15 1997 - 00:30:42 CDT)
  • Re: VMD & PoV files (Wed Oct 08 1997 - 12:12:54 CDT)
  • Re: reading minimalised pdb files (Tue Oct 07 1997 - 04:34:33 CDT)
  • Exporting VMD images to Alias (Thu Jul 24 1997 - 14:28:40 CDT)
  • residue-residue distances and atom selection bug (Tue Jun 10 1997 - 13:05:11 CDT)
  • [VMDTECH] Schedule Change (Fri Apr 18 1997 - 18:07:35 CDT)
  • [VMDTECH] Smoothing Animations (Sun Apr 13 1997 - 01:28:43 CDT)
  • Re: Segmentation error! (Wed Apr 09 1997 - 10:46:36 CDT)
  • [VMDTECH] Tracing Atom Picks (Fri Apr 04 1997 - 18:27:57 CST)
  • [VMDTECH] Morphing (Fri Mar 28 1997 - 12:14:17 CST)
  • Two (small) VMD 1.2b1 bugs (Wed Mar 26 1997 - 13:55:16 CST)
  • Re: [VMDTECH] VMD 1.2b1 is now available (Tue Mar 25 1997 - 03:03:32 CST)
  • [VMDTECH] VMD 1.2b1 is now available (Tue Mar 25 1997 - 02:09:57 CST)
  • [VMDTECH] Drawing Methods, Part II (Fri Mar 14 1997 - 16:40:47 CST)
  • Re: Wavefront obj output (Wed Mar 12 1997 - 15:19:48 CST)
  • [VMDTECH] Drawing Methods, Part I (Fri Mar 07 1997 - 16:22:57 CST)
  • VMD now uses Tcl 7.6 (Wed Mar 05 1997 - 22:47:42 CST)
  • Re: why does VMD quit automatically? (Wed Mar 05 1997 - 11:50:27 CST)
  • Re: H-bonds? (Wed Mar 05 1997 - 09:37:55 CST)
  • Re: why does VMD quit automatically? (Wed Mar 05 1997 - 08:58:34 CST)
  • [VMDTECH] Secondary Structure (Fri Feb 28 1997 - 16:38:21 CST)
  • [VMDTECH] Small things (Fri Feb 21 1997 - 13:02:34 CST)
  • VMD workshop material (Tue Feb 18 1997 - 17:43:13 CST)
  • [VMDTECH] Making Movies (Fri Feb 14 1997 - 12:56:27 CST)
  • [VMDTECH] RMSD and best-fit alignments (Fri Feb 07 1997 - 14:37:24 CST)
  • [Tech] Customizing VMD: hot keys and popup menus (Fri Jan 31 1997 - 12:10:02 CST)
  • Re: textures in VMD and rayshade scripts (Mon Jan 27 1997 - 15:42:15 CST)
  • Re: [Tech] Colors in VMD (Fri Jan 24 1997 - 15:24:38 CST)
  • [Tech] Colors in VMD (Fri Jan 24 1997 - 11:44:45 CST)
  • Special Christmas binary (Fri Dec 20 1996 - 04:01:38 CST)
  • Welcome to VMD-L! (Thu Dec 19 1996 - 11:40:38 CST)
  • Re: Custom VMD script development service for fee (Fri Jun 08 2018 - 06:57:14 CDT)
  • Re: Coloring Scheme Spectrum (Mon May 07 2018 - 11:10:24 CDT)
  • Re: Counting number of water molecules (Wed Dec 09 2009 - 17:20:43 CST)
  • Re: Save State Fails (Thu Jul 23 2009 - 13:11:46 CDT)
  • Re: ResdueType and hydrophobicity scale (Wed Jul 16 2008 - 05:45:13 CDT)
  • Re: What's the main reason of the structure or function of a protein? (Thu Mar 06 2008 - 00:25:03 CST)
  • Re: What's the main reason of the structure or function of a protein? (Wed Mar 05 2008 - 16:32:42 CST)
  • Re: VMD languaje information (Tue Mar 04 2008 - 14:44:16 CST)
  • Re: VMD and Cyclotides... (Tue Apr 05 2005 - 02:59:29 CDT)
  • Re: displaying double, triple bonds (Tue Mar 29 2005 - 17:05:33 CST)
  • Re: atom index starting at 0 (Fri Jan 07 2005 - 17:36:50 CST)
  • Re: Tube representation of alpha carbons (Wed Dec 08 2004 - 01:53:05 CST)
  • Re: Tube representation of alpha carbons (Tue Dec 07 2004 - 19:46:58 CST)
  • Re: Elliptic molecules (Thu Jul 15 2004 - 15:35:47 CDT)
  • Re: Van der Waal's radii of atoms (Wed Jun 02 2004 - 23:21:30 CDT)
  • Re: attempting to source a script (Thu Feb 12 2004 - 08:41:46 CST)
  • Re: "nucleic" selection (Wed Nov 12 2003 - 13:29:15 CST)
  • Re: Python's future in VMD (Tue Sep 30 2003 - 12:19:46 CDT)
  • Re: question about selection (Thu Sep 04 2003 - 18:57:00 CDT)
  • Re: simple question (Tue Sep 02 2003 - 19:40:49 CDT)
  • Re: Some improvements for 1.8.2 (Fri Jul 25 2003 - 20:18:57 CDT)
  • Re: selection (Fri Jul 25 2003 - 18:22:25 CDT)
  • Re: conect2psf (Wed Jul 24 2002 - 04:51:04 CDT)
  • conect2psf (Tue Jul 23 2002 - 23:35:06 CDT)
  • Re: Regular Expression problem with $ (Tue Apr 30 2002 - 20:38:10 CDT)
  • Re: Which drawing method is used in the picture? (Tue Apr 09 2002 - 15:04:19 CDT)
  • Re: boolean operators in graphics (Thu Mar 14 2002 - 22:32:38 CST)
  • Re: Superimposing two frames (Tue Oct 30 2001 - 16:12:03 CST)
  • Re: rasmol script (Tue Mar 20 2001 - 22:45:49 CST)
  • Re: Spheres with OpenGL (was Re: linux graphics adapters?) (Sun Jul 16 2000 - 20:54:55 CDT)
  • Re: VMD and GRASP Qu.II (Thu Jun 15 2000 - 04:23:39 CDT)
• Andrew DeYoung
  • Printing simulation box vectors to the display window (Wed Apr 28 2021 - 15:46:29 CDT)
  • Labeling atoms by index (Fri Aug 15 2014 - 16:46:00 CDT)
  • Tachyon question (Sun Feb 16 2014 - 09:48:37 CST)
  • Why are all carbon atoms lumped into C in the Name category in the colors dialog? (Fri Nov 29 2013 - 11:37:41 CST)
  • Changing the color of atoms of a particular name (Sat Jun 16 2012 - 18:50:47 CDT)
  • RE: Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 16:14:52 CDT)
  • Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 12:27:53 CDT)
  • Using Dipole Moment Watcher with Gromacs configurations and trajectories (Sat May 26 2012 - 12:20:09 CDT)
  • Making only a subset of atoms transparent (or otherwise non-emphasized) (Tue May 15 2012 - 12:49:22 CDT)
  • RE: Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 20:52:13 CDT)
  • Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 20:08:53 CDT)
  • Is it possible to save the position and angle of the camera for future VMD sessions? (Fri Apr 13 2012 - 13:07:20 CDT)
  • Drawing a high resolution transparent or translucent sphere (Wed Apr 11 2012 - 20:37:20 CDT)
  • RE: Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 11:54:56 CDT)
  • Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 10:30:08 CDT)
  • Drawing the simulation box from a Gromacs trajectory (Mon Mar 12 2012 - 12:43:23 CDT)
• Andrew Doig
  • Nanopore Sequencing Tutorial Problem (Thu Feb 02 2023 - 19:07:57 CST)
• Andrew Fenley
  • Re: Mac OS X 64 bit Issues (Tue Nov 15 2011 - 17:47:41 CST)
  • Mac OS X 64 bit Issues (Tue Nov 15 2011 - 15:00:56 CST)
  • Re: color with name (Fri Sep 16 2011 - 16:11:17 CDT)
• Andrew Gormanly
  • RPM spec file (Tue Oct 17 2006 - 08:03:45 CDT)
• Andrew Hall
  • GRASP files (Wed Jun 14 2000 - 10:17:27 CDT)
  • Remote control of VMD on SGI-NT mixture (Wed Apr 26 2000 - 11:11:50 CDT)
  • MSMS help (Mon Apr 03 2000 - 15:04:30 CDT)
• Andrew Huang
  • Bond lengths from PDB and PSF (Mon May 12 2008 - 16:36:18 CDT)
• Andrew James Bennett
  • VMD not loading in Suse 11.1 (Fri Jan 23 2009 - 05:43:05 CST)
• Andrew Jewett
  • Re: Color atoms (Sun Sep 30 2012 - 03:00:13 CDT)
  • Re: questions for trajectory analysis (Wed May 30 2012 - 15:41:25 CDT)
  • Re: Individual components of RMSD? (Tue Mar 06 2012 - 20:31:31 CST)
  • Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 19:24:10 CST)
  • Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Thu Nov 03 2011 - 15:56:37 CDT)
  • Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Thu Nov 03 2011 - 16:07:46 CDT)
  • Re: Compiling vmd 1.9 plugins (Wed Oct 26 2011 - 16:44:48 CDT)
  • Re: a guide for installing vmd-1.8.7 on ubuntu10.10 (LINUXAMD64) (Mon Jan 10 2011 - 22:27:39 CST)
  • a guide for installing vmd-1.8.7 on ubuntu10.10 (LINUXAMD64) (Mon Jan 10 2011 - 19:56:23 CST)
  • Re: menus unresponsive in ubuntu 10.10 (Sun Oct 31 2010 - 18:55:33 CDT)
  • Re: menus unresponsive in ubuntu 10.10 (Sat Oct 30 2010 - 02:22:06 CDT)
  • menus unresponsive in ubuntu 10.10 (Thu Oct 28 2010 - 02:42:15 CDT)
  • request ability to append in CatDCD (and NAMD) (Fri Aug 08 2008 - 14:15:46 CDT)
• Andrew M. Simms
  • RE: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 18:18:16 CDT)
  • RE: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 17:48:11 CDT)
  • mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 11:30:09 CDT)
• Andrew Petersen
  • mol options first and last (Mon Apr 22 2013 - 13:59:06 CDT)
• andrew ritchie
  • aligning multiple trajectories to a single .pdb file (Wed May 18 2011 - 13:30:54 CDT)
• Andrew Watts
  • (no subject) (Fri Apr 23 2004 - 15:26:37 CDT)
• Andrew White
  • PDBx/CIF Problem on New PDBs (Thu Jan 20 2022 - 10:38:44 CST)
• Andrews, Casey
  • RE: Speeding up the VDW drawing method and Tachyon rendering process (Wed Nov 27 2013 - 12:28:22 CST)
  • Speeding up the VDW drawing method and Tachyon rendering process (Tue Nov 26 2013 - 17:53:02 CST)
• Andrés Morales
  • Loop for (Thu May 10 2012 - 18:40:58 CDT)
  • Re: Thickness of bilayer script (Thu Apr 19 2012 - 20:58:35 CDT)
  • Re: Average angle between the lipid dipole vector and the bilayer normal. (Wed Apr 11 2012 - 16:43:01 CDT)
  • Problems with for loop (Tue Apr 10 2012 - 11:43:10 CDT)
  • Average angle between the lipid dipole vector and the bilayer normal. (Mon Apr 09 2012 - 12:55:17 CDT)
  • Average angle between the lipid dipole vector and the bilayer normal. (Mon Apr 09 2012 - 12:45:44 CDT)
  • Re: Change coordinates (Thu Nov 24 2011 - 10:38:15 CST)
  • Change coordinates (Thu Nov 24 2011 - 02:14:02 CST)
  • lipid bilayer thickness (Sun Nov 06 2011 - 00:07:36 CDT)
  • Calculating parameters in lipid bilayers (Thu Oct 20 2011 - 22:04:03 CDT)
  • area per lipid (Thu Oct 20 2011 - 01:12:14 CDT)
• Andy Lam
  • vmd display problem (Sat Nov 30 2013 - 19:22:27 CST)
• Andy Liu
  • Error loading .phi file (Thu May 10 2018 - 19:03:43 CDT)
  • Displaying gaussian cube file produced by Delphi (Mon Apr 30 2018 - 17:04:24 CDT)
• aneamtu_at_iasi.mednet.ro
  • E-D stereo glasses (Sat Mar 03 2007 - 04:44:51 CST)
• aneesh cna
  • Removing an installed Plug-in (Thu Jan 31 2013 - 00:26:49 CST)
  • Re: 'Abort file I/O' key not working (Wed Jan 02 2013 - 23:52:45 CST)
  • 'Abort file I/O' key not working (Fri Dec 28 2012 - 04:59:56 CST)
  • Script for counting water molecules (Mon Nov 08 2010 - 07:06:33 CST)
  • Check out my photos on Facebook (Tue Sep 28 2010 - 04:27:52 CDT)
  • Re: Regarding coordinates transformation (Thu Feb 25 2010 - 23:51:15 CST)
  • Regarding coordinates transformation (Wed Feb 24 2010 - 01:04:27 CST)
  • Space distribution functions (Wed Dec 24 2008 - 23:08:03 CST)
  • atom selection (Wed Dec 03 2008 - 05:32:57 CST)
  • algorithm for finding center of mass of the side chains in the protein (Fri Aug 29 2008 - 07:26:26 CDT)
  • Re: Percentage Helicity calculation in VMD (Fri Feb 01 2008 - 03:18:53 CST)
  • Percentage Helicity calculation in VMD (Thu Jan 31 2008 - 22:54:53 CST)
  • problem with timeline plugin (Fri Jan 25 2008 - 00:12:17 CST)
  • problem with superimposing two proteins (Thu Jan 10 2008 - 05:33:21 CST)
  • Re: Hydrophobicity plots in VMD (Mon Nov 26 2007 - 23:31:43 CST)
  • Re: Hydrophobicity plots in VMD (Mon Nov 26 2007 - 04:09:44 CST)
  • Re: Hydrophobicity plots in VMD (Sat Nov 24 2007 - 22:50:51 CST)
  • Hydrophobicity plots in VMD (Sat Nov 24 2007 - 00:33:38 CST)
  • problem with loading trajectories in timline plugin (Thu Nov 22 2007 - 00:24:00 CST)
  • stride binaries for windows XP OS (Mon Nov 12 2007 - 23:21:34 CST)
  • problem with colouring the surface with electroststic potential (Mon Nov 12 2007 - 23:15:25 CST)
  • problem with timeline plugin (Mon Sep 17 2007 - 05:33:29 CDT)
  • problem regarding timeline (Mon Sep 10 2007 - 10:54:01 CDT)
  • problem regarding stride (Mon Aug 13 2007 - 05:31:32 CDT)
  • problem regarding stride (Mon Aug 13 2007 - 00:58:09 CDT)
• angad sharma
  • Aligning of ions and DNA (Sun Jan 08 2023 - 03:00:11 CST)
  • Re: vmd-l@ks.uiuc.edu (Fri Nov 25 2022 - 00:33:20 CST)
  • vmd-l@ks.uiuc.edu (Tue Nov 22 2022 - 05:06:23 CST)
  • Residence time calculation (Thu Nov 17 2022 - 23:21:43 CST)
  • Residence time of ions (Thu Nov 10 2022 - 00:32:40 CST)
• Angana Ray
  • Re: Query regarding qwrap (Tue Apr 16 2019 - 14:20:04 CDT)
  • Regarding PBC unwrap (Fri Apr 12 2019 - 17:44:45 CDT)
• angel
  • Load (Thu Aug 17 2006 - 13:14:06 CDT)
  • Compiling problem (Mon Jun 19 2006 - 14:23:04 CDT)
  • Compilation propblem (Mon Jun 19 2006 - 12:26:52 CDT)
  • Compilation (Wed May 24 2006 - 17:44:39 CDT)
  • Plugin compilation problem (Thu May 18 2006 - 17:41:16 CDT)
  • Plugin compilation (Fri May 12 2006 - 16:19:47 CDT)
  • Compiling problem (Wed Apr 26 2006 - 14:59:31 CDT)
  • Compiling problem (Fri Mar 31 2006 - 15:57:47 CST)
  • Some errors (Mon Mar 27 2006 - 18:51:51 CST)
• angel_at_cbuc.cl
  • haptics device "novint falcon" (Mon Dec 15 2008 - 09:13:31 CST)
  • paratool dont recognize gaussian output (Fri Dec 12 2008 - 10:10:13 CST)
• Angelo R. Rossi
  • Re: Problem with Starting vmd after Debian System Upgrade (Wed Jun 08 2011 - 07:27:05 CDT)
  • Re:vmd, linux & dri (Tue Feb 13 2001 - 08:20:42 CST)
• Angelo Rossi
  • Problem with Starting vmd after Debian System Upgrade (Tue Jun 07 2011 - 11:26:06 CDT)
  • Re: Need Guidance with pbctools (Sun Jul 12 2009 - 08:02:21 CDT)
  • Need Guidance with pbctools (Sat Jul 11 2009 - 13:47:11 CDT)
• angelo vargas
  • vmd customization (Thu Oct 28 2004 - 03:57:25 CDT)
• Anil Kumar
  • VMD movie from XYZ coordinate if file has two type of atoms (Sun Dec 09 2007 - 22:12:58 CST)
  • Re: VMD movie from XYZ coordinate if file has two type of atoms] (Wed Dec 12 2007 - 01:48:06 CST)
  • Re: VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 21:00:58 CST)
  • VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 04:20:07 CST)
  • VMD movie from XYZ coordinate if file has two type of atoms (Mon Dec 10 2007 - 22:43:49 CST)
• Anirban Ghosh
  • How to generate an index (.ind) file? (Fri Dec 05 2008 - 00:07:49 CST)
  • Re: use configure.options (Mon Nov 17 2008 - 22:34:14 CST)
  • Re: Re: (Tue Nov 11 2008 - 22:27:15 CST)
  • Re: Re: (Tue Nov 11 2008 - 21:59:01 CST)
  • (no subject) (Tue Nov 11 2008 - 07:17:04 CST)
  • CG Map Tool Syntax Error (Wed Nov 05 2008 - 04:48:32 CST)
  • Re: PSFGEN problem with URA residues (Mon Oct 20 2008 - 08:30:49 CDT)
  • Re: Catdcd? (Mon Oct 20 2008 - 06:31:25 CDT)
  • PSFGEN problem with URA residues (Mon Oct 20 2008 - 06:27:06 CDT)
  • Re: Problems after installation (ubuntu 8.04) (Sat Oct 04 2008 - 13:04:09 CDT)
  • Restarting a simulation $ Langevin (Fri Sep 19 2008 - 07:17:12 CDT)
  • How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 08:09:07 CDT)
• Anirudh Nandakumar
  • Unable to open VMD on Mac (Wed Jun 16 2021 - 08:34:31 CDT)
• Anjali Patel
  • Tk-console (Sat Apr 06 2019 - 03:45:37 CDT)
  • Tk-Console (Sat Apr 06 2019 - 02:54:34 CDT)
• Anjela Manandhar
  • Re: using vslab in vmd (Mon Aug 15 2016 - 09:45:56 CDT)
  • using vslab in vmd (Thu Aug 11 2016 - 10:56:54 CDT)
  • frequecy of inter-residue contact (Mon Jun 13 2016 - 16:12:15 CDT)
  • How to determine angle between two helices? (Wed Apr 06 2016 - 15:09:46 CDT)
  • Aligning portions of proteins (Sun Mar 01 2015 - 20:06:02 CST)
  • Re: GTP and GDP parameter files (Mon Dec 01 2014 - 15:00:59 CST)
  • GTP and GDP parameter files (Wed Oct 15 2014 - 10:02:23 CDT)
  • MDFF for multiple subunits (Mon Jul 21 2014 - 14:05:34 CDT)
  • secondary structure calculation at certain frame (Tue Jul 08 2014 - 12:32:50 CDT)
• AnkiReddy katha
  • OPLS force-field in NAMD (Thu May 07 2015 - 02:12:03 CDT)
  • Re: writing out a new dcd file (Tue Apr 29 2014 - 08:57:17 CDT)
  • Re: fftk optimization of bonded parameters + Error: missing close-bracket (Thu Oct 31 2013 - 03:20:50 CDT)
  • fftk optimization of bonded parameters + Error: missing close-bracket (Wed Oct 30 2013 - 03:08:57 CDT)
  • Re: FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Tue Oct 22 2013 - 06:59:59 CDT)
  • FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Thu Oct 17 2013 - 02:44:02 CDT)
  • gofr between center of mass of a functional group and solvent (Tue Mar 19 2013 - 00:52:52 CDT)
  • multiple residues with same resid and problem with solvation using VMD (Fri Aug 17 2012 - 06:36:59 CDT)
• ankit agrawal
  • Re: Overlaying multiple files in VMD (Mon Sep 08 2014 - 11:52:42 CDT)
  • Overlaying multiple files in VMD (Mon Sep 08 2014 - 00:13:59 CDT)
• Anna
  • Mailing list problems (Wed Aug 24 2011 - 14:53:46 CDT)
  • Re: Mailing list problems (Wed Aug 24 2011 - 15:12:02 CDT)
  • Fwd: Initial configuration reorientation (Wed Aug 24 2011 - 12:34:11 CDT)
  • Initial configuration reorientation (Wed Aug 24 2011 - 11:48:38 CDT)
  • Re: DNA hairpin (Sat Aug 20 2011 - 04:30:52 CDT)
  • Re: Vmd molecule rotation and translation (Tue Aug 09 2011 - 01:27:37 CDT)
  • Fwd: Vmd molecule rotation and translation (Mon Aug 08 2011 - 19:45:53 CDT)
  • Vmd molecule rotation and translation (Mon Aug 08 2011 - 18:41:49 CDT)
  • Re: [lammps-users] Initial configurations / topology for LAMMPS (Thu Jul 14 2011 - 17:17:56 CDT)
• Anna Aagaard
  • Which drawing method is used in the picture? (Tue Apr 09 2002 - 14:40:17 CDT)
• Anna Amat
  • surface of an atomic property (Wed May 25 2011 - 11:44:38 CDT)
  • surface from a generic atomic property (Wed May 25 2011 - 11:15:11 CDT)
• Anna Battisti
  • SASA area (Tue Jan 31 2017 - 01:28:16 CST)
• Anna Ceguerra
  • Re: LAMMPS trajectory file (Tue May 11 2010 - 03:32:52 CDT)
  • LAMMPS trajectory file (Mon May 10 2010 - 21:12:28 CDT)
• Anna Karawajczyk
  • new coordinates (Thu Oct 06 2005 - 02:57:55 CDT)
  • new coordinates (Thu Oct 06 2005 - 02:35:09 CDT)
  • small figures (Fri Aug 19 2005 - 07:47:30 CDT)
• Anna Kuznetsova
  • script to modify cysteines with spinlabel (Mon Jan 23 2012 - 14:55:50 CST)
  • How can I operate on multiple .pdb structures in a list (Wed Mar 23 2011 - 18:49:02 CDT)
• Anna Lohning
  • RE: error loading PDB (Tue Nov 22 2016 - 18:33:21 CST)
  • Re: error loading PDB (Tue Nov 22 2016 - 17:44:03 CST)
  • error loading PDB (Tue Nov 22 2016 - 00:56:00 CST)
• Anna Modzelewska
  • Re: tcl-reading files (Mon Feb 13 2006 - 08:52:19 CST)
  • tcl-reading files (Mon Feb 13 2006 - 07:35:26 CST)
  • Re: secondary structure's display - problem (Thu Jan 12 2006 - 10:21:07 CST)
  • Re: secondary structure's display - problem (Thu Jan 12 2006 - 06:23:56 CST)
  • Re: secondary structure's display - problem (Wed Jan 11 2006 - 09:03:28 CST)
  • secondary structure's display - problem (Tue Jan 10 2006 - 10:29:43 CST)
  • error when solvating protein/vmd1.8.4a22 (Mon Nov 07 2005 - 07:31:59 CST)
  • saving macros (Wed Nov 02 2005 - 05:35:09 CST)
  • Re: autoimd on windows (Wed Jun 22 2005 - 11:51:22 CDT)
  • Re: autoimd on windows (Wed Jun 22 2005 - 05:29:52 CDT)
  • autoimd on windows (Mon Jun 20 2005 - 06:40:29 CDT)
  • autoimd error (Wed Jun 15 2005 - 09:35:01 CDT)
  • Re: problem in autoionize (Thu Sep 30 2004 - 04:18:38 CDT)
  • stereo with GForce video board (Thu Jul 29 2004 - 04:20:31 CDT)
  • periodic box lines (Mon Dec 01 2003 - 06:50:05 CST)
• Anna Petroff
  • Re: non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 14:31:27 CDT)
  • Re: non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 13:45:40 CDT)
  • non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 10:33:15 CDT)
• Anna Whitney
  • Long atom types from CGenFF causing charge problems (Tue Aug 09 2011 - 16:01:09 CDT)
• Annabelle Posey
  • You can save 80% (Thu Apr 17 2008 - 17:58:17 CDT)
• annalisa_at_biotec.tu-dresden.de
  • combine.tcl (Tue Nov 21 2006 - 15:06:50 CST)
• Anne Dara Bowen
  • tachyon batch render in parallel (Wed Sep 04 2013 - 10:51:22 CDT)
• Anne Laustsen
  • VolMap Occupancy (Tue Nov 05 2013 - 03:04:48 CST)
• Anneta Tzampazi
  • Problem with creating psf file from structure made by inorganic builder (Fri Oct 03 2008 - 04:43:19 CDT)
  • Concerning protein rotation (Mon Sep 08 2008 - 05:22:40 CDT)
  • Inquiry concerning the plugin "Inorganic builder" (Mon Jun 23 2008 - 05:23:46 CDT)
• Annika Wittenbecher
  • VMD 1.9.1 installation (Fri Aug 22 2014 - 01:59:24 CDT)
• Anoop Krishnan
  • Re: Extension crashes (Sat Sep 20 2014 - 01:43:04 CDT)
  • Re: Extension crashes (Sat Sep 20 2014 - 00:42:51 CDT)
  • Re: Extension crashes (Wed Aug 20 2014 - 23:30:37 CDT)
  • Re: Extension crashes (Tue Aug 19 2014 - 23:51:35 CDT)
  • Extension crashes (Thu Aug 14 2014 - 06:49:57 CDT)
• anshudx_at_indiatimes.com
  • Info regarding residue based CG simulation (Thu May 15 2008 - 13:04:11 CDT)
• Anshul Shah
  • Re: Amber prmtop/inpcrd files (Mon Jul 28 2003 - 17:17:29 CDT)
  • Amber prmtop/inpcrd files (Mon Jul 28 2003 - 15:45:05 CDT)
• Anssi Nurminen
  • RMSD heatmapper -plugin (Mon Sep 19 2011 - 12:03:51 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 12:11:47 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:55:16 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:21:56 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 10:49:32 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 09:33:01 CDT)
  • Tcl plugin development and debugging (Tue Apr 12 2011 - 06:14:36 CDT)
• Anthony Cruz
  • Re: Analysis (Thu Mar 23 2006 - 14:01:45 CST)
  • Big trr trajectory (Thu Mar 23 2006 - 13:27:17 CST)
  • Re: Analysis (Thu Mar 23 2006 - 10:20:13 CST)
  • Re: Analysis (Mon Mar 20 2006 - 12:33:53 CST)
  • Analysis (Wed Mar 08 2006 - 13:37:21 CST)
  • Re: selection of atoms on INSIDE protein (Mon Mar 06 2006 - 11:26:12 CST)
  • Re: selection of atoms on INSIDE protein (Mon Mar 06 2006 - 10:20:08 CST)
  • representation using COM (Fri Feb 24 2006 - 16:53:27 CST)
  • RMSD or RMSF value (Tue Dec 20 2005 - 13:17:32 CST)
  • Re: APBS plugin (Thu Dec 08 2005 - 14:07:37 CST)
  • APBS plugin (Wed Dec 07 2005 - 14:06:06 CST)
  • Protein volume and cavityes (Wed Dec 07 2005 - 13:01:53 CST)
  • macros and variables (Thu Dec 01 2005 - 15:09:07 CST)
• Anthony Cruz Balberdi
  • Re: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 10:00:24 CDT)
  • Plugins use after compilation question (Mon Feb 27 2012 - 12:38:01 CST)
• Anthony Cruz-Balberdy
  • Re: Packing periodic simulation using Pbc wrap error (Tue Jan 26 2021 - 11:25:45 CST)
  • Re: Re: 3d visualization setup (Sat Feb 23 2019 - 08:35:24 CST)
  • Re: 3d visualization setup (Thu Feb 21 2019 - 08:00:02 CST)
  • 3d visualization setup (Sat Feb 16 2019 - 13:47:29 CST)
• Anthony Ivetac
  • Re: Labelling Coordinates (not Atoms) (Wed Jun 18 2008 - 21:32:03 CDT)
  • Labelling Coordinates (not Atoms) (Wed Jun 18 2008 - 17:52:09 CDT)
  • Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 17:43:08 CDT)
  • Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 11:58:52 CDT)
  • Rendering Labels with Tachyon (Wed Apr 23 2008 - 18:18:33 CDT)
  • PPMTOMPEG Quality (Thu Apr 17 2008 - 14:40:15 CDT)
  • Drawing Vectors (Tue Nov 16 2004 - 08:53:35 CST)
  • Tachyon Internal Rendering (Mon Jul 26 2004 - 08:34:05 CDT)
  • Visualising Helix Dipole Moment (Mon Jul 19 2004 - 05:25:54 CDT)
  • Non-protein Multiple-Frame File (Mon May 24 2004 - 06:44:54 CDT)
• Anthony Ma
  • Re: VMD HBonds Plugin Produce Duplicate Results (Tue Apr 26 2016 - 17:57:06 CDT)
• Anthony Rey
  • Re: to use tcl script in command line (Thu Dec 08 2011 - 07:38:04 CST)
  • Analyzing a 10ns simulation on Mac aborts (Tue Dec 06 2011 - 23:25:17 CST)
  • Re: Run a variable through VMD Tk/Tcl console .vmdrc file (Mon Oct 31 2011 - 02:09:42 CDT)
  • Run a variable through VMD Tk/Tcl console .vmdrc file (Sun Oct 30 2011 - 06:55:06 CDT)
  • Run a variable through VMD Tk/Tcl console /// .vmdrc file (Sun Oct 30 2011 - 06:14:22 CDT)
  • Re: Quick TCl scripting question (Thu Sep 22 2011 - 00:02:54 CDT)
  • Quick TCl scripting question (Wed Sep 21 2011 - 22:49:02 CDT)
• Anthony Ruth
  • Re: Dangling Bonds (Fri Apr 03 2020 - 10:29:06 CDT)
  • Dangling Bonds (Thu Apr 02 2020 - 14:46:33 CDT)
  • Re: Filetype for Kinetic Monte Carlo (Mon Nov 25 2019 - 08:19:44 CST)
  • Filetype for Kinetic Monte Carlo (Fri Nov 22 2019 - 09:07:31 CST)
• Anthony Samiotakis
  • Ramachandran plot tcl script (Sat Feb 23 2008 - 15:54:50 CST)
• Anton Arkhipov
  • Re: sbcg with multimers (Sun Jan 17 2010 - 23:37:48 CST)
  • Re: Restraints on coarse grained model (Wed Dec 09 2009 - 10:58:56 CST)
  • Re: CG lipid bilayer vmd 1.8.7 (Mon Dec 07 2009 - 10:15:53 CST)
  • Re: CG lipid bilayer vmd 1.8.7 (Sun Dec 06 2009 - 00:35:46 CST)
  • Re: problems with CG protein-lipidbilayer-water system (Mon Nov 23 2009 - 00:51:43 CST)
  • Re: CG bead definition (Mon Aug 31 2009 - 23:24:05 CDT)
  • Re: residue based CG model (Fri Jul 10 2009 - 10:47:00 CDT)
  • Re: Satellite tobacco mosaic virus images making by VMD (Tue May 05 2009 - 12:48:10 CDT)
  • Re: Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? (Tue Apr 28 2009 - 10:34:04 CDT)
  • Re: selection syntax (Mon Mar 30 2009 - 09:03:47 CDT)
  • Re: how to make a mivie by VMD (Wed Mar 25 2009 - 18:00:10 CDT)
  • Re: SBCG membrane (Wed Dec 24 2008 - 15:01:38 CST)
  • Re: CG bead definition (Mon Nov 24 2008 - 18:36:23 CST)
  • Re: CG bead definition (Mon Nov 24 2008 - 16:43:28 CST)
  • Re: CG Map Tool Syntax Error (Wed Nov 05 2008 - 16:16:59 CST)
  • Re: Extract parameters of Shape-based Coarse Graining model from AA simulation (Wed Oct 22 2008 - 10:28:02 CDT)
  • Re: volmap (Tue Oct 21 2008 - 10:43:40 CDT)
  • Re: How to render an image like this one with VMD? (Thu Sep 25 2008 - 11:29:20 CDT)
  • Re: viewing an embryo (Tue Sep 23 2008 - 15:03:01 CDT)
  • Re: viewing an embryo (Tue Sep 23 2008 - 14:37:15 CDT)
  • Re: How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 10:15:23 CDT)
  • Re: How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 09:10:04 CDT)
• Anton B. Guliaev
  • Potential map display in VMD (GRASP) (Wed Sep 28 2005 - 18:33:59 CDT)
• Antonija Tomić
  • Problem with rendering modified bond label position with Tachyon (Thu Dec 10 2020 - 12:38:20 CST)
  • Re: Hbond per residue (Mon Jan 26 2015 - 03:08:07 CST)
  • Hbond per residue (Sun Jan 25 2015 - 03:56:19 CST)
• Antonija Tomiæ
  • ied with VMD 1.9.1 (Fri Jan 18 2013 - 09:03:05 CST)
  • per-residue alignment (Wed Dec 01 2010 - 02:24:33 CST)
• Antonio Tilocca
  • distance selection (Fri Mar 07 2014 - 10:41:43 CST)
• anu chandra
  • Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 06:30:11 CDT)
  • Re: VMD failed after FFTW installation (Tue Jul 12 2016 - 11:32:50 CDT)
  • Re: VMD failed after FFTW installation (Tue Jul 12 2016 - 07:19:06 CDT)
  • VMD failed after FFTW installation (Mon Jul 11 2016 - 11:37:34 CDT)
  • Re: Improving movie clarity (Thu Dec 31 2015 - 15:32:22 CST)
  • Re: Improving movie clarity (Thu Dec 31 2015 - 06:34:57 CST)
  • Improving movie clarity (Tue Dec 29 2015 - 18:05:58 CST)
  • molecule selection along an axis (Mon Jul 06 2015 - 10:18:17 CDT)
  • Re: Moving making with short trajectories (Sat Feb 28 2015 - 11:30:52 CST)
  • Re: Moving making with short trajectories (Sat Feb 28 2015 - 11:07:23 CST)
  • Re: Moving making with short trajectories (Sat Feb 28 2015 - 07:49:41 CST)
  • Moving making with short trajectories (Fri Feb 27 2015 - 14:24:59 CST)
  • Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 14:14:59 CST)
  • Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 08:55:16 CST)
  • Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 07:58:43 CST)
  • Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 04:31:00 CST)
• anupama sharma
  • (no subject) (Wed Oct 02 2019 - 07:53:27 CDT)
• Anuradha Mittal
  • Re: RMSD (Wed Apr 12 2006 - 09:24:45 CDT)
  • RMSD (Tue Apr 11 2006 - 13:47:06 CDT)
  • solvation (Wed Mar 22 2006 - 17:38:38 CST)
  • contact map (Wed Jun 01 2005 - 14:56:06 CDT)
  • hbond (Mon Apr 11 2005 - 12:24:05 CDT)
  • rmsd (Tue Apr 05 2005 - 11:24:28 CDT)
• ANURAG JHA
  • connectivity in RBCG file(pdb extension) (Tue Sep 27 2011 - 18:46:20 CDT)
• Anurag Sethi
  • Re: NetworkView -- Averaging SEPARATE contact.dat files? (Tue Oct 07 2014 - 11:16:31 CDT)
  • Re: NetworkView - Path lengths (Tue Oct 07 2014 - 11:12:52 CDT)
  • Re: Dynamical Network Analysis (Network View) -- Please help (Mon Sep 01 2014 - 14:05:21 CDT)
  • Re: Comparing Structures with Multiseq and Qres (Wed Apr 16 2014 - 10:41:02 CDT)
  • Re: Comparing Structures with Multiseq and Qres (Mon Apr 07 2014 - 19:37:48 CDT)
  • Re: STAMP Multiseq (Tue Aug 13 2013 - 13:46:42 CDT)
  • Re: Strange results when visualizing .trr trajectory (Sat Jun 02 2012 - 12:36:14 CDT)
  • Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 21:57:44 CST)
  • Re: Clustering MD trajectories (Fri Sep 16 2011 - 17:04:29 CDT)
  • Re: Multiseq in text mode (Tue Feb 08 2011 - 12:11:29 CST)
  • Re: Finding residues with some distance (Wed Mar 03 2010 - 18:25:11 CST)
• Anurag Sharma
  • Structure summary in output file (Wed Nov 06 2013 - 12:11:55 CST)
  • RE: error in merging two structures (Thu Jun 13 2013 - 17:26:59 CDT)
  • RE: error in merging two structures (Thu Jun 13 2013 - 12:24:09 CDT)
  • RE: error in merging two structures (Thu Jun 13 2013 - 12:18:17 CDT)
  • RE: error in merging two structures (Thu Jun 13 2013 - 09:21:43 CDT)
  • Calculation of no. of turns, pitch in DNA (Wed Jun 12 2013 - 13:49:04 CDT)
  • Calculation of no. of turns, pitch in DNA (Wed Jun 05 2013 - 17:04:45 CDT)
  • error in merging two structures (Mon May 20 2013 - 12:38:18 CDT)
  • error in merging two structures (Wed May 15 2013 - 18:38:58 CDT)
  • RE: No bonds in the generated psf file (Wed Apr 17 2013 - 23:33:21 CDT)
  • RE: No bonds in the generated psf file (Wed Apr 17 2013 - 21:25:30 CDT)
  • RE: No bonds in the generated psf file (Wed Apr 17 2013 - 21:34:36 CDT)
  • Re: No bonds in the generated psf file (Wed Apr 17 2013 - 20:59:28 CDT)
  • RE: No bonds in the generated psf file (Wed Apr 17 2013 - 19:37:42 CDT)
  • Re: No bonds in the generated psf file (Wed Apr 17 2013 - 17:52:16 CDT)
  • No bonds in the generated psf file (Wed Apr 17 2013 - 14:54:35 CDT)
  • Re: Improper parameters for CNT (Mon Apr 15 2013 - 01:56:42 CDT)
  • Re: Improper parameters for CNT (Sun Apr 14 2013 - 18:20:09 CDT)
  • Improper parameters for CNT (Sun Apr 14 2013 - 16:30:59 CDT)
  • Re: Error with NAMD Energy (Thu Mar 28 2013 - 17:06:58 CDT)
  • Error with NAMD Energy (Thu Mar 28 2013 - 15:25:11 CDT)
• Anwaar Al-Zireeni
  • Adding Single Residues to a Protein (Thu Jul 15 2010 - 18:34:56 CDT)
• anyy zsj
  • How to get the coordinate of periodic images (Tue Dec 18 2012 - 23:58:53 CST)
• apeyser_at_newssun.med.miami.edu
  • Re: User colors and povray (Wed Feb 23 2005 - 15:45:26 CST)
  • User colors and povray (Tue Feb 22 2005 - 13:34:47 CST)
  • vmd on ppc (G4) (Mon Feb 23 2004 - 14:07:25 CST)
  • Compiling vmd for ppc linux (Fri Feb 20 2004 - 13:46:50 CST)
  • Compiling vmd for ppc linux (Fri Feb 20 2004 - 13:55:41 CST)
• aramice Malkhasian
  • Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Nov 27 2013 - 00:53:30 CST)
  • pleaseme help how to build Metal ion topology file conneted (Sat Aug 11 2012 - 01:50:05 CDT)
  • how to write topology for Metal in protein (Thu Aug 09 2012 - 17:28:33 CDT)
  • topology file for metal in the protein (Thu Aug 09 2012 - 10:12:43 CDT)
• Arash Azari
  • Re: Error (incompatible tcl8.5.so) when installing VMD plugins (Sat Nov 14 2015 - 10:34:34 CST)
  • Re: OpenDX file format website down: What do the three values at each grid point represent (Tue Oct 06 2015 - 00:47:38 CDT)
  • Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 12:36:30 CDT)
  • Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 15:10:16 CST)
  • Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 00:51:37 CST)
  • psfgen error for Argon atoms (Sun Jan 26 2014 - 15:06:16 CST)
  • pbwithin selection (Thu Nov 10 2011 - 07:58:28 CST)
  • catdcd and velocity dcd file (Fri Jul 01 2011 - 10:06:11 CDT)
• Arash Firouzbakht
  • CIonize Not Installed on Windows VMD (Tue Apr 13 2021 - 14:33:15 CDT)
  • secondary structure of a protein containing non-canonical residues (Tue Apr 06 2021 - 09:59:48 CDT)
• aravind chandrasekaran
  • Re: Step 6 ffTK ligand calculation. (Mon May 06 2013 - 00:31:09 CDT)
  • Step 6 ffTK ligand calculation. (Thu May 02 2013 - 10:26:06 CDT)
  • FFTK - Step -3 missing log file. (Sun Apr 28 2013 - 10:54:59 CDT)
• Aravind Ravichandran
  • Error in PCA analysis (Wed Jun 27 2018 - 05:26:18 CDT)
• Aravinda Munasinghe
  • Re: Readpsf Error (Sun Nov 29 2020 - 10:19:45 CST)
  • Re: Readpsf Error (Sun Nov 29 2020 - 09:29:34 CST)
  • Re: Readpsf Error (Sun Nov 29 2020 - 09:20:28 CST)
  • Re: Readpsf Error (Sun Nov 29 2020 - 09:11:45 CST)
  • Re: Readpsf Error (Sun Nov 29 2020 - 08:48:32 CST)
  • Re: VMD crash due to large volume of .dcd file (Sun Nov 29 2020 - 08:56:43 CST)
  • Re: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Wed Jul 10 2019 - 11:18:51 CDT)
  • Re: atoms within a radius cutoff and a percentage cutoff of a trajectory (Sun Jun 23 2019 - 11:48:15 CDT)
  • VMD psfgen lonepair handling (Mon Mar 25 2019 - 21:37:32 CDT)
  • Re: PDB structures of peptides (Thu Feb 14 2019 - 18:26:40 CST)
• Araz Jakalian
  • Electrostatic potential values (Fri Jan 29 2021 - 08:29:12 CST)
• Archana Sonawani-Jagtap
  • Running Cionize1.0 (Sat Aug 25 2018 - 15:27:45 CDT)
  • Re: vmd installation (Fri Nov 25 2016 - 07:02:34 CST)
  • Re: vmd installation (Thu Nov 24 2016 - 02:56:44 CST)
  • Re: vmd installation (Thu Nov 24 2016 - 01:12:42 CST)
  • vmd installation (Wed Nov 23 2016 - 01:34:45 CST)
• Ardavan Mehdizadeh
  • Select Residues (Mon Feb 09 2015 - 00:46:16 CST)
• Ardy Davari
  • Re: color charmm dcd by kinetic energy (Tue Jul 06 2010 - 09:30:27 CDT)
  • color charmm dcd by kinetic energy (Mon Jul 05 2010 - 15:59:22 CDT)
  • Color by velocity (speed?) (Wed Jun 16 2010 - 12:04:04 CDT)
• Aref Takiden
  • Re: merging several pdbs in one file (Mon Sep 29 2014 - 06:07:23 CDT)
  • Re: merging several pdbs in one file (Fri Sep 26 2014 - 02:55:30 CDT)
  • merging several pdbs in one file (Mon Sep 22 2014 - 07:55:53 CDT)
• Arent, Michael
  • Some newbie questions (Fri Apr 20 2001 - 08:44:27 CDT)
• Arham Amouie
  • Problem when rendering within a tcl loop (Sun Jan 10 2021 - 04:17:35 CST)
  • Re: how draw color bar? (Mon Jul 24 2017 - 15:10:44 CDT)
  • how draw color bar? (Mon Jul 24 2017 - 09:35:18 CDT)
  • Re: Bug in VMD 1.9.3? (Wed Apr 26 2017 - 11:17:55 CDT)
  • Re: Bug in VMD 1.9.3? (Wed Apr 26 2017 - 10:37:58 CDT)
  • Bug in VMD 1.9.3? (Wed Apr 26 2017 - 07:07:20 CDT)
  • Re: Meaning of computer graphic terms (Wed Apr 19 2017 - 12:42:41 CDT)
  • Meaning of computer graphic terms (Wed Apr 19 2017 - 12:33:18 CDT)
  • Re: how to have an array of snapshots in an image file? (Mon Apr 10 2017 - 15:24:09 CDT)
  • how to have an array of snapshots in an image file? (Mon Apr 10 2017 - 14:55:21 CDT)
  • Re: processing a large "molecule" (Sun Aug 07 2016 - 03:13:52 CDT)
  • processing a large "molecule" (Sat Aug 06 2016 - 13:12:18 CDT)
  • Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 05:17:57 CST)
  • Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 04:52:20 CST)
  • Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 03:59:27 CST)
  • How upgrade a molfile plugin? (Sun Feb 16 2014 - 12:28:17 CST)
  • Re: Simplest file format that includes atom color? (Sun Feb 16 2014 - 05:44:20 CST)
  • Re: Simplest file format that includes atom color? (Thu Feb 13 2014 - 05:27:45 CST)
  • Re: Simplest file format that includes atom color? (Thu Feb 13 2014 - 05:06:07 CST)
  • Re: AW: Simplest file format that includes atom color? (Thu Feb 13 2014 - 02:51:07 CST)
  • (no subject) (Wed Feb 12 2014 - 13:22:40 CST)
  • Simplest file format that includes atom color? (Wed Feb 12 2014 - 13:28:44 CST)
  • camera position and scale (Mon Jan 09 2012 - 08:09:46 CST)
• Ari Turpeinen
  • Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 06:57:21 CDT)
  • Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 03:23:51 CDT)
  • Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 01:20:18 CDT)
• Arian Arian
  • Input File Format (Wed Oct 21 2009 - 14:03:01 CDT)
• Aric Newton
  • Re: Fwd: VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Sun May 05 2013 - 10:32:15 CDT)
  • VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Thu May 02 2013 - 06:17:49 CDT)
  • Do H-bonds cross periodic boundaries? Re: Hbonds Analysis. (Thu Feb 16 2012 - 10:27:38 CST)
  • Re: Hbonds Analysis (Wed Feb 15 2012 - 18:11:58 CST)
  • Hbonds Analysis (Tue Feb 14 2012 - 14:22:27 CST)
  • Re: Reading MatStudio/ LAMMPS structures to VMD (Fri Oct 29 2010 - 09:16:30 CDT)
  • Reading MatStudio/ LAMMPS structures to VMD (Sat Oct 23 2010 - 18:45:06 CDT)
• Arieana Moore
  • problems with Autoimd on mac os x ( panther ) (Thu Apr 29 2004 - 19:02:09 CDT)
• Ariel Mitchell
  • The affordable watch alternative (Fri May 02 2008 - 20:35:12 CDT)
• Arienti, Marco UTRC
  • more on lammps and VMD coordinates (Tue Feb 26 2008 - 11:18:37 CST)
• Arijit Ghosh
  • Using Multiseq for aligning a structure and a sequence (Wed Mar 04 2015 - 00:56:40 CST)
  • Problem creating tetramer from a monomer (Thu Feb 26 2015 - 23:03:23 CST)
• Arindam Ganguly
  • Replica exchange molecular dynamics (REMD) (Tue Mar 20 2007 - 21:22:15 CDT)
  • Re: making movie from GROMACS trajectory (Thu Aug 17 2006 - 15:43:43 CDT)
  • making movie from GROMACS trajectory (Wed Aug 09 2006 - 18:05:36 CDT)
• Aris Marcolongo
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 17:42:25 CDT)
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 17:25:40 CDT)
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 17:04:21 CDT)
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 15:06:07 CDT)
  • script for plotting trajectories (Mon Oct 26 2015 - 06:02:27 CDT)
• Arjun Sharma
  • Atom order in VMD (Sat Mar 14 2015 - 17:50:42 CDT)
• Armando Jerome de Jesus
  • Re: implicit membrane in QwikMD? (Tue Nov 27 2018 - 14:52:08 CST)
  • implicit membrane in QwikMD? (Tue Nov 27 2018 - 09:37:15 CST)
• Armen Nalian
  • Re: custom db in Multiseq (Fri May 18 2007 - 12:29:41 CDT)
  • custom db in Multiseq (Thu May 17 2007 - 18:48:01 CDT)
  • RE: trouble with autopsf (Mon Oct 24 2005 - 16:56:41 CDT)
  • RE: trouble with autopsf (Sun Oct 23 2005 - 23:36:09 CDT)
  • APBS error (Wed Feb 16 2005 - 18:58:54 CST)
• Arnab Chakrabarty
  • Re: Unable to see VDW , CPK representations (Sat Feb 16 2008 - 17:51:04 CST)
  • Unable to see VDW , CPK representations (Fri Feb 15 2008 - 16:25:23 CST)
• Arnab Mukherjee
  • Re: vmd crashes on startup (Fri Jul 06 2007 - 15:24:42 CDT)
  • vmd crashes on startup (Wed Jul 04 2007 - 16:11:36 CDT)
• Arneh Babakhani
  • Re: Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 21:37:45 CDT)
  • Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 20:24:38 CDT)
  • Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 23:24:35 CST)
  • Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 20:57:41 CST)
  • Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 20:45:38 CST)
  • Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 18:31:17 CST)
  • Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 15:02:52 CST)
  • Re: peptide builder (Fri Sep 07 2007 - 10:50:23 CDT)
  • Re: Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 13:06:17 CDT)
  • Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 12:39:08 CDT)
  • Running a vmd tcl script in the background (Mon Aug 13 2007 - 19:05:20 CDT)
  • Re: Deleting bonds based on length (Fri Jul 27 2007 - 07:58:41 CDT)
  • Deleting bonds based on length (Thu Jul 26 2007 - 23:41:11 CDT)
  • Recognized atom types by VMD PDB reader (Fri Jul 20 2007 - 12:52:48 CDT)
  • Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 12:35:24 CDT)
  • Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 09:19:00 CDT)
  • Reading a pdbqt file (generated from AutoDock) (Thu Jul 19 2007 - 18:01:01 CDT)
  • Re: Making a selection from another selection (Tue Jul 17 2007 - 20:41:29 CDT)
  • Re: Making a selection from another selection (Tue Jul 17 2007 - 20:35:19 CDT)
  • Making a selection from another selection (Tue Jul 17 2007 - 20:02:49 CDT)
  • Re: Divide by Zero Error , but can't find the zero! (Thu Jul 05 2007 - 20:03:45 CDT)
  • Divide by Zero Error , but can't find the zero! (Thu Jul 05 2007 - 14:57:03 CDT)
  • Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Sat Jun 23 2007 - 10:29:11 CDT)
  • Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Fri Jun 22 2007 - 20:04:40 CDT)
  • Using VMD just to plot some coordinates from a mathematical/geometrical model (Fri Jun 22 2007 - 17:51:35 CDT)
  • Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 15:04:24 CDT)
  • Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 14:38:42 CDT)
  • Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 14:26:12 CDT)
  • Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 13:50:59 CDT)
  • Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 13:10:06 CDT)
  • Re: Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 20:57:11 CDT)
  • Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 20:13:15 CDT)
  • Move labels (Wed May 23 2007 - 16:21:33 CDT)
  • Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Mon Feb 05 2007 - 10:59:04 CST)
  • Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Sun Feb 04 2007 - 21:58:19 CST)
  • Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Fri Feb 02 2007 - 20:04:29 CST)
  • Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Fri Feb 02 2007 - 16:16:04 CST)
  • Re: Segmentation fault when trying to load GROMACS trajectories (Mon Jun 12 2006 - 14:10:19 CDT)
  • Segmentation fault when trying to load GROMACS trajectories (Mon Jun 12 2006 - 11:47:06 CDT)
  • Re: Launching Tk Console (Wed May 10 2006 - 19:00:57 CDT)
  • Launching Tk Console (Wed May 10 2006 - 11:23:42 CDT)
  • Secondary Structure along a trajectory (Wed Apr 26 2006 - 18:44:21 CDT)
• Arno Proeme
  • Announcement: call for abstracts (**extended deadline**): SC15 workshop "Producing High-Performance and Sustainable Software for Molecular Simulation" (Mon Oct 05 2015 - 19:33:18 CDT)
• Aronica, Pietro
  • Command line representation (Mon Oct 29 2012 - 06:57:30 CDT)
• Arpita Srivastava
  • Structure factor and Steinhardt order parameter (Wed Sep 22 2021 - 11:54:54 CDT)
  • Regarding atom index in VMD (Mon Sep 13 2021 - 14:20:59 CDT)
• Arsene Marian Alain
  • Issue install VMD 1.9.3 Spack (Mon Dec 05 2022 - 01:34:27 CST)
• Artem Mamonov
  • Memory leak using "moveby" command inside a loop (Wed Apr 14 2004 - 21:34:20 CDT)
• Arthur Oliveira Vale
  • Periodic Conditions for Hexagonal Membrane System (Fri May 19 2017 - 18:52:11 CDT)
• Arthur Pereira da Fonseca
  • RES: Protein residue read as solvent (Wed Aug 17 2022 - 10:21:48 CDT)
  • Protein residue read as solvent (Tue Aug 16 2022 - 18:49:52 CDT)
  • RES: simple script question (Sun Jun 12 2022 - 11:54:27 CDT)
  • RES: VMD license (Fri Dec 17 2021 - 17:32:10 CST)
  • VMD license (Thu Dec 16 2021 - 08:37:57 CST)
  • Generating parameter files (Wed May 19 2021 - 12:04:33 CDT)
  • (no subject) (Sat Dec 05 2020 - 15:31:30 CST)
  • VMD write pdb error (Wed Sep 09 2020 - 12:16:46 CDT)
• Arthur Vale
  • Select Atoms that are bonded to specific atom type (Thu Sep 07 2017 - 15:09:20 CDT)
  • RE: Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 18:17:29 CDT)
  • Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 17:09:22 CDT)
  • Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 16:55:20 CDT)
  • RE: Building HMMM using patch files (Tue Aug 01 2017 - 23:36:30 CDT)
  • RE: Building HMMM using patch files (Sun Jul 30 2017 - 14:14:17 CDT)
  • RE: Building HMMM using patch files (Thu Jul 20 2017 - 21:32:45 CDT)
  • RE: Building HMMM using patch files (Thu Jul 20 2017 - 17:13:41 CDT)
  • Building HMMM using patch files (Thu Jul 20 2017 - 15:19:54 CDT)
• Artur Duque Rossi
  • Cant use NAMDplot to plot (Sat Nov 24 2018 - 16:34:18 CST)
• Artur Hermano
  • Re: hmassrepart (Mon Feb 14 2022 - 11:03:59 CST)
  • Re: hmassrepart (Thu Feb 10 2022 - 18:25:43 CST)
  • Re: hmassrepart (Thu Feb 10 2022 - 17:32:28 CST)
  • hmassrepart (Thu Feb 10 2022 - 16:05:12 CST)
• Arturas
  • solid color clipping plane - render with "scratches" (Tue Oct 25 2005 - 04:49:45 CDT)
  • VMD shows bad structure with 'line' type (Fri Apr 02 2004 - 06:27:38 CST)
  • Re: configure do nothing in Linux (???) - thank you ! (Thu Apr 01 2004 - 03:23:39 CST)
  • configure do nothing (Linux) (Wed Mar 31 2004 - 09:22:54 CST)
  • configure do nothing in Linux(???) (Wed Mar 31 2004 - 09:27:36 CST)
• Arturas Ziemys
  • Fast routines for distance evaluations using PBC. (Fri May 11 2007 - 11:52:49 CDT)
  • polyethylene topology (Tue Dec 05 2006 - 12:05:57 CST)
  • gofr (Wed Oct 11 2006 - 13:22:54 CDT)
  • Recentering the box on target molecule and wraping (Mon Sep 11 2006 - 10:39:55 CDT)
  • charmm toppology : internal coordinates (Tue Aug 22 2006 - 16:39:00 CDT)
  • Manipulation on loaded MSMS surface (Tue Aug 15 2006 - 16:19:18 CDT)
  • loading trajectory file (Mon Aug 07 2006 - 11:38:34 CDT)
• Arturo Fernandez
  • You can save 80% (Fri Apr 25 2008 - 05:58:21 CDT)
• Arun Krishnan
  • Re: Changing Beta values for each frame of a trajectory.. (Wed Jun 20 2007 - 23:39:21 CDT)
  • Changing Beta values for each frame of a trajectory.. (Wed Jun 20 2007 - 22:08:17 CDT)
• arun kumar
  • Re: Segmentation fault (core dumped) (Fri Jun 08 2012 - 05:17:48 CDT)
  • Re: Segmentation fault (core dumped) (Thu Jun 07 2012 - 07:45:30 CDT)
  • Segmentation fault (core dumped) (Tue Jun 05 2012 - 09:01:03 CDT)
• Arusha Acharyya
  • Unknown atom type while running psfgen (Mon Oct 26 2020 - 20:37:20 CDT)
• Aryan Vahedi
  • measure sasa of a complex (CNT and protein) (Thu Apr 16 2015 - 10:58:38 CDT)
  • Re: Residues within a specified distance across all trajectories time steps (Mon Apr 06 2015 - 13:34:57 CDT)
  • Residues within a specified distance across all trajectories time steps (Fri Apr 03 2015 - 11:24:56 CDT)
• Aryan Vahedi-Faridi
  • Get XST or XSC from NAMDenergy plugin? (Sun Aug 02 2015 - 19:30:52 CDT)
  • Unwrap issue, Completely Different Chart Than Expected, Trajectory Compromised (Thu Jul 30 2015 - 15:04:12 CDT)
  • Carbon Nanotube Interaction with Protein Simulation NAMD VMD (Thu Sep 18 2014 - 14:44:34 CDT)
• Asaf Farhi
  • generation of psf of phenol (Thu Aug 22 2013 - 11:42:14 CDT)
• Asfa Ali
  • regarding installation (Fri Apr 09 2010 - 10:45:45 CDT)
  • VMD (Thu Feb 25 2010 - 13:18:21 CST)
  • RMSD trajectory tools (Fri Feb 12 2010 - 06:16:22 CST)
• Asghar Razavi
  • How select atoms from mol 0 within "x" of mol 1? (Thu Oct 01 2020 - 12:20:19 CDT)
• Ash Johnson
  • RE: Merging two structures with duplicate segment names using TCL/Tk Console (Thu Aug 13 2015 - 04:29:19 CDT)
  • Merging two structures with duplicate segment names using TCL/Tk Console (Mon Aug 10 2015 - 19:29:31 CDT)
• Ashar Malik
  • Re: Angle between a vector and a plane (Wed Sep 20 2023 - 04:13:25 CDT)
  • Re: Atoms dropped on running AutoPSF (Fri Mar 24 2023 - 19:38:09 CDT)
  • Re: calculation of rotation angle (Tue Mar 21 2023 - 15:50:07 CDT)
  • Re: bash calling multiple python scripts that open vmd pauses (Sat Jan 21 2023 - 05:36:52 CST)
  • Re: Maximum Stride Possible for Publishable Results (Mon Oct 03 2022 - 23:47:24 CDT)
  • Re: atomselect for interacting hydroxyl groups (Tue Aug 16 2022 - 12:53:49 CDT)
  • Re: << multiple atom selection >> (Sat Jul 23 2022 - 12:14:54 CDT)
  • Re: NAMDEnergy Plugin in VMD (Sat Jul 16 2022 - 08:22:11 CDT)
  • Re: Error with CaFE VMD Plugin (Thu Jun 16 2022 - 06:32:12 CDT)
  • Re: simple script question (Fri Jun 10 2022 - 02:08:03 CDT)
  • Re: Re: namd-l: RMSD and RMSF of ligand Only (Thu Oct 28 2021 - 09:26:11 CDT)
  • Re: RMSD and RMSF of ligand Only (Thu Oct 28 2021 - 06:28:27 CDT)
  • Re: protein and lipid jumping (Sat Oct 23 2021 - 01:17:03 CDT)
  • Re: protein and lipid jumping (Sat Oct 23 2021 - 00:42:39 CDT)
  • Re: protein and lipid jumping (Fri Oct 22 2021 - 22:15:11 CDT)
  • Re: protein and lipid jumping (Fri Oct 22 2021 - 21:34:47 CDT)
  • Re: Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Thu Oct 21 2021 - 08:51:20 CDT)
  • Re: Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Thu Oct 21 2021 - 05:04:03 CDT)
  • Re: running TCL script (Tue Sep 14 2021 - 05:30:01 CDT)
  • Re: Funnel metadynamics (Fri Aug 13 2021 - 08:05:38 CDT)
  • Re: Funnel metadynamics (Fri Aug 13 2021 - 07:20:50 CDT)
  • Re: how to solvate the membrane in vmd?? (Thu Aug 05 2021 - 08:54:20 CDT)
  • Re: Tcl Scripting Question (Tue May 04 2021 - 14:11:45 CDT)
  • Re: vecsub: two vectors don't have the same size (Fri Apr 16 2021 - 05:31:31 CDT)
  • Re: Problem with the Box (Thu Mar 18 2021 - 18:02:35 CDT)
  • Re: TCL script to measure distance between two points in space (Wed Mar 10 2021 - 18:01:10 CST)
  • Re: Native contacts tcl script crashed (Thu Feb 18 2021 - 01:02:58 CST)
  • Re: Creating PDB files of binding pockets that lists ligands first within the file (Tue Feb 02 2021 - 19:22:51 CST)
  • Re: Trajectory analysis without loading all frames (Thu Nov 19 2020 - 09:29:43 CST)
  • Re: Colors in VMd graphics (Sat Oct 17 2020 - 22:22:49 CDT)
  • Re: Questions about using VMD to modify/alter nucleic acid structures (Mon Sep 14 2020 - 03:48:25 CDT)
  • Re: PME boolean (Fri Aug 14 2020 - 03:03:02 CDT)
  • Re: Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 16:06:03 CDT)
  • Re: Phi and Psi angles for particular residues as a function of time (Tue Jul 14 2020 - 11:27:50 CDT)
  • Re: VMD on HPC (Wed Jul 01 2020 - 04:52:54 CDT)
  • Re: VMD on HPC (Wed Jul 01 2020 - 03:19:24 CDT)
  • Re: volmap computation_ILS method (Sat Jun 06 2020 - 17:42:31 CDT)
  • Re: Selecting first three characters of a variable with tcl in VMD (Wed Jun 03 2020 - 23:53:46 CDT)
  • Re: qwrap installation (Tue Apr 28 2020 - 15:03:51 CDT)
  • Re: DNA on RMSD Trajectory Tool (Tue Apr 28 2020 - 04:57:54 CDT)
  • Re: mapping values on protein structure (Fri Apr 24 2020 - 11:49:33 CDT)
  • Re: mapping values on protein structure (Fri Apr 24 2020 - 01:51:44 CDT)
  • Re: Assign active site (Mon Apr 20 2020 - 17:16:33 CDT)
  • Re: Assign active site (Mon Apr 20 2020 - 08:54:41 CDT)
  • Re: Assign active site (Mon Apr 20 2020 - 07:55:37 CDT)
  • Re: Assign active site (Mon Apr 20 2020 - 04:35:30 CDT)
  • Re: Assign active site (Sun Apr 19 2020 - 20:31:17 CDT)
  • Re: Assign active site (Sun Apr 19 2020 - 18:00:28 CDT)
  • Re: Assign active site (Sun Apr 19 2020 - 17:20:40 CDT)
  • Re: SDS molecules agglomeration. (Tue Feb 18 2020 - 11:21:52 CST)
  • Re: could not read file no atoms found error (Thu Jan 23 2020 - 05:13:57 CST)
  • Re: Restrain a molecule in movie (Mon Jan 20 2020 - 09:42:10 CST)
  • Re: orienting aquaporin in bilayer (Sat Jan 18 2020 - 08:37:54 CST)
  • Re: Select Nucleic Acid sequence (Thu Jan 09 2020 - 04:43:56 CST)
  • Re: Using RMSD for individual residues script (as seen in the NAMD tutorial) and bigdcd (Mon Dec 09 2019 - 21:43:23 CST)
  • Re: splitting pdb (Tue Oct 08 2019 - 23:20:52 CDT)
  • Re: sub : considering waters with in 5A of solute (Tue Jul 23 2019 - 15:30:18 CDT)
  • Re: followup: atomselect one liner (Sat Jul 20 2019 - 05:15:51 CDT)
  • Re: catdcd error (Sat Jun 15 2019 - 17:05:15 CDT)
  • Re: Get number of fragments (Mon May 27 2019 - 09:48:23 CDT)
  • Re: Measre dihedral angle of a certain type (Tue Apr 09 2019 - 20:52:47 CDT)
  • Re: PSF File (Wed Mar 13 2019 - 03:25:10 CDT)
  • Re: Windows build newer than 1.9.3 (Mon Mar 04 2019 - 03:03:59 CST)
  • Re: TCL For Loop Problem (Sun Feb 24 2019 - 22:24:08 CST)
  • Re: Error: invalid command name "voltool" (Tue Feb 19 2019 - 11:14:49 CST)
  • Re: measure distance atom from plane (Tue Feb 05 2019 - 05:50:15 CST)
  • Re: calculating number of water and osmolytes molecules at particular distance from protein surface. (Thu Jan 31 2019 - 00:00:10 CST)
  • Re: Parsing error in TkConsole (Wed Jan 02 2019 - 15:14:44 CST)
  • Re: beta barrel structure generation (Fri Dec 21 2018 - 21:45:16 CST)
  • Re: problem of calculating hydrogen bonds (Sun Sep 09 2018 - 03:16:05 CDT)
  • Re: Connect particular residues with a line (Sat Sep 01 2018 - 22:39:17 CDT)
  • Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 11:22:21 CDT)
  • Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 08:43:50 CDT)
  • Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 06:50:38 CDT)
  • Re: Where to save the script (Sun Aug 05 2018 - 20:38:47 CDT)
  • Re: request for provide a script of rmsf (Wed Aug 01 2018 - 10:22:57 CDT)
  • Re: request for provide a script of rmsf (Wed Aug 01 2018 - 03:39:39 CDT)
  • Re: request for provide a script of rmsf (Tue Jul 31 2018 - 19:40:09 CDT)
  • Re: Fusing proteins together (Thu Jul 26 2018 - 19:33:48 CDT)
  • Re: Fusing proteins together (Thu Jul 26 2018 - 16:01:55 CDT)
  • Re: (Sun Jul 22 2018 - 05:48:29 CDT)
  • Re: Protein mutation issues (Mon Jun 11 2018 - 00:22:13 CDT)
  • Re: Flipping a molecule around its geometrical center (Mon Jun 04 2018 - 23:29:51 CDT)
  • Re: problem with mol IDs when running script from same VMD session. (Sun Jun 03 2018 - 14:29:11 CDT)
  • Re: Alignment with RMSD trajectory tool (Tue May 29 2018 - 21:00:08 CDT)
  • Re: Reading DL_POLY trajectory (Sat May 26 2018 - 20:28:34 CDT)
  • Re: Re: invalid command name "La::mevsvd_br" (Mon May 21 2018 - 09:50:45 CDT)
  • Re: VMD in OS X Yosemite version 10.1.1.5 (Sun May 06 2018 - 15:40:51 CDT)
  • Re: VMD in OS X Yosemite version 10.1.1.5 (Sat May 05 2018 - 23:45:48 CDT)
  • Re: RMSD Question (Fri May 04 2018 - 19:07:17 CDT)
  • Re: Automating VMD (Thu May 03 2018 - 17:40:36 CDT)
  • Re: excluding atoms (Sat Apr 28 2018 - 08:12:45 CDT)
  • Re: RMSD of lipid molecules (Fri Apr 27 2018 - 12:31:57 CDT)
  • Re: RMSD of lipid molecules (Fri Apr 27 2018 - 12:23:12 CDT)
  • Re: vmd tcl script writing issue (Wed Apr 18 2018 - 09:53:53 CDT)
  • (no subject) (Tue Apr 10 2018 - 18:51:32 CDT)
  • Re: i thought I could run a 100 ns NAMD simulation in my laptop for a protein-hormone system containing around 2000 atoms in its pdb file(4lnx.pdb). But even to run a simulation for four hundred fifty thousand steps, it has taken almost 4700 minutes. is this normal or its low? the device has 4 cores with 16 gigs of ram and 4 gigs of gpu(amd). Or any suggestions to run it faster??? (Sun Mar 25 2018 - 20:44:48 CDT)
  • Re: Decompose Transformation Matrix to Rotations and Translations along XYZ axes (Wed Mar 21 2018 - 13:29:17 CDT)
  • Re: Propagating PDB coordinates using Quaternion matrix (Wed Mar 21 2018 - 13:34:12 CDT)
  • Re: Average structure (Wed Mar 21 2018 - 02:55:20 CDT)
  • Re: Propagating PDB coordinates using Quaternion matrix (Wed Mar 21 2018 - 01:16:18 CDT)
  • Re: Propagating PDB coordinates using Quaternion matrix (Tue Mar 20 2018 - 12:15:10 CDT)
  • Re: Propagating PDB coordinates using Quaternion matrix (Tue Mar 20 2018 - 10:00:57 CDT)
  • Re: Text mode data extraction without trajectory update (Sun Mar 18 2018 - 07:50:26 CDT)
  • Re: How to hide water in mdcrd file? (Thu Mar 08 2018 - 13:21:20 CST)
  • Re: Running vmd (Mon Mar 05 2018 - 06:54:44 CST)
  • Re: Running vmd (Mon Mar 05 2018 - 05:00:48 CST)
  • RE: VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 17:53:43 CST)
  • Re: VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 17:25:43 CST)
  • Re: How to identify the index number of some particular atoms (Tue Feb 20 2018 - 03:35:19 CST)
  • Re: How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 10:14:19 CST)
  • Re: Molecule limit (Mon Jan 29 2018 - 19:06:53 CST)
  • Re: Alignment issues (Wed Jan 24 2018 - 08:02:02 CST)
  • Re: Superimpose Structures (Wed Jan 24 2018 - 01:42:55 CST)
  • Re: Rotate a specific residue and save the coordinates in VMD (Wed Jan 17 2018 - 17:44:21 CST)
  • Re: catdcd plugin for Windows users (Tue Jan 16 2018 - 01:58:45 CST)
  • Re: View sidechains in VMD (Tue Jan 16 2018 - 01:52:23 CST)
  • Re: selecting residues within 5-10A of another molecule (Wed Jan 10 2018 - 23:05:01 CST)
  • Re: having problem with disulfide bond (Tue Jan 09 2018 - 00:48:54 CST)
  • Re: (Sat Jan 06 2018 - 07:04:01 CST)
  • Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 09:50:11 CST)
  • Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 01:38:26 CST)
  • Re: Re: How can I measure bond length with “name ** and resid **" in scripts? (Tue Dec 19 2017 - 06:20:48 CST)
  • Re: How can I measure bond length with “name ** and resid **" in scripts? (Tue Dec 19 2017 - 02:42:41 CST)
  • Re: Same starting configuration gives two values of backbone RMSD (Fri Dec 15 2017 - 18:56:57 CST)
  • Re: Cycling between files using the same output file (Fri Dec 15 2017 - 17:34:44 CST)
  • Re: Same starting configuration gives two values of backbone RMSD (Fri Dec 15 2017 - 06:58:29 CST)
  • Re: Same starting configuration gives two values of backbone RMSD (Fri Dec 15 2017 - 06:10:00 CST)
  • Re: I would like to get a trajectory file in PDB. Can I use like data frame in VMD? (Wed Dec 13 2017 - 02:40:25 CST)
  • Re: I would like to get a trajectory file in PDB. Can I use like data frame in VMD? (Wed Dec 13 2017 - 02:37:16 CST)
  • Re: Nonbond energy between 3 part (Wed Dec 13 2017 - 01:34:08 CST)
  • Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 21:41:31 CST)
  • Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 08:43:02 CST)
  • Re: error : invalid command name "psfgen" in 6pti tutorial (Mon Nov 20 2017 - 23:22:31 CST)
  • Re: Computing atom distances (Sun Nov 05 2017 - 00:25:41 CDT)
  • Re: Computing atom distances (Tue Oct 31 2017 - 17:00:25 CDT)
  • Re: Wrapping molecules in unit box (Sun Oct 29 2017 - 18:27:54 CDT)
  • Re: Moving atoms so that origin is at fixed position with respect to the display (Thu Oct 26 2017 - 14:41:59 CDT)
  • Re: write a new dcd file for a sub selection of atoms (Mon Oct 23 2017 - 18:10:26 CDT)
  • Re: write a new dcd file for a sub selection of atoms (Mon Oct 23 2017 - 02:05:30 CDT)
  • Re: HOW TO VISUALIZE HBOND AFTER SIMULATIONS THROUGH VMD (Wed Oct 11 2017 - 03:24:28 CDT)
  • Re: PDB loading in old vmd versions (Wed Oct 11 2017 - 03:18:41 CDT)
  • Re: bond updating in VMD (Sat Aug 19 2017 - 01:27:26 CDT)
  • Re: convert frames to nano seconds (Thu Aug 17 2017 - 09:27:56 CDT)
  • Re: convert frames to nano seconds (Thu Aug 17 2017 - 07:58:49 CDT)
  • Re: convert frames to nano seconds (Wed Aug 16 2017 - 09:53:19 CDT)
  • Re: Finding atoms in protein-lipid system having electrostatic interaction (Wed Aug 09 2017 - 14:27:48 CDT)
  • Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 22:41:58 CDT)
  • Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 11:11:45 CDT)
  • Re: Re: Unequal atoms size (Wed Jul 26 2017 - 03:37:36 CDT)
  • Re: mol pdbload failing (Wed Jul 26 2017 - 00:39:09 CDT)
  • Re: mol pdbload failing (Wed Jul 26 2017 - 00:35:27 CDT)
  • Re: (Thu Jul 20 2017 - 03:23:39 CDT)
  • Re: psfgen error with "auto angles dihe patch" (Thu Jun 29 2017 - 14:30:57 CDT)
  • Re: PSF and PDB files do not show up (Wed Jun 28 2017 - 13:37:28 CDT)
  • Re: Micelle formation visualisation (Tue Jun 27 2017 - 14:28:30 CDT)
  • Re: Extract coordinates from a pdb file (Tue Jun 13 2017 - 08:27:08 CDT)
  • Re: Extract coordinates from a pdb file (Mon Jun 12 2017 - 06:04:53 CDT)
  • Re: VMD crashed during reading the trajectory file (Sat Jun 10 2017 - 02:15:30 CDT)
  • Re: H-bond angle (Thu Jun 08 2017 - 10:58:40 CDT)
  • Re: winvmd stopped working (Fri Jun 02 2017 - 18:59:03 CDT)
  • Re: Average structure using multiple frame trajectory (Thu May 25 2017 - 06:07:34 CDT)
  • Re: Atoms moving too fast (Wed May 24 2017 - 20:49:05 CDT)
  • Re: Selection of lipids not in contact with polymer (Sun May 21 2017 - 18:00:34 CDT)
  • Re: psfgen error with charmm36 parameters? (Wed Apr 05 2017 - 05:15:38 CDT)
  • Re: How to extract data from log file (Thu Mar 30 2017 - 02:18:27 CDT)
  • Re: creating the center of mass pdb file (Tue Feb 28 2017 - 15:27:07 CST)
  • Re: How to remove rmsd spikes due to PB (Sat Feb 25 2017 - 14:43:39 CST)
  • Re: Issue viewing GRO file in VMD (Fri Feb 24 2017 - 19:10:53 CST)
  • Re: Using variables inside Atomselect (Tue Feb 07 2017 - 08:15:44 CST)
  • Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 02:01:13 CST)
  • Re: minimizing each structure of a DCD file (Sun Jan 22 2017 - 07:48:30 CST)
  • Re: psf for a DNA chain (Wed Jan 18 2017 - 07:12:54 CST)
  • Re: working with VMD (Sat Jan 14 2017 - 11:59:46 CST)
  • Re: Analyzing results of simulation done by gromacs (Sat Jan 14 2017 - 06:15:12 CST)
  • Re: Analyzing results of simulation done by gromacs (Fri Jan 13 2017 - 16:41:27 CST)
  • Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 04:18:44 CST)
  • Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 04:30:36 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:35:02 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 06:41:58 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 06:19:33 CST)
  • Re: Superimpose (Tue Dec 06 2016 - 22:56:55 CST)
  • Re: change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 10:53:47 CST)
  • Re: Superimpose (Thu Dec 01 2016 - 02:42:56 CST)
  • Re: Superimpose Models (Thu Nov 24 2016 - 22:41:36 CST)
  • Re: error loading PDB (Tue Nov 22 2016 - 18:13:11 CST)
  • Re: exact number of solvent molecule in simulation box (Tue Nov 15 2016 - 09:10:39 CST)
  • Re: exact number of solvent molecule in simulation box (Tue Nov 15 2016 - 09:07:20 CST)
  • PhD position available (Sat Nov 12 2016 - 19:17:08 CST)
  • Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 20:49:50 CDT)
  • Re: Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 17:12:33 CDT)
  • Re: Alignment and RMSD calculation (Tue Sep 27 2016 - 21:46:17 CDT)
  • Re: measuring angle between two domains of protein (Fri Sep 23 2016 - 06:40:58 CDT)
  • Re: Atom Selection based on angular criterion (Thu Sep 01 2016 - 07:02:34 CDT)
  • Re: psf file is changed (Sat Jul 09 2016 - 12:01:42 CDT)
  • Re: making cluster for simulations (Wed Jun 29 2016 - 13:15:26 CDT)
  • Re: generating autopsf (Wed Jun 29 2016 - 11:30:14 CDT)
  • Re: generating autopsf (Tue Jun 28 2016 - 13:50:48 CDT)
  • Re: System requirement for MD 10ns (Tue Jun 28 2016 - 11:03:49 CDT)
  • Re: Script to generate PSF: ERROR, additional atoms (Wed Jun 08 2016 - 15:31:40 CDT)
  • Re: backbone selection failing (Fri Apr 22 2016 - 04:32:13 CDT)
  • Re: backbone selection failing (Thu Apr 21 2016 - 13:28:42 CDT)
  • Re: adding free Fe(II) ions? (Thu Apr 21 2016 - 05:07:04 CDT)
  • Re: solvate fails to set coordinates for the first few residues of the first chain? (Wed Apr 20 2016 - 00:29:41 CDT)
  • Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 19:38:54 CDT)
  • Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 19:33:32 CDT)
  • Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 16:17:17 CDT)
  • Re: How to determine angle between two helices? (Wed Apr 06 2016 - 20:54:17 CDT)
  • Re: Reading from file (Mon Apr 04 2016 - 01:36:25 CDT)
  • Re: protein from protein sequence in VMD (Thu Mar 31 2016 - 09:47:27 CDT)
  • Re: Not all frames loaded (Mon Feb 29 2016 - 15:24:14 CST)
  • Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 16:02:49 CST)
  • Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 11:52:22 CST)
  • Re: A nanosphere with mass (Mon Feb 01 2016 - 05:30:30 CST)
  • Re: A nanosphere with mass (Mon Feb 01 2016 - 03:51:35 CST)
  • Re: selection of atoms/residues across multiple molecules... (Sat Jan 30 2016 - 23:26:21 CST)
  • Re: Specify stride from command line (Thu Jan 28 2016 - 14:19:13 CST)
  • Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 12:59:23 CST)
  • Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 03:56:04 CST)
  • Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 00:51:22 CST)
  • Re: Manipulating the pdb file (Wed Jan 20 2016 - 19:03:05 CST)
  • Re: TCL code for psf file (Sun Dec 27 2015 - 12:57:33 CST)
  • Re: calculating RMSD for a trajectory file (Mon Dec 21 2015 - 05:20:43 CST)
  • Re: Number of pdb and psf atoms are not the same! (Wed Dec 16 2015 - 09:57:47 CST)
  • Re: Unable to access config file (Thu Dec 10 2015 - 22:57:56 CST)
  • Re: How can I trace an oxygen atom in VMD? (Mon Oct 19 2015 - 01:42:45 CDT)
  • Re: Re: VMD Tricky selection of protein water bridge (2 bridge waters) (Fri Oct 02 2015 - 18:17:31 CDT)
  • Re: How to extract data from NAMD log file for viscosity calculation (Tue Aug 18 2015 - 22:44:28 CDT)
  • Re: Generating PSF for several proteins in one shot (Tue Jul 21 2015 - 02:33:02 CDT)
  • Re: Primary structure, (Fri Jul 10 2015 - 11:21:09 CDT)
  • Re: pdb and topology files for DNA (Fri Jul 03 2015 - 13:18:23 CDT)
  • Re: Error- Periodic cell (Thu Jul 02 2015 - 11:13:29 CDT)
  • Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:16:23 CDT)
  • Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:14:24 CDT)
  • Re: Re: Alpha-RMSD (Wed May 27 2015 - 21:54:20 CDT)
  • Re: Orienting molecule along principal axes (Wed May 20 2015 - 04:17:20 CDT)
  • Re: How to continue the calculation of NAMD in case of power failure? (Sun May 17 2015 - 21:13:43 CDT)
  • Re: Error saying "too many open files" (Mon Apr 20 2015 - 02:33:57 CDT)
  • Re: Error saying "too many open files" (Mon Apr 20 2015 - 01:56:39 CDT)
  • Re: flip the sheet using transaxis command (Sun Mar 29 2015 - 01:29:38 CDT)
  • Re: flip the sheet using transaxis command (Sat Mar 28 2015 - 23:30:46 CDT)
  • Re: Problem with generating psf and pdb files of metalloprotein made up of two fragments (Fri Mar 27 2015 - 06:11:27 CDT)
  • Re: How to run VMD text mode on Windows 7 (Wed Mar 25 2015 - 02:03:26 CDT)
  • Re: How to run VMD text mode on Windows 7 (Tue Mar 24 2015 - 23:32:54 CDT)
  • Re: (Mon Feb 23 2015 - 15:57:27 CST)
  • Re: (Thu Feb 19 2015 - 17:48:43 CST)
  • Re: (Wed Feb 18 2015 - 17:08:05 CST)
  • Re: (Wed Feb 18 2015 - 16:48:31 CST)
  • Re: Bonding energies between two atom selections (Tue Feb 17 2015 - 05:56:18 CST)
  • Re: how to select a particular molecule (Thu Feb 12 2015 - 20:21:06 CST)
  • Re: how to select a particular molecule (Thu Feb 12 2015 - 20:56:57 CST)
  • Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:53:34 CST)
  • Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:49:52 CST)
  • Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:02:21 CST)
  • Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:00:29 CST)
  • Fwd: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 00:48:48 CST)
  • Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 21:14:19 CST)
  • Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 05:01:53 CST)
  • Is a PDB file hiding something ??? (Sat Jan 17 2015 - 00:27:13 CST)
  • Re: add/remove bonds between different types of atoms (Mon Jan 05 2015 - 08:27:03 CST)
  • Re: non-bonded interactions (Thu Dec 25 2014 - 00:03:08 CST)
  • Re: non-bonded interactions (Wed Dec 24 2014 - 06:43:07 CST)
  • Re: need help for tcl script (Sun Dec 14 2014 - 14:38:33 CST)
  • Re: format I should use if I have different total number of atoms for each timesteps (Thu Dec 11 2014 - 20:58:14 CST)
  • Re: tcl and vmd (Thu Dec 11 2014 - 18:01:48 CST)
  • Re: adding solvation box (Thu Dec 11 2014 - 15:05:14 CST)
  • Re: How to save particular md frames by VMD (Wed Dec 10 2014 - 00:17:59 CST)
  • Re: A query about the deletion of Hydrogen and re-adding them by psfgen (Tue Dec 09 2014 - 19:44:20 CST)
  • Re: A query about the deletion of Hydrogen and re-adding them by psfgen (Tue Dec 09 2014 - 16:50:08 CST)
  • Re: Problem with 'measure energy elect' command in VMD (Fri Dec 05 2014 - 00:03:26 CST)
  • Fwd: How can I get the path of the TOP molecule in the tcl console? (Thu Dec 04 2014 - 22:15:51 CST)
  • Re: Regarding RMSD (Wed Dec 03 2014 - 01:13:42 CST)
  • Re: How to find rmsd of energy minimized structure of protein (Wed Dec 03 2014 - 00:27:32 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Thu Nov 27 2014 - 08:48:56 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 17:02:34 CST)
  • Re: velocity or force of water molecules (Wed Nov 26 2014 - 17:31:30 CST)
  • Re: question about CUDA-enabled (Mon Nov 24 2014 - 03:45:07 CST)
  • Re: Fixing the rotation of complex during trajectory visualization (Wed Nov 19 2014 - 06:54:59 CST)
  • Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Wed Nov 12 2014 - 06:51:52 CST)
  • Re: Protein went out of the Box (Wed Nov 12 2014 - 00:41:23 CST)
  • Re: Protein went out of the Box (Tue Nov 11 2014 - 19:13:00 CST)
  • Re: Re: Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 10:46:00 CST)
  • Re: psfgen N-terminal patches (Fri Oct 31 2014 - 16:05:54 CDT)
  • Re: psfgen N-terminal patches (Fri Oct 31 2014 - 15:37:42 CDT)
  • Re: removing water inside the nanotube (Wed Oct 29 2014 - 03:54:03 CDT)
  • Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 07:00:24 CDT)
  • Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 07:04:41 CDT)
  • vmd-l incoming mails become Spam (Fri Oct 24 2014 - 06:20:43 CDT)
  • Re: VMD plugins not available without gui (Wed Oct 08 2014 - 04:13:33 CDT)
  • Re: calculate structure of protein (Fri Oct 03 2014 - 07:18:08 CDT)
  • Re: Resname CHARMM to NAMD (Mon Sep 22 2014 - 23:50:14 CDT)
  • Re: CatDCD on Windows (Mon Sep 22 2014 - 19:35:07 CDT)
  • CatDCD on Windows (Mon Sep 22 2014 - 18:07:48 CDT)
  • Parameter and Topology File UPDATE. (Fri Aug 15 2014 - 21:23:48 CDT)
• Ashish .Chauniyal
  • Re: How do i merge files with mergemols (Thu May 01 2014 - 05:39:14 CDT)
  • Re: How do i merge files with mergemols (Sat Apr 26 2014 - 10:10:45 CDT)
  • Re: How do i merge files with mergemols (Sat Apr 26 2014 - 09:01:14 CDT)
  • Re: How do i merge files with mergemols (Sat Apr 26 2014 - 09:07:27 CDT)
  • Re: How do i merge files with mergemols (Fri Apr 25 2014 - 06:14:22 CDT)
  • How do i merge files with mergemols (Wed Apr 16 2014 - 10:07:00 CDT)
  • problem with 'atomselect' command (Tue Apr 08 2014 - 12:23:05 CDT)
• ASHISH BIHANI
  • CentOS 6.4 crashed right after starting vmd (Thu Apr 16 2015 - 00:57:51 CDT)
• Ashley Bennett
  • Tachyon Render and MacOS segfault Issue (Wed Nov 02 2016 - 16:39:20 CDT)
• Ashlynne Monroe
  • capping or patching protein ends (Thu Mar 03 2011 - 10:40:37 CST)
• Ashma Khan
  • (no subject) (Thu Dec 10 2020 - 10:16:13 CST)
  • Re: confusing about the residue number (Thu Dec 10 2020 - 10:07:56 CST)
  • Re: confusing about the residue number (Wed Dec 09 2020 - 23:24:36 CST)
  • confusing about the residue number (Wed Dec 09 2020 - 22:43:18 CST)
  • Re: For calculating the number of osmolytes molecules (Mon Sep 16 2019 - 09:47:08 CDT)
  • For calculating the number of osmolytes molecules (Mon Sep 16 2019 - 04:51:51 CDT)
  • selection of water molecules around particular number of atoms (Wed Nov 28 2018 - 23:54:42 CST)
• Ashraya Ravikumar
  • RMSD per residue vs RMSF (Wed Dec 18 2019 - 12:34:19 CST)
• asimplefunguy_at_netscape.net
  • nvidia drivers and 64bit OS VMD/PYMOL (Mon Oct 24 2005 - 09:10:23 CDT)
• Asis Jana
  • Re: removing water inside the nanotube (Tue Oct 28 2014 - 23:24:57 CDT)
  • removing water inside the nanotube (Tue Oct 28 2014 - 11:19:42 CDT)
• Asmaa Elsheshiny
  • apbs with vmd, no output (Tue May 10 2011 - 12:14:08 CDT)
  • "can not find channel named ... (Wed Jul 28 2010 - 04:14:31 CDT)
• Assa Sittner
  • viewing .brix maps (Sun Mar 13 2005 - 04:58:03 CST)
• Ata Madanchi
  • Extracting hydrogen bond information of water (Thu Nov 03 2022 - 14:28:43 CDT)
• Atanu Acharya
  • Re: VMD on Windows 11 (Wed Feb 08 2023 - 15:39:47 CST)
  • Re: VMD 1.9.4.a53 crashes on windows 11 (Thu Nov 03 2022 - 23:06:27 CDT)
  • VMD 1.9.4.a53 crashes on windows 11 (Thu Nov 03 2022 - 11:01:49 CDT)
• Atanu Maity
  • Re: query regarding phi-psi range for asigning secondary structure (Fri Oct 09 2015 - 04:44:24 CDT)
  • query regarding phi-psi range for asigning secondary structure (Fri Oct 09 2015 - 01:43:43 CDT)
• Athanassios Stavrakoudis
  • Re: Calculating system net charge with tcl in VMD (Mon Apr 27 2009 - 05:12:18 CDT)
• Atila Iamarino
  • removing water molecules (Mon Jun 04 2007 - 13:21:33 CDT)
  • Re: Saving mol2 file (Wed Apr 18 2007 - 10:50:57 CDT)
  • Saving mol2 file (Mon Apr 16 2007 - 12:36:00 CDT)
• Atila Petrosian
  • rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:29:11 CST)
  • Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 01:55:18 CST)
  • rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 01:49:42 CST)
  • Re: netcdf trajectory file (Fri Oct 30 2015 - 08:42:20 CDT)
  • Re: netcdf trajectory file (Fri Oct 30 2015 - 07:46:10 CDT)
  • Re: netcdf trajectory file (Fri Oct 30 2015 - 06:17:27 CDT)
  • netcdf trajectory file (Fri Oct 30 2015 - 02:22:12 CDT)
  • embedding proteins in membrane: child killed: segmentation violation (Sun Aug 23 2015 - 09:59:08 CDT)
  • contact map for Protein-DNA interaction (Mon Jul 12 2010 - 02:19:13 CDT)
• Atreya Dey
  • Using the -updatesel parameter in namdenergy (Fri Nov 20 2015 - 01:49:58 CST)
  • Energy based coloring of residues (Mon Jul 06 2015 - 06:28:54 CDT)
• Atreyo Pal
  • VMD running on Mac OS Big Sur (Tue Nov 17 2020 - 20:28:30 CST)
  • cionize plugin VMD (Mon Nov 09 2020 - 11:33:51 CST)
• Audrey Salazar
  • Questions abt VMD plugins (Fri Sep 14 2007 - 08:59:48 CDT)
  • Re: Installing VMD to work with MSMS (Tue Aug 14 2007 - 13:42:35 CDT)
  • Installing VMD to work with MSMS (Tue Aug 14 2007 - 11:07:38 CDT)
  • Archived Spam in the VMD-L Mailing List (Tue Aug 14 2007 - 10:00:30 CDT)
  • Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 14:47:08 CDT)
  • Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 14:27:52 CDT)
  • Automatic PSF Builder Help (Mon Aug 06 2007 - 11:16:12 CDT)
• Aurelie.DeLuca_at_sanofi-aventis.com
  • RMSD between two structures without the same number of atoms (Fri Apr 18 2008 - 08:08:39 CDT)
• Aurore Zyto
  • Cartoon representation for large molecules (Wed Dec 31 2003 - 15:43:11 CST)
• Aurum Bai
  • About "Visualization and Analysis of CPMD data with VMD" tutorial (Thu Dec 10 2009 - 02:29:22 CST)
  • Is it the bug of VMD1.87_partool? (Wed Nov 18 2009 - 06:29:56 CST)
  • How to compile the source of VMD1.8.7 on linux system (Fri Aug 07 2009 - 00:10:40 CDT)
  • Why the win_version of vmd1.86 can not change to python interpreter? (Sat Aug 01 2009 - 08:21:06 CDT)
• Austin Small
  • RE: Can't execvp vmd_SOLARISX86 (Tue Sep 25 2007 - 16:14:16 CDT)
  • Can't execvp vmd_SOLARISX86 (Sun Sep 23 2007 - 23:42:50 CDT)
  • vmdbasename: Undefined variable (Sat Sep 08 2007 - 12:13:41 CDT)
• AustinSmall_at_comcast.net
  • VMD plugin error src/webpdbplugin.c (Sun Aug 12 2007 - 18:08:17 CDT)
  • Re: gmake invalid option --c install (Sat Aug 11 2007 - 12:52:32 CDT)
  • gmake invalid option --c install (Sat Aug 11 2007 - 10:47:45 CDT)
  • VMD plugins error (Mon Aug 06 2007 - 22:18:52 CDT)
  • (no subject) (Thu Jul 26 2007 - 16:06:23 CDT)
  • installation errors with src/hesstrans_wrap.C (Thu Jul 26 2007 - 16:16:39 CDT)
• Avell Diroll
  • Re: Hydrophobicity plots in VMD (Tue Nov 27 2007 - 03:22:21 CST)
  • Re: Moving volume data with molecule (Thu Mar 29 2007 - 11:59:01 CDT)
  • Moving volume data with molecule (Thu Mar 29 2007 - 10:05:40 CDT)
  • Re: read the pdb file using VMD (Wed Mar 07 2007 - 17:39:38 CST)
  • Re: Isosurface rendering (Thu Feb 22 2007 - 08:11:28 CST)
  • Re: Isosurface rendering (Wed Feb 21 2007 - 06:42:05 CST)
  • Isosurface rendering (Tue Feb 20 2007 - 08:52:35 CST)
• Avisek Das
  • Re: VMD on Blue Waters (Fri Dec 20 2013 - 13:05:17 CST)
  • Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:45:45 CST)
  • Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:32:48 CST)
  • VMD on Blue Waters (Fri Dec 20 2013 - 11:55:25 CST)
  • OpenGL problem (Mon Apr 29 2013 - 11:04:36 CDT)
• avl211_at_lehigh.edu
  • Problem With Psfgen again (Fri Jul 17 2009 - 13:53:49 CDT)
  • Problems with psfgen (Thu Jul 16 2009 - 16:06:31 CDT)
• Axel Berg
  • questions about MSMS and H-bonds (Fri Mar 05 1999 - 06:38:48 CST)
  • MSMS in VMD (Tue Oct 14 1997 - 07:58:11 CDT)
• Axel Kohlmeyer
  • Re: Python crash VMD1.9.4 (Wed Apr 12 2023 - 09:57:28 CDT)
  • Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 08:43:23 CDT)
  • Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 08:31:28 CDT)
  • Re: Two questions: reordering molecule IDs and deleting frames with TCL commands (Sat Mar 11 2023 - 23:49:00 CST)
  • Re: Two questions: reordering molecule IDs and deleting frames with TCL commands (Sat Mar 11 2023 - 23:23:27 CST)
  • Re: Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: ‘OSPModel’ does not name a typ (Thu Feb 23 2023 - 23:55:57 CST)
  • Re: Problem with make_trajectory_movie_files script for lammps trajectory with -dispdev text (Fri Feb 17 2023 - 06:45:21 CST)
  • Re: VMD on Windows 11 (Wed Feb 08 2023 - 12:57:05 CST)
  • Re: coloring (Fri Dec 30 2022 - 19:16:49 CST)
  • Re: << thresholds for drawing bonds >> (Tue Dec 27 2022 - 16:12:10 CST)
  • Re: Issue install VMD 1.9.3 Spack (Mon Dec 05 2022 - 05:45:24 CST)
  • Re: Topotools "guessangles" not assigning angles (Wed Nov 09 2022 - 03:07:42 CST)
  • Re: Maximum Stride Possible for Publishable Results (Fri Oct 07 2022 - 13:42:45 CDT)
  • Re: Maximum Stride Possible for Publishable Results (Wed Oct 05 2022 - 14:42:34 CDT)
  • Re: Overriding default bond heuristics (Mon Oct 03 2022 - 13:39:22 CDT)
  • Re: DisRG Plugin Availability (Thu Aug 25 2022 - 17:45:01 CDT)
  • Re: rdf with respect to a specific point (Thu Aug 25 2022 - 17:37:03 CDT)
  • Re: rdf with respect to a specific point (Wed Aug 24 2022 - 17:16:42 CDT)
  • Re: Protein residue read as solvent (Wed Aug 17 2022 - 07:48:42 CDT)
  • Re: compiling VMD 1.9.3 under Ubuntu 22.04LTS: modern C library issues (Sat Jul 30 2022 - 16:04:14 CDT)
  • Re: Create CHARMM COR files with VMD (Tue Jul 26 2022 - 12:09:13 CDT)
  • Re: << multiple atom selection >> (Sat Jul 23 2022 - 13:02:47 CDT)
  • Re: << multiple atom selection >> (Sat Jul 23 2022 - 13:03:27 CDT)
  • Re: How to reduce the size of a .dcd file? (Fri Jun 17 2022 - 09:45:16 CDT)
  • Re: Movie Maker plugin parallel MPI rendering (Sun May 29 2022 - 18:49:42 CDT)
  • Re: “Filesize limit exceeded (core dumped)Q=80=9D_with_VMD_on_Linux?= (Thu May 26 2022 - 12:09:10 CDT)
  • Re: measure sasa and memory issue (Sun May 22 2022 - 12:24:04 CDT)
  • Re: Launching VMD Gui from WSL Centos compiled from source (Sat May 21 2022 - 11:07:29 CDT)
  • Re: Parsing exit code from TCL script to bash bypassing VMD (Mon May 09 2022 - 09:17:29 CDT)
  • Re: question on increasing font size on VMD main menu (Sat Apr 30 2022 - 15:18:13 CDT)
  • Re: VMD MPI error (Wed Apr 06 2022 - 05:48:26 CDT)
  • Re: error 1114 when loading plugins (Tue Apr 05 2022 - 13:36:18 CDT)
  • Re: GPU-accelerated RDF Calculation (Thu Mar 31 2022 - 18:10:50 CDT)
  • Re: How to increase bond length maximum ? (Thu Mar 31 2022 - 09:05:33 CDT)
  • Re: << memory issue? >> (Wed Mar 30 2022 - 21:05:09 CDT)
  • Re: How to increase bond length maximum ? (Wed Mar 30 2022 - 08:15:31 CDT)
  • Re: How to read netcdf files on Windows version of VMD? (Mon Mar 14 2022 - 03:02:28 CDT)
  • Re: How to read netcdf files on Windows version of VMD? (Mon Mar 14 2022 - 02:45:43 CDT)
  • Re: read setting from text file (Tue Mar 01 2022 - 09:00:17 CST)
  • Re: Visualize a lammpstrij file (Thu Jan 20 2022 - 06:45:18 CST)
  • Re: MOLECULE DESTROYED BY FATAL ERROR (Sun Jan 16 2022 - 15:40:25 CST)
  • Re: How to write a netcdf file in vmd from already loaded netcdf/dcd trajectory (Thu Dec 23 2021 - 06:16:31 CST)
  • Re: VMD warning: ignoring out of range atom #*** with id *** (Wed Dec 15 2021 - 09:28:58 CST)
  • Re: molfile plugin compilation for webassembly (Wed Dec 01 2021 - 22:22:57 CST)
  • Re: CIF file reader (Wed Dec 01 2021 - 22:26:19 CST)
  • Re: Re: CNT structure formation (Sat Nov 27 2021 - 14:03:46 CST)
  • Re: Dynamic bonds across PBC (Sat Nov 27 2021 - 07:45:18 CST)
  • Re: support for gromacs topology files (Fri Nov 26 2021 - 19:25:44 CST)
  • Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:52:39 CST)
  • Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:19:32 CST)
  • Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:14:48 CST)
  • Re: Color Transition in VMD (Sun Nov 14 2021 - 08:46:55 CST)
  • Re: Color Transition in VMD (Sun Nov 14 2021 - 02:44:41 CST)
  • Re: Color Transition in VMD (Sat Nov 13 2021 - 18:42:24 CST)
  • Re: Color Transition in VMD (Sat Nov 13 2021 - 16:32:52 CST)
  • Re: Remote IMD simulation (Sat Nov 06 2021 - 13:38:23 CDT)
  • Re: Install of VMD on amazon linux2 NICE DCV server (Sat Nov 06 2021 - 11:41:25 CDT)
  • Re: Merge frames of PDB asymmetric unit to biological assembly (Tue Oct 05 2021 - 23:42:45 CDT)
  • Re: loading movies of ply files (Thu Sep 02 2021 - 11:14:40 CDT)
  • Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 11:06:30 CDT)
  • Re: Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Thu Jul 22 2021 - 07:41:39 CDT)
  • Re: [External] Re: troubles in setting pbc on m1 mac version (Thu Jul 15 2021 - 09:50:28 CDT)
  • Re: vmd change atom type when saving lammpstrj (Tue Jul 13 2021 - 15:31:04 CDT)
  • Re: showing bonds in .xyz files (Wed Jul 07 2021 - 12:32:32 CDT)
  • Re: Re: [topotools]writelammpsdata (Fri Jun 18 2021 - 08:52:30 CDT)
  • Re: [topotools]writelammpsdata (Fri Jun 18 2021 - 07:58:55 CDT)
  • Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:55:13 CDT)
  • Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:59:40 CDT)
  • Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:52:29 CDT)
  • Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 13:26:26 CDT)
  • Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 08:20:02 CDT)
  • Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 04:30:22 CDT)
  • Re: Compilation error: stride_LINUXAMD64', surf_LINUXAMD64, tachyon_LINUXAMD64 : No such file or directory (Thu Apr 22 2021 - 15:34:04 CDT)
  • Re: BFEE plugin error: 'measure center: bad weight sum would cause divide by zero' (Thu Apr 22 2021 - 12:59:51 CDT)
  • Re: Loading files (Wed Apr 07 2021 - 16:34:57 CDT)
  • Re: Loading files (Wed Apr 07 2021 - 14:59:25 CDT)
  • Re: Loading files (Wed Apr 07 2021 - 15:02:28 CDT)
  • Re: (Fri Mar 26 2021 - 14:01:39 CDT)
  • Re: Why do the coordinates of my atoms change when writing to a pdb file? (Sun Mar 21 2021 - 00:18:28 CDT)
  • Re: set non-zero box sizes for GAMESS output (Tue Mar 16 2021 - 13:30:53 CDT)
  • Re: Using writelammpsdata in 1.9.4 (Tue Mar 02 2021 - 20:49:54 CST)
  • Re: Using writelammpsdata in 1.9.4 (Tue Mar 02 2021 - 20:05:55 CST)
  • Re: New User Cannot Access VMD on Windows (Fri Feb 26 2021 - 18:59:05 CST)
  • Re: Native contacts tcl script crashed (Thu Feb 18 2021 - 01:13:34 CST)
  • Re: Native contacts tcl script crashed (Tue Feb 16 2021 - 05:12:14 CST)
  • Re: Pbc box on, default (Wed Feb 03 2021 - 13:07:03 CST)
  • Re: Fwd: Naming Atoms in VMD (Thu Jan 21 2021 - 16:36:16 CST)
  • Re: OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Thu Jan 21 2021 - 07:15:46 CST)
  • Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 17:29:43 CST)
  • Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 17:14:13 CST)
  • Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:58:26 CST)
  • Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:48:47 CST)
  • Re: lammpstrj move out zoom (Fri Jan 01 2021 - 11:03:26 CST)
  • Re: (Sat Dec 05 2020 - 17:08:10 CST)
  • Re: Saving updated trajectory coordinates of selected atoms (Mon Nov 16 2020 - 09:02:07 CST)
  • Re: Saving updated trajectory coordinates of selected atoms (Mon Nov 16 2020 - 07:42:46 CST)
  • Re: Sorting as an increasing function of the integers in suffices (Mon Nov 16 2020 - 07:47:14 CST)
  • Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 15:03:21 CDT)
  • Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 14:28:43 CDT)
  • Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 13:47:24 CDT)
  • Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 16:08:35 CDT)
  • Re: shifting of ions from +z to -z in a single frame(1ps) (Tue Oct 06 2020 - 22:13:37 CDT)
  • Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 17:29:43 CDT)
  • Re: compile vmd for windows 10 (Tue Sep 22 2020 - 09:07:27 CDT)
  • Re: Unusual coordinates in PDB files exracted from dcd file (Sun Sep 20 2020 - 21:12:41 CDT)
  • Re: topo tool guess bond algorithm (Tue Sep 15 2020 - 19:07:28 CDT)
  • Re: Regarding arsorite files (Tue Sep 15 2020 - 08:10:10 CDT)
  • Re: New LAMMPS atom style for TopoTools (Wed Aug 19 2020 - 10:10:46 CDT)
  • Re: No file upon rendering (Mon Aug 10 2020 - 10:26:23 CDT)
  • Re: LAMMPS output with VMD (Mon Aug 03 2020 - 09:57:20 CDT)
  • Re: building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 09:52:16 CDT)
  • Re: Trajectory smoothing (Mon Jul 13 2020 - 22:41:55 CDT)
  • Re: Trajectory smoothing (Mon Jul 13 2020 - 22:06:24 CDT)
  • Re: Best way to extend molfile plugin (Tue Jul 07 2020 - 08:15:37 CDT)
  • Re: Fw: selection of molecules in dynamic region (Wed Jul 01 2020 - 10:53:37 CDT)
  • Re: VMD on HPC (Wed Jul 01 2020 - 04:52:33 CDT)
  • Re: selection of molecules in dynamic region (Mon Jun 29 2020 - 06:13:44 CDT)
  • Re: Visualizing Molecule-Molecule RDFs instead of atom-atom (Tue Jun 16 2020 - 16:58:45 CDT)
  • Re: Visualizing Molecule-Molecule RDFs instead of atom-atom (Tue Jun 16 2020 - 16:01:39 CDT)
  • Re: how to keep the bond , angle , dihedral and improper type after solvating the lammps data (Fri Jun 12 2020 - 15:04:44 CDT)
  • Re: Radial distribution function calculation (Wed Jun 10 2020 - 23:59:10 CDT)
  • Re: Visualizing Vibrational Modes (Tue Jun 09 2020 - 18:08:29 CDT)
  • Re: Visualizing Vibrational Modes (Tue Jun 09 2020 - 17:23:13 CDT)
  • Re: Fw: Hbond extension (Tue Jun 02 2020 - 12:43:54 CDT)
  • Re: new type cross terms in topo tool (Sat May 09 2020 - 16:14:11 CDT)
  • Re: delete angle type with topo tool (Sat May 09 2020 - 16:12:13 CDT)
  • Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 12:38:51 CDT)
  • Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 12:12:32 CDT)
  • Re: Build graphene sheets using VMD (Thu Feb 20 2020 - 16:22:12 CST)
  • Re: Build graphene sheets using VMD (Thu Feb 20 2020 - 15:54:39 CST)
  • Re: Keeping molecules intact when unwrapping (Sun Feb 16 2020 - 17:37:22 CST)
  • Re: Check and remove the overlapping between atoms (Sun Feb 16 2020 - 17:47:25 CST)
  • Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 11:09:48 CST)
  • Re: writing psf file without any coordinates (Wed Jan 22 2020 - 20:23:25 CST)
  • Re: save contact map residue-residue distance plot (Mon Jan 20 2020 - 08:28:11 CST)
  • Re: vmd draw material affects previous drawings (Mon Dec 16 2019 - 13:50:25 CST)
  • Re: Filetype for Kinetic Monte Carlo (Fri Nov 22 2019 - 10:29:22 CST)
  • Re: Is it possible to use VMD to plot RDFs where the cell volume/parameter changes at each time step? (Wed Oct 23 2019 - 15:49:48 CDT)
  • Re: Periodic image (Thu Oct 17 2019 - 04:40:39 CDT)
  • Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 15:07:54 CDT)
  • Re: XenoView saved file (.car/.mdf file) (Tue Sep 24 2019 - 11:20:18 CDT)
  • Re: VMD not reading plain mdcrd trajectories (Fri Sep 20 2019 - 10:26:47 CDT)
  • Re: << Loading trajectory file in Windows fails >> (Wed Aug 28 2019 - 09:08:53 CDT)
  • Re: sub : considering waters with in 5A of solute (Wed Jul 24 2019 - 12:24:05 CDT)
  • Re: Periodic boundary conditions for multimeric systems (Mon Jul 22 2019 - 11:58:08 CDT)
  • Re: atomselect one liner (Sat Jul 20 2019 - 03:22:13 CDT)
  • Re: Increasing the number of bonds per atom (Thu Jun 27 2019 - 07:31:22 CDT)
  • Re: how to draw boxes with semi-transparent sides (Sun Jun 02 2019 - 20:21:05 CDT)
  • Re: Topotools - silicon (110) creation (Sat Mar 30 2019 - 06:05:07 CDT)
  • Re: Topotools - silicon (110) creation (Thu Mar 28 2019 - 11:56:12 CDT)
  • Re: PSF File (Wed Mar 13 2019 - 19:54:21 CDT)
  • Re: How to fix the position of the lipid bilayer in the trajectories (Wed Mar 13 2019 - 16:18:12 CDT)
  • Re: TCL For Loop Problem (Sun Feb 24 2019 - 22:18:12 CST)
  • Re: Topo tools error in dihedral guess (Wed Feb 20 2019 - 06:12:00 CST)
  • Re: Topo tools error in dihedral guess (Tue Feb 19 2019 - 01:59:57 CST)
  • Re: Topo tools error in dihedral guess (Mon Feb 18 2019 - 13:14:00 CST)
  • Re: Topo tools error in dihedral guess (Mon Feb 18 2019 - 08:46:13 CST)
  • Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 12:36:22 CST)
  • Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 11:43:06 CST)
  • Re: Problem in loading netcdf file from LAMMPS output in VMD (Tue Jan 01 2019 - 23:52:35 CST)
  • Re: Calculation of gofr for non-orthorhombic boxes (Tue Jan 01 2019 - 22:55:07 CST)
  • Re: Error in Loading atom_style hybrid LAMMPS data file in VMD (Mon Dec 17 2018 - 09:13:01 CST)
  • Re: Create new atoms (Wed Nov 07 2018 - 14:32:13 CST)
  • Re: Question (Sun Nov 04 2018 - 18:56:26 CST)
  • Re: Dipole Watcher Plugin - atom selection not updated at every frame when drawing dipoles (Mon Oct 22 2018 - 10:15:14 CDT)
  • Re: Dipole Watcher Plugin - atom selection not updated at every frame when drawing dipoles (Thu Oct 18 2018 - 08:05:04 CDT)
  • Re: problem with Catdcd (Wed Sep 12 2018 - 23:50:14 CDT)
  • Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 08:14:03 CDT)
  • Re: psfgen building fails due to locale (Mon Jul 23 2018 - 08:12:37 CDT)
  • Re: IR spectral density calculation (Sun Jul 22 2018 - 14:26:45 CDT)
  • Re: Deleting a given bond type by topo tool (Wed Jul 18 2018 - 08:27:37 CDT)
  • Re: Issue with visualizing model (Sat Jul 14 2018 - 01:16:28 CDT)
  • Re: How to define charge group and pass it to topo writegmxtop (Mon Jul 02 2018 - 06:07:08 CDT)
  • Re: tcl script to pull pdb file from tgz (Thu Jun 21 2018 - 22:18:58 CDT)
  • Re: VMD Update Questions (Mon Jun 11 2018 - 15:11:52 CDT)
  • Re: Finding Local Kinetic Energy or Velocities (Wed May 23 2018 - 10:55:36 CDT)
  • Re: namd-l: Re: Fwd: FEP with intermediary segments (Fri May 04 2018 - 11:12:04 CDT)
  • Re: How to change the coordinates of the dummy atoms in readvarxyz (Fri May 04 2018 - 11:17:19 CDT)
  • Re: Calculating Diffusion Coefficient Using VMD (Tue May 01 2018 - 19:25:54 CDT)
  • Re: Resp on VMD (Mon Apr 23 2018 - 16:27:52 CDT)
  • Re: Calculating Diffusion Coefficient Using VMD (Mon Apr 23 2018 - 14:01:31 CDT)
  • Re: NAMD Color By Velocity (Tue Apr 17 2018 - 14:03:22 CDT)
  • Re: source download (Mon Apr 16 2018 - 08:43:31 CDT)
  • Re: Regarding RDF and Cordination number calculatin (Wed Apr 04 2018 - 05:04:34 CDT)
  • Re: ATOM VELOCITY HIGH ERROR in Coarse grained Simulation (Fri Mar 30 2018 - 09:41:50 CDT)
  • Re: Solvent PDB and PSF Files (Thu Mar 29 2018 - 12:58:02 CDT)
  • Re: Parallelization to an axis (Fri Mar 23 2018 - 09:57:52 CDT)
  • Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:53:08 CDT)
  • Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:32:37 CDT)
  • Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:30:12 CDT)
  • Re: Running vmd (Mon Mar 05 2018 - 09:50:16 CST)
  • Re: Running vmd (Mon Mar 05 2018 - 04:55:07 CST)
  • Re: netcdf for plugins (Sun Mar 04 2018 - 07:49:42 CST)
  • Re: vmd error related to tcl.h (Sun Mar 04 2018 - 07:42:32 CST)
  • Re: netcdf for plugins (Sun Mar 04 2018 - 07:34:44 CST)
  • Re: Unable to build a symmetric (m=0) zigzag BN nanotube in VMD (Wed Feb 28 2018 - 02:15:29 CST)
  • Re: Atom type information is not incremented after merging two molecules. (Fri Feb 23 2018 - 04:02:27 CST)
  • Re: salvation of heavy water (Mon Feb 19 2018 - 09:45:18 CST)
  • Re: Can specden produce the autocorrelation and not only the powerspectrum? (Tue Feb 06 2018 - 12:46:27 CST)
  • Re: removing rotation in trajectories (Wed Dec 20 2017 - 10:38:40 CST)
  • Re: Topotools guessing angle and bond topology from CONNECT info in PDB files (Wed Nov 22 2017 - 13:25:20 CST)
  • Re: Topotools guessing angle and bond topology from CONNECT info in PDB files (Wed Nov 22 2017 - 00:41:16 CST)
  • Re: error : invalid command name "psfgen" in 6pti tutorial (Mon Nov 20 2017 - 23:47:19 CST)
  • Re: Fwd: Topotools to keep atomtypes same (Wed Nov 01 2017 - 21:03:27 CDT)
  • Re: Fwd: Topotools to keep atomtypes same (Wed Nov 01 2017 - 17:38:50 CDT)
  • Re: calculate g(r) (Sun Oct 15 2017 - 14:09:46 CDT)
  • Re: calculate g(r) (Sun Oct 15 2017 - 08:42:56 CDT)
  • Re: calculate g(r) (Sun Oct 15 2017 - 07:00:57 CDT)
  • Re: Rgarding the output for dx file of occupancy(VolMap) (Mon Sep 18 2017 - 14:17:22 CDT)
  • Re: install VMD IN parallel (Fri Sep 01 2017 - 14:10:44 CDT)
  • Re: Problem loading Amber trajectory (Sun Aug 13 2017 - 09:22:54 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 13:00:15 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 09:15:58 CDT)
  • Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 05:40:02 CDT)
  • Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 22:26:32 CDT)
  • Re: coloring different polymers with different (random) colors (Mon Jul 10 2017 - 09:46:33 CDT)
  • Re: Get empirical formula of fragment (Mon Jul 03 2017 - 14:19:13 CDT)
  • Re: dynamic bond making/breaking formats (Fri Jun 30 2017 - 17:49:12 CDT)
  • Re: convert psf to top with topotools (Wed Jun 21 2017 - 13:04:40 CDT)
  • Re: problem of displaying simulation box (Fri Jun 16 2017 - 11:20:00 CDT)
  • Re: CG builder in script (Wed Jun 14 2017 - 05:53:26 CDT)
  • Re: CG builder in script (Wed Jun 14 2017 - 05:31:14 CDT)
  • Re: Periodic Conditions for Hexagonal Membrane System (Fri May 19 2017 - 19:40:24 CDT)
  • Re: Writing velocities in lammps dump file (Thu Apr 27 2017 - 06:28:09 CDT)
  • Re: RDF and RMSD calculation (Tue Apr 11 2017 - 09:54:28 CDT)
  • Re: video streaming (Thu Mar 30 2017 - 06:01:19 CDT)
  • Re: replicating a trajectory in VMD (Sun Mar 19 2017 - 10:55:51 CDT)
  • Re: Localhost port 3000 error (Wed Mar 08 2017 - 15:26:21 CST)
  • Re: Body (Mon Mar 06 2017 - 12:10:52 CST)
  • Re: ReadVarXYZ and measure gofr (Fri Feb 24 2017 - 15:12:28 CST)
  • Re: How to set the representations in batch in VMD? (Sat Feb 11 2017 - 13:42:12 CST)
  • Re: Topo file (Tue Feb 07 2017 - 11:14:14 CST)
  • Re: Topo file (Tue Feb 07 2017 - 10:45:30 CST)
  • Re: RDFs Calculation incorporating PBC (Mon Jan 23 2017 - 06:43:25 CST)
  • Re: writegmxtop error invalid command name "..." (Tue Jan 17 2017 - 07:14:29 CST)
  • Re: compiling VMD 1.9.3 with OSPRay support (Tue Jan 10 2017 - 08:54:18 CST)
  • Re: reading big xtc file (Thu Jan 05 2017 - 16:25:48 CST)
  • Re: topotools readlammpsdata redefining xyz coordinates? (Wed Jan 04 2017 - 17:49:44 CST)
  • Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 08:27:51 CST)
  • Re: vmd1.9.23 rlwrap: No match (Mon Dec 19 2016 - 16:07:55 CST)
  • Re: Atom selections for measure - index sorting (Thu Dec 15 2016 - 10:24:15 CST)
  • Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:51:56 CST)
  • Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:50:14 CST)
  • Re: Distribute evenly n-molecules at m-angstroem from protein surface (Sun Dec 04 2016 - 00:29:54 CST)
  • Re: Limits of the VMD Visualisation (Wed Nov 09 2016 - 12:21:13 CST)
  • Re: MD movie making of fluent movements (Fri Nov 04 2016 - 10:35:30 CDT)
  • Re: selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 09:52:54 CDT)
  • Re: by using Axel's HOOMD plugin, convert pdb to xml and missing bond information (Mon Sep 26 2016 - 06:11:58 CDT)
  • Re: by using Axel's HOOMD plugin, convert pdb to xml and missing bond information (Sun Sep 25 2016 - 23:20:00 CDT)
  • Re: mkdir command in vmd (Sun Sep 25 2016 - 22:05:45 CDT)
  • Re: compiling VMD from CVS 2016 09 21 (Wed Sep 21 2016 - 08:10:58 CDT)
  • Re: dcd File and bounds (Mon Sep 19 2016 - 09:47:15 CDT)
  • Re: IR Spectrum Units (Wed Sep 07 2016 - 09:16:06 CDT)
  • Re: Lammps data visualization with VMD (Mon Sep 05 2016 - 22:01:25 CDT)
  • Re: processing a large "molecule" (Sat Aug 06 2016 - 13:49:48 CDT)
  • Re: strange output from measure cluster (Thu Jul 21 2016 - 18:11:24 CDT)
  • Re: VMD failed after FFTW installation (Fri Jul 15 2016 - 06:27:35 CDT)
  • Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 16:32:26 CDT)
  • Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 10:59:22 CDT)
  • Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 10:31:15 CDT)
  • Re: On CHARMM angle bending potential (Tue Jul 05 2016 - 08:37:15 CDT)
  • Re: changing molid number (Mon Jul 04 2016 - 16:27:37 CDT)
  • Re: catdcd (Wed Jun 22 2016 - 07:21:37 CDT)
  • Re: Isosurface Render - No Color? (Tue Jun 21 2016 - 08:19:27 CDT)
  • Re: Bondlist limit (Wed Jun 15 2016 - 14:39:52 CDT)
  • Re: VMD XYZ plugin: add support for reading velocities (Thu Jun 09 2016 - 10:45:58 CDT)
  • Re: trr generated by catdcd (Sun Jun 05 2016 - 07:06:53 CDT)
  • Re: Bondlist limit (Thu May 19 2016 - 12:35:29 CDT)
  • Re: Superimposing 2 dcd files (Mon May 02 2016 - 09:46:11 CDT)
  • LAMMPS tutorial and Materials Simulation Symposium @ Temple, August 15-19, 2016 (Fri Apr 29 2016 - 21:11:16 CDT)
  • Re: mail about visualization state (Fri Apr 29 2016 - 03:43:45 CDT)
  • Re: Finding waters near a protein (Tue Apr 26 2016 - 17:14:43 CDT)
  • Re: Changing atoms diameter (Fri Apr 22 2016 - 05:18:28 CDT)
  • Re: output data file problem (Tue Apr 19 2016 - 15:38:21 CDT)
  • Re: Atom ID Change (Mon Apr 11 2016 - 13:12:20 CDT)
  • Re: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 05:47:43 CDT)
  • Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:20:30 CDT)
  • Re: default drawing style (Mon Mar 14 2016 - 22:04:59 CDT)
  • Re: tcl8.6 (Thu Mar 03 2016 - 12:52:12 CST)
  • Re: Problem wit solvating carbon nano-tube, psfgen) error reading atoms from psf file (Sun Feb 28 2016 - 11:48:58 CST)
  • Re: Tachyon renderer memory error (Tue Feb 09 2016 - 05:09:50 CST)
  • Re: Regarding pbc tool: pbc join fragment -bondlist + topo tool (Sat Feb 06 2016 - 07:41:31 CST)
  • Re: What is the correct way of using "pbcwrap" with "atomselect [within]"? (Tue Feb 02 2016 - 02:07:21 CST)
  • Re: A nanosphere with mass (Mon Feb 01 2016 - 01:47:00 CST)
  • Re: making a movie in a tcl script using graphics commands (Thu Jan 28 2016 - 17:16:48 CST)
  • Re: Possible bug in topotools plugin (Sun Jan 03 2016 - 11:17:49 CST)
  • Re: importing deMon2k "molden" files into VMD (Sat Dec 19 2015 - 17:48:31 CST)
  • Re: Defining space coordinates for multiple structures (Tue Dec 08 2015 - 13:45:12 CST)
  • Re: couldn't execute "psfgen": no such file or directory (Mon Dec 07 2015 - 07:03:19 CST)
  • Re: couldn't execute "psfgen": no such file or directory (Sun Dec 06 2015 - 07:26:56 CST)
  • Re: Measure atom position directly from index (Wed Dec 02 2015 - 19:56:14 CST)
  • Re: Guessbonds and retype bonds (Wed Dec 02 2015 - 15:46:43 CST)
  • Re: vmd killed - memory problems? (Fri Nov 27 2015 - 12:01:38 CST)
  • Re: vmd killed - memory problems? (Thu Nov 26 2015 - 07:27:01 CST)
  • Re: Re: Attractive or repulsive with Namd Energy? (Wed Nov 25 2015 - 11:35:39 CST)
  • Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:29:58 CST)
  • Re: Error (incompatible tcl8.5.so) when installing VMD plugins (Sat Nov 14 2015 - 09:31:15 CST)
  • Re: Problems with vmd plugin namdenergy output (Mon Nov 02 2015 - 10:51:24 CST)
  • Re: netcdf trajectory file (Fri Oct 30 2015 - 08:28:50 CDT)
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 17:37:04 CDT)
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 17:10:41 CDT)
  • Re: script for plotting trajectories (Mon Oct 26 2015 - 15:39:37 CDT)
  • Re: catdcd in VMD (Sat Oct 24 2015 - 10:57:48 CDT)
  • Re: Topology for drugs to do MD after docking (Thu Oct 22 2015 - 12:39:04 CDT)
  • Re: Problem on merging multi-psf files into one (Tue Oct 20 2015 - 05:58:07 CDT)
  • Re: Plot waters vs time in a trajectory (Mon Oct 19 2015 - 15:51:23 CDT)
  • Re: Delete atoms from selection (Mon Oct 19 2015 - 09:25:03 CDT)
  • Re: namd-l: Problem on merging multi-psf files into one (Sun Oct 18 2015 - 09:39:43 CDT)
  • Re: How to remove the simulation box (Wed Oct 14 2015 - 20:53:12 CDT)
  • Re: How to remove the simulation box (Wed Oct 14 2015 - 20:52:20 CDT)
  • Re: Change color of drawn object (Sun Oct 11 2015 - 09:53:37 CDT)
  • Re: set $sel {x y z} not working? (Sun Oct 11 2015 - 09:46:22 CDT)
  • Re: OpenDX file format website down: What do the three values at each grid point represent (Mon Oct 05 2015 - 10:57:17 CDT)
  • Re: OpenDX file format website down: What do the three values at each grid point represent (Fri Oct 02 2015 - 13:09:36 CDT)
  • Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 14:52:43 CDT)
  • Re: mergemols not combining topology information (Mon Sep 21 2015 - 08:20:25 CDT)
  • Re: How to remove the simulation box (Thu Sep 17 2015 - 22:46:33 CDT)
  • Re: align molecules using "anchor" atoms (Tue Sep 15 2015 - 15:41:30 CDT)
  • Re: APPCRASH when loading a big trajectory file (.dcd) into VMD (Tue Sep 01 2015 - 20:18:06 CDT)
  • Re: Bader Charge Analysis (Fri Aug 21 2015 - 12:05:44 CDT)
  • Re: removing bonds across periodic boundary in a video (Thu Aug 20 2015 - 14:38:26 CDT)
  • Re: Delete redundant bonds in water molecule (Wed Aug 12 2015 - 18:27:41 CDT)
  • Re: setting the view in VMD (Sat Aug 01 2015 - 13:56:30 CDT)
  • Re: Question about visualization of multiple frame xyz file (Mon Jul 27 2015 - 12:31:11 CDT)
  • Re: Question about visualization of multiple frame xyz file (Sun Jul 26 2015 - 23:05:42 CDT)
  • Re: Unit cell for clay material (Sat Jul 25 2015 - 17:12:56 CDT)
  • Re: Modify XYZ reader plugin (Wed Jul 15 2015 - 07:21:08 CDT)
  • Re: Modify XYZ reader plugin (Tue Jul 14 2015 - 11:21:27 CDT)
  • Re: a question regarding the signalproc package (Tue Jul 14 2015 - 11:45:56 CDT)
  • Re: write psf is generating an error (Tue Jul 14 2015 - 11:09:18 CDT)
  • Re: cvs (Mon Jul 13 2015 - 03:06:18 CDT)
  • Re: reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 20:45:15 CDT)
  • Re: reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 20:12:10 CDT)
  • Re: molecule selection along an axis (Mon Jul 06 2015 - 11:46:08 CDT)
  • Re: Error- Periodic cell (Thu Jul 02 2015 - 11:11:06 CDT)
  • Re: VMD MEMBPLUGIN : MEMBRANE THICKNESS (Mon Jun 29 2015 - 05:21:13 CDT)
  • Re: PBC tool does not read center from a xsc (Thu Jun 25 2015 - 12:41:36 CDT)
  • Re: Viewing gromacs .xtc trajectory 'Error reading timestep, file does not match format' (Thu Jun 25 2015 - 10:45:51 CDT)
  • Re: Viewing gromacs .xtc trajectory 'Error reading timestep, file does not match format' (Thu Jun 25 2015 - 10:29:11 CDT)
  • Re: Viewing gromacs .xtc trajectory 'Error reading timestep, file does not match format' (Thu Jun 25 2015 - 08:56:29 CDT)
  • Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 13:51:34 CDT)
  • Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 12:12:10 CDT)
  • Re: Colouring atoms according to their q4 or q6 values (Tue Jun 23 2015 - 06:53:10 CDT)
  • Re: Problem with topotools for residue >10k (Tue Jun 23 2015 - 06:43:51 CDT)
  • Re: Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 16:11:54 CDT)
  • Re: Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 16:03:03 CDT)
  • Re: differentiate between nitroso and oxime atomselections (Wed Jun 17 2015 - 19:34:09 CDT)
  • Re: minimum value of index numbers (Tue Jun 16 2015 - 13:08:04 CDT)
  • Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 09:38:18 CDT)
  • Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 09:49:24 CDT)
  • Re: Merging multiple PDB files (Mon Jun 15 2015 - 14:49:29 CDT)
  • Re: Generating psf for uranyl ion (Mon Jun 15 2015 - 11:10:14 CDT)
  • Re: annoying bug in 1.9.2 (Mon Jun 15 2015 - 08:07:38 CDT)
  • Re: NetCDF type is missing (Mon Jun 15 2015 - 07:58:46 CDT)
  • Re: Water molecules (Fri Jun 12 2015 - 17:16:42 CDT)
  • Re: Per Residue Interaction Energy from Desmond MD simulations (Fri Jun 12 2015 - 05:57:23 CDT)
  • Re: finding distance of atoms (Wed Jun 10 2015 - 13:01:03 CDT)
  • Re: Dynamic molecular connectivity (Sat Jun 06 2015 - 15:51:20 CDT)
  • Re: Dynamic molecular connectivity (Sat Jun 06 2015 - 13:28:17 CDT)
  • Re: H.bond - VMD (Fri Jun 05 2015 - 08:29:59 CDT)
  • Re: H.bond - VMD (Fri Jun 05 2015 - 02:04:34 CDT)
  • Re: Density Profile Tool: Is the selection updated as the frame is changed? (Wed May 27 2015 - 22:37:02 CDT)
  • Re: Re-numbering resID after psfgen (Wed May 27 2015 - 01:05:52 CDT)
  • Re: Error while merging structures (Sun May 24 2015 - 07:36:55 CDT)
  • Re: Creating boxes of different water models (Sun May 24 2015 - 04:06:30 CDT)
  • Re: Error while merging structures (Sun May 24 2015 - 03:58:34 CDT)
  • Re: Resid and residue atomselect bug (Thu May 21 2015 - 08:09:00 CDT)
  • Re: Orienting molecule along principal axes (Wed May 20 2015 - 03:39:57 CDT)
  • Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 21:23:45 CDT)
  • Re: Using topotools with no VMD display (Tue May 12 2015 - 08:07:24 CDT)
  • School on Molecular Dynamics and Enhanced Sampling Methods @ Temple University July 6-10, 2015 (Fri May 08 2015 - 11:29:01 CDT)
  • Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:31:18 CDT)
  • Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:17:00 CDT)
  • Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 14:53:00 CDT)
  • Re: How to create an aggregation of molecules with VMD? (Tue May 05 2015 - 07:20:27 CDT)
  • Re: How to create the psf of an aggregation of molecules with VMD? (Tue May 05 2015 - 07:24:10 CDT)
  • Re: dielectric constant for ELEC energy in VMD namdenergy tool (Tue Apr 28 2015 - 16:34:47 CDT)
  • Re: Setting up a truncation cutoff fro volumetric data (Tue Apr 28 2015 - 10:41:55 CDT)
  • Re: reg list of non standard residues. (Sat Apr 11 2015 - 18:03:49 CDT)
  • Re: new VMD plugin for H5MD file format (Thu Apr 09 2015 - 15:50:37 CDT)
  • Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 08:16:24 CDT)
  • Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 07:44:43 CDT)
  • Re: compiling VMD 1.9.2 source with tcl 8.6 (Tue Apr 07 2015 - 05:57:58 CDT)
  • Re: Writing Lammps data file (Sat Apr 04 2015 - 22:51:09 CDT)
  • Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:42:34 CDT)
  • Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:20:34 CDT)
  • Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 07:43:14 CDT)
  • Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 06:54:55 CDT)
  • Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 13:01:07 CDT)
  • Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 11:29:34 CDT)
  • Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 10:51:25 CDT)
  • Re: Fw: Colour coordinating atoms in a trajectory by Coordination Number (Mon Mar 30 2015 - 10:59:18 CDT)
  • Re: Colour coordinating atoms in a trajectory by Coordination Number (Thu Mar 26 2015 - 12:08:48 CDT)
  • Re: How to visualize the moving periodic boundaries in VMD (Wed Mar 25 2015 - 20:07:42 CDT)
  • Re: "color by mass" - change default colors (Wed Mar 25 2015 - 15:42:32 CDT)
  • Re: Visualizing H-bonds between two segnames or chains (Wed Mar 25 2015 - 12:43:28 CDT)
  • Re: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 11:21:03 CDT)
  • Re: Periodic Tab with PDB input (Wed Mar 25 2015 - 08:59:25 CDT)
  • GPU Programming workshop @ ICTP: deadline extended for participants not requiring visa and financial support (Tue Mar 24 2015 - 14:17:22 CDT)
  • Re: Align a trajectory (Thu Mar 19 2015 - 10:08:57 CDT)
  • Re: writing a new plugin (Wed Mar 11 2015 - 05:54:56 CDT)
  • Re: writing a new plugin (Tue Mar 10 2015 - 15:11:59 CDT)
  • Re: writing a new plugin (Tue Mar 10 2015 - 07:44:19 CDT)
  • Re: TopoTools and box information in LAMMPS data (Mon Mar 09 2015 - 03:22:53 CDT)
  • Re: TopoTools and box information in LAMMPS data (Mon Mar 09 2015 - 01:12:52 CDT)
  • Re: topotools addbond and retypeimpropers commands (Thu Feb 19 2015 - 22:20:36 CST)
  • Re: topotools addbond and retypeimpropers commands (Thu Feb 19 2015 - 21:47:12 CST)
  • Re: Fwd: To delete some atoms via VMD (Tue Feb 10 2015 - 22:34:17 CST)
  • RE: topo guessatom (Tue Feb 10 2015 - 09:15:46 CST)
  • Re: topo guessatom (Mon Feb 09 2015 - 13:25:36 CST)
  • Re: topo guessatom (Mon Feb 09 2015 - 13:07:10 CST)
  • Re: topo guessatom (Mon Feb 09 2015 - 12:37:07 CST)
  • Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 21:55:59 CST)
  • Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 06:47:56 CST)
  • Re: Selecting structure closest to average (Tue Feb 03 2015 - 11:55:55 CST)
  • Re: Unit Cell PDB of Copper (Mon Feb 02 2015 - 17:53:34 CST)
  • Re: Does topo readlammpsdata automatically detect bonds? (Thu Jan 29 2015 - 20:31:31 CST)
  • Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:56:45 CST)
  • Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:33:20 CST)
  • Re: Fwd: To delete some angles via VMD (Thu Jan 29 2015 - 06:45:34 CST)
  • Re: VMD Segmentation fault (core dumped) (Wed Jan 28 2015 - 10:52:58 CST)
  • Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 11:34:59 CST)
  • Re: VMD Segmentation fault (core dumped) (Wed Jan 28 2015 - 10:44:10 CST)
  • Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 07:13:19 CST)
  • Re: Hbond calculation - periodic atoms (Mon Jan 26 2015 - 20:50:46 CST)
  • Re: Output of topo getbondlist to text file from VMD (Fri Jan 23 2015 - 15:05:04 CST)
  • Re: within command (Fri Jan 23 2015 - 14:05:27 CST)
  • Re: optixRender error (Fri Jan 23 2015 - 13:00:11 CST)
  • Re: Select phi, psi dihedrals with TopoTools (Wed Jan 21 2015 - 12:18:50 CST)
  • Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 16:19:18 CST)
  • Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 15:57:08 CST)
  • Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 15:26:13 CST)
  • Re: Can I load NetCDF trajectories from AMBER in VMD on a Windows machine? (Sat Jan 17 2015 - 17:11:07 CST)
  • Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 08:39:19 CST)
  • Re: using topotools: error in identifying atoms and dihedrals (Thu Jan 15 2015 - 05:10:10 CST)
  • Re: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 10:54:08 CST)
  • Re: Feature Request: Stride on vmd commandline startup (Tue Jan 13 2015 - 08:18:01 CST)
  • Re: Fwd: VMD 1.9.2 released! (Mon Jan 12 2015 - 11:10:34 CST)
  • Re: write bonding/connectivity to file (Thu Jan 08 2015 - 16:57:40 CST)
  • Re: Change bond per atom limit of VMD (Wed Jan 07 2015 - 02:44:03 CST)
  • Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 23:24:11 CST)
  • Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 14:23:56 CST)
  • Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 10:24:19 CST)
  • Re: Topotools: Lammps data file for protein (Thu Dec 18 2014 - 12:05:48 CST)
  • Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 18:15:42 CST)
  • Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 15:15:52 CST)
  • Re: tcl and vmd (Fri Dec 12 2014 - 05:20:29 CST)
  • Re: Fwd: How find water mediated hydrogen bond (Wed Dec 10 2014 - 18:06:44 CST)
  • Re: How find water mediated hydrogen bond (Wed Dec 10 2014 - 10:27:34 CST)
  • Re: Select phi, psi dihedrals with TopoTools (Wed Dec 10 2014 - 08:46:14 CST)
  • Re: Topotools not changing psf (Thu Dec 04 2014 - 14:53:13 CST)
  • Re: Topotools not changing psf (Thu Dec 04 2014 - 12:45:12 CST)
  • Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 13:21:23 CST)
  • Re: How to make solid surfaces work with non-orthorhombic cells (Fri Nov 28 2014 - 07:04:17 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Thu Nov 27 2014 - 08:19:22 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 15:50:09 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 12:33:15 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 11:25:44 CST)
  • Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 10:13:20 CST)
  • Re: A box of amino acids (Mon Nov 24 2014 - 10:40:31 CST)
  • Re: Protein went out of the Box (Wed Nov 12 2014 - 01:38:30 CST)
  • Re: can't use arrow key in vmd -disp text mode (Sat Nov 08 2014 - 18:19:50 CST)
  • Re: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OE (Thu Nov 06 2014 - 22:23:45 CST)
  • Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 14:29:41 CST)
  • Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 11:39:49 CST)
  • Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Mon Nov 03 2014 - 15:49:48 CST)
  • Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Mon Nov 03 2014 - 00:58:07 CST)
  • Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 06:48:24 CDT)
  • Re: Haptic interface options (Tue Oct 07 2014 - 12:00:37 CDT)
  • Re: log colorscale (Sun Oct 05 2014 - 16:09:50 CDT)
  • Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 14:32:48 CDT)
  • Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 13:16:37 CDT)
  • Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 12:44:53 CDT)
  • Re: Tk script (Tue Sep 30 2014 - 13:45:03 CDT)
  • Re: Tk script (Tue Sep 30 2014 - 11:08:27 CDT)
  • Re: how to make the structures in the movie look better (Mon Sep 29 2014 - 08:55:27 CDT)
  • Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 06:47:40 CDT)
  • Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 06:46:27 CDT)
  • Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 03:59:32 CDT)
  • Re: gofr not full PBC length (Wed Sep 17 2014 - 22:47:25 CDT)
  • Re: graphics command displays shapes of unusual sizes (Wed Sep 17 2014 - 22:49:48 CDT)
  • Re: Clusters help (Wed Sep 17 2014 - 05:53:48 CDT)
  • Re: Clusters help (Wed Sep 17 2014 - 04:41:59 CDT)
  • Re: actual simulation time for a frame (Thu Sep 11 2014 - 08:38:34 CDT)
  • Re: velocities in trr (Wed Sep 10 2014 - 15:43:58 CDT)
  • Re: actual simulation time for a frame (Mon Sep 08 2014 - 12:45:34 CDT)
  • Re: update selection used in "animate write" (Mon Sep 08 2014 - 00:34:10 CDT)
  • Re: actual simulation time for a frame (Thu Sep 04 2014 - 10:51:44 CDT)
  • Re: BUG REPORT: Malfunctioning of VMD with Yosemite? (Thu Sep 04 2014 - 07:45:04 CDT)
  • Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 10:30:27 CDT)
  • Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 10:17:38 CDT)
  • Re: Making trajectory movie last longer. (Wed Sep 03 2014 - 09:25:13 CDT)
  • Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 03:07:04 CDT)
  • Re: How to get all bond angles and bond distances for all atoms in sheet (Tue Sep 02 2014 - 08:37:31 CDT)
  • Re: How to get all bond angles and bond distances for all atoms in sheet (Tue Sep 02 2014 - 08:42:38 CDT)
  • Re: How to get all bond angles and bond distances for all atoms in sheet (Mon Sep 01 2014 - 08:19:05 CDT)
  • Re: ç­”å¤�： c_top2psf.pl (Sun Aug 31 2014 - 10:38:00 CDT)
  • Re: c_top2psf.pl (Sat Aug 30 2014 - 11:21:33 CDT)
  • Re: entropy calculation by g_anaeig (Sat Aug 30 2014 - 11:22:28 CDT)
  • Re: VMD 1.9.1 installation (Fri Aug 22 2014 - 03:43:18 CDT)
  • Re: writing improper dihedral in topotools, (Tue Aug 12 2014 - 17:36:31 CDT)
  • Re: averaged structure (Tue Aug 12 2014 - 14:18:33 CDT)
  • Re: averaged structure (Tue Aug 12 2014 - 12:35:25 CDT)
  • Re: mol new [from memory] (Mon Aug 11 2014 - 12:36:16 CDT)
  • Re: visualizing janus particles in VMD (Mon Aug 11 2014 - 07:04:31 CDT)
  • Re: visualizing janus particles in VMD (Sat Aug 09 2014 - 19:05:25 CDT)
  • Re: Running ABF to seperate DNA strands (Mon Aug 04 2014 - 20:35:35 CDT)
  • Re: Is VMD available to control the movie made by movie maker (Mon Aug 04 2014 - 17:24:14 CDT)
  • Re: rlwrap: No match. (Fri Aug 01 2014 - 16:23:39 CDT)
  • Re: rlwrap: No match. (Fri Aug 01 2014 - 15:51:43 CDT)
  • Re: color scale definitions with more than three colors? (Thu Jul 31 2014 - 13:19:31 CDT)
  • Re: loading multiple trajectories with stride command in the terminal (Fri Jul 25 2014 - 10:42:57 CDT)
  • Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:49:26 CDT)
  • Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:04:28 CDT)
  • Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 14:37:31 CDT)
  • Re: Topo Tools for triclinic system (Wed Jul 23 2014 - 07:04:10 CDT)
  • Re: Creating data file for triclinic system (Wed Jul 23 2014 - 07:03:17 CDT)
  • Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 11:43:31 CDT)
  • Re: How to adjust different atom size separately (Fri Jul 18 2014 - 11:31:27 CDT)
  • School on Molecular Dynamics with NAMD and LAMMPS in Philadelphia, August 18-22 2014 (Thu Jul 17 2014 - 14:48:17 CDT)
  • Re: origin in VMD (Thu Jul 10 2014 - 15:47:34 CDT)
  • Re: Subtract structure to a trajectory (Thu Jul 10 2014 - 10:51:23 CDT)
  • Re: How to contribute to VMD? (Wed Jul 09 2014 - 13:01:10 CDT)
  • Re: How to contribute to VMD? (Wed Jul 09 2014 - 10:15:29 CDT)
  • Re: Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 10:47:12 CDT)
  • Re: Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 10:50:03 CDT)
  • Re: CL (Fri Jul 04 2014 - 10:47:12 CDT)
  • Re: tachyon renderer syntax (Fri Jun 27 2014 - 22:07:49 CDT)
  • Re: running a C code in VMD (Thu Jun 26 2014 - 06:43:17 CDT)
  • Re: Boron nitride preparation (Sat Jun 21 2014 - 09:26:48 CDT)
  • Re: Boron nitride preparation (Sat Jun 21 2014 - 03:31:23 CDT)
  • Re: regarding .vmdrc file (Tue Jun 17 2014 - 01:02:54 CDT)
  • Re: Viewing SASA points through draw command-problem (Thu Jun 12 2014 - 12:16:20 CDT)
  • Re: analyzing gromacs trajectories with VMD (Sat Jun 07 2014 - 05:36:12 CDT)
  • Re: Calculating RMSF for a lot of trajectories (Thu May 29 2014 - 11:59:26 CDT)
  • Re: Re: Help with RDF calculation (Wed May 28 2014 - 15:55:45 CDT)
  • Re: Help with RDF calculation (Wed May 28 2014 - 13:45:51 CDT)
  • Re: proper enviroment for the VMD namdenergy plugin (Sun May 18 2014 - 08:08:19 CDT)
  • Re: default representations for multiple molecules (Thu May 15 2014 - 18:06:53 CDT)
  • Re: default representations for multiple molecules (Thu May 15 2014 - 17:30:12 CDT)
  • Re: namd-l: NAMD-GPU (Wed May 14 2014 - 07:51:37 CDT)
  • Re: Problem with amorphous silicon dioxide: Inorganic builder (Mon May 12 2014 - 03:58:17 CDT)
  • Re: Problem with amorphous silicon dioxide: Inorganic builder (Sun May 11 2014 - 09:44:42 CDT)
  • Re: choosing an optimal workstation video card for VMD (Tue May 06 2014 - 12:58:13 CDT)
  • Re: Re: Add bond across boundaries (Tue May 06 2014 - 10:06:39 CDT)
  • Re: Add bond across boundaries (Tue May 06 2014 - 09:15:13 CDT)
  • Re: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 05:30:00 CDT)
  • Re: How do i merge files with mergemols (Thu May 01 2014 - 06:29:36 CDT)
  • Re: How do i merge files with mergemols (Thu May 01 2014 - 06:32:35 CDT)
  • Re: [lammps-users] Regarding rdf from VMD extensions+lammps (Tue Apr 29 2014 - 13:37:43 CDT)
  • Re: Visualize a SMILES string (Tue Apr 29 2014 - 10:50:28 CDT)
  • Re: Visualize a SMILES string (Tue Apr 29 2014 - 09:32:36 CDT)
  • Re: Visualize a SMILES string (Tue Apr 29 2014 - 09:16:43 CDT)
  • Re: Visualize a SMILES string (Tue Apr 29 2014 - 08:54:50 CDT)
  • Re: writing out a new dcd file (Tue Apr 29 2014 - 06:50:35 CDT)
  • Re: How do i merge files with mergemols (Sat Apr 26 2014 - 15:15:35 CDT)
  • Re: How do i merge files with mergemols (Sat Apr 26 2014 - 10:02:00 CDT)
  • Re: ligand-protein bonds representation (Tue Apr 22 2014 - 10:53:19 CDT)
  • Re: ligand-protein bonds representation (Tue Apr 22 2014 - 09:50:52 CDT)
  • Re: alchemical transformations (Mon Apr 21 2014 - 11:18:16 CDT)
  • Re: convert AMBER format file to CHARMM format file or NAMD format file (Thu Apr 17 2014 - 11:03:49 CDT)
  • Re: convert AMBER format file to CHARMM format file or NAMD format file (Wed Apr 16 2014 - 14:55:58 CDT)
  • Re: How to output formed dynamic bonds in VMD (Wed Apr 16 2014 - 00:40:16 CDT)
  • Re: Altering extrabonds force constant during MD (Mon Apr 14 2014 - 16:56:59 CDT)
  • Re: No native HOOMD xml support for Windows? (Mon Apr 14 2014 - 12:06:42 CDT)
  • Re: Changing the Font size of the XYZ Logo (Fri Apr 11 2014 - 12:45:51 CDT)
  • Re: custom color on surface plot (Thu Apr 10 2014 - 09:57:41 CDT)
  • Re: hiding or disabling some of the atom types (Wed Apr 09 2014 - 16:20:34 CDT)
  • Re: Changing colors during a dynamics (Wed Apr 09 2014 - 10:15:02 CDT)
  • Re: problem with 'atomselect' command (Tue Apr 08 2014 - 13:23:22 CDT)
  • Re: Feature request: capturing tool location and steering forces in IMD trajectory (Mon Apr 07 2014 - 01:23:09 CDT)
  • Re: Dynamical bond rendering (Sat Apr 05 2014 - 02:35:50 CDT)
  • Re: writing velocities from VMD (Fri Apr 04 2014 - 06:36:30 CDT)
  • Re: selecting every nth residue in a protein (Thu Mar 27 2014 - 17:34:30 CDT)
  • Re: Unwrapping a trajectory with H2O (Fri Mar 21 2014 - 15:23:29 CDT)
  • Re: problem for VMD extension_radial pair distribution function_truncation (Fri Mar 21 2014 - 11:08:28 CDT)
  • Re: Changing bond numbers (Thu Mar 20 2014 - 11:58:09 CDT)
  • Re: Get num. of residues (Wed Mar 19 2014 - 02:34:23 CDT)
  • Re: removing water from dcd file (Tue Mar 18 2014 - 08:55:15 CDT)
  • Re: Unwrapping a trajectory with H2O (Tue Mar 18 2014 - 01:10:34 CDT)
  • Re: radial pair distribution function (Wed Mar 12 2014 - 00:35:52 CDT)
  • Re: Segmentation fault (Tue Mar 11 2014 - 11:42:18 CDT)
  • Re: Changing bond numbers (Sun Mar 09 2014 - 03:37:28 CDT)
  • Re: Writing new coordinates to file. (Mon Mar 03 2014 - 16:04:14 CST)
  • Re: rlwrap: No match. (Mon Mar 03 2014 - 08:32:39 CST)
  • Re: rlwrap: No match. (Mon Mar 03 2014 - 08:15:26 CST)
  • Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Sun Mar 02 2014 - 15:20:48 CST)
  • Re: Update Plugin (Tue Feb 25 2014 - 07:49:58 CST)
  • Re: Update Plugin (Tue Feb 25 2014 - 07:51:59 CST)
  • Re: Update Plugin (Tue Feb 25 2014 - 06:54:45 CST)
  • Re: Update Plugin (Tue Feb 25 2014 - 06:57:20 CST)
  • Re: Update Plugin (Tue Feb 25 2014 - 05:56:22 CST)
  • Re: Simplest file format that includes atom color? (Mon Feb 17 2014 - 06:45:42 CST)
  • Re: How upgrade a molfile plugin? (Sun Feb 16 2014 - 13:54:46 CST)
  • Re: Tachyon question (Sun Feb 16 2014 - 10:39:41 CST)
  • Re: deleting trajectory paths (Wed Feb 12 2014 - 20:45:14 CST)
  • Re: Modulus atom selection (Wed Feb 12 2014 - 17:01:55 CST)
  • Re: Installation of VMD topotools (Tue Feb 11 2014 - 13:05:06 CST)
  • Re: VMD can't read 1OXY (Mon Feb 10 2014 - 22:20:25 CST)
  • Re: Script commands that control the display of periodic images (Sat Feb 08 2014 - 22:52:38 CST)
  • Re: measure dihedral angle for all the loaded pdb files (Fri Feb 07 2014 - 11:07:01 CST)
  • Re: loading .xtc file (Thu Feb 06 2014 - 21:17:52 CST)
  • Re: porcupine plot (Wed Feb 05 2014 - 09:13:31 CST)
  • Re: Re: VTF (Tue Feb 04 2014 - 10:29:13 CST)
  • Re: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 07:44:58 CST)
  • Re: Re: VTF (Mon Feb 03 2014 - 13:21:47 CST)
  • Re: wrapper for VMD to read compressed .xz files (Fri Jan 31 2014 - 17:48:58 CST)
  • Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 11:05:02 CST)
  • Re: Crash with molfile plugin when doing "Load data into molecule" (Fri Jan 24 2014 - 05:26:53 CST)
  • Re: select and save every X atom (Tue Jan 21 2014 - 15:55:02 CST)
  • Re: Question about measure cluster (Mon Jan 20 2014 - 10:39:45 CST)
  • Re: Question about measure cluster (Mon Jan 20 2014 - 09:18:45 CST)
  • Re: Question about measure cluster (Mon Jan 20 2014 - 06:48:35 CST)
  • Re: Bond order cut-off value (Fri Jan 17 2014 - 11:59:07 CST)
  • Re: Bond order cut-off value (Thu Jan 16 2014 - 19:35:23 CST)
  • Re: merging multiple structures (Wed Jan 15 2014 - 14:45:38 CST)
  • Re: RDF calculation (Mon Jan 13 2014 - 19:43:21 CST)
  • Re: strange problems adding extra bonds to interactive simulations (Thu Jan 09 2014 - 21:50:21 CST)
  • Re: RDF Normalization (Wed Jan 08 2014 - 20:28:28 CST)
  • Re: RDF Normalization (Mon Jan 06 2014 - 16:23:10 CST)
  • Re: VMD's NAMD GUI (Sun Dec 29 2013 - 03:47:35 CST)
  • Re: why tutorial cannot be played? (Fri Dec 27 2013 - 15:19:55 CST)
  • Re: Problem while installing VMD (Wed Dec 25 2013 - 03:02:35 CST)
  • Re: VMD's NAMD GUI (Wed Dec 25 2013 - 02:58:43 CST)
  • Re: constructing a .tpr (Tue Dec 24 2013 - 12:04:09 CST)
  • Re: constructing a .tpr (Tue Dec 24 2013 - 05:49:49 CST)
  • Re: constructing a .tpr (Tue Dec 24 2013 - 04:29:10 CST)
  • Re: Define bond length (Mon Dec 16 2013 - 12:37:37 CST)
  • Re: AMD vs. nvidia support (Thu Dec 12 2013 - 04:32:46 CST)
  • Re: Atomic trajectory to COM trajectory, (Wed Dec 11 2013 - 23:53:59 CST)
  • Re: AMD vs. nvidia support (Thu Dec 12 2013 - 00:04:44 CST)
  • Re: generated pdb file via vmd (Wed Dec 11 2013 - 07:21:06 CST)
  • Re: how can we improve it in VMD? (Tue Dec 10 2013 - 04:03:40 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 13:09:22 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 10:21:08 CST)
  • Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 08:32:15 CST)
  • Re: Change transparency along a trajectory (Mon Dec 09 2013 - 08:13:35 CST)
  • Re: Fwd: dcd file uploading problem (Thu Dec 05 2013 - 22:56:17 CST)
  • Re: RE£º hydrogen bond cutoff value (Tue Dec 03 2013 - 01:48:13 CST)
  • Re: hydrogen bond cutoff value (Mon Dec 02 2013 - 23:31:28 CST)
  • Re: atoms selection/special characters (Fri Nov 29 2013 - 20:43:33 CST)
  • Re: atoms selection/special characters (Fri Nov 29 2013 - 19:17:08 CST)
  • Re: Why are all carbon atoms lumped into C in the Name category in the colors dialog? (Fri Nov 29 2013 - 19:13:50 CST)
  • Re: loading pdb files from multiple directories (Fri Nov 29 2013 - 05:59:58 CST)
  • Re: ugly font in linux/xubuntu-13.10 (Sat Nov 23 2013 - 04:10:08 CST)
  • Re: namd-l: pre residues and ligands interaction (Thu Nov 21 2013 - 06:55:04 CST)
  • Re: Tachyon generation of dat files only (Thu Nov 14 2013 - 08:59:48 CST)
  • Re: Interactive MD and Tcl (Thu Nov 07 2013 - 16:34:13 CST)
  • Re: Re: Volmap (Mon Nov 04 2013 - 08:51:50 CST)
  • Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 08:21:26 CST)
  • Re: Re: Volmap (Mon Nov 04 2013 - 07:31:29 CST)
  • Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 07:23:52 CST)
  • Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 07:21:25 CST)
  • Re: Re: Volmap (Mon Nov 04 2013 - 06:24:14 CST)
  • Re: The radius of sphere representing an atom shown as vdw (Mon Nov 04 2013 - 00:50:49 CST)
  • Re: sugar cluster analysis (Sat Nov 02 2013 - 01:27:01 CDT)
  • Re: Problems with external Tachyon Renderer (Sat Nov 02 2013 - 01:21:02 CDT)
  • Re: volume analysis in vmd (Thu Oct 31 2013 - 11:00:24 CDT)
  • Re: Creating custom molecule in VMD scripting (Tue Oct 29 2013 - 05:36:28 CDT)
  • Re: Cluster plug (Tue Oct 22 2013 - 16:55:40 CDT)
  • Re: loading trajectory (Tue Oct 22 2013 - 05:32:03 CDT)
  • Re: Volarea (Fri Oct 18 2013 - 08:35:35 CDT)
  • Re: topotools question (Thu Oct 17 2013 - 16:57:57 CDT)
  • Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:17:40 CDT)
  • Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:05:12 CDT)
  • Re: clipping plane (Wed Oct 09 2013 - 15:51:15 CDT)
  • Re: clipping plane (Wed Oct 09 2013 - 15:19:52 CDT)
  • Re: create and operate a point in space (Wed Oct 09 2013 - 06:29:51 CDT)
  • Re: Finding particles that are close (Tue Oct 08 2013 - 04:21:45 CDT)
  • Re: viewing bond between two hydrogens on a water molecule (Mon Oct 07 2013 - 10:25:03 CDT)
  • Re: GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Fri Oct 04 2013 - 00:33:13 CDT)
  • Re: Measuring angle between two domains? (Thu Oct 03 2013 - 11:37:49 CDT)
  • Re: convert dcd file to xyz (Wed Oct 02 2013 - 13:13:18 CDT)
  • Re: µªÎ`: How to show section contour of volumetric data (Tue Oct 01 2013 - 02:58:10 CDT)
  • Re: How to show section contour of volumetric data (Tue Oct 01 2013 - 02:21:04 CDT)
  • Re: get resisue names from atom index number (Mon Sep 30 2013 - 03:20:01 CDT)
  • Re: Force field tool kit - missing close brackets-vmd version 1.9.2 (Mon Sep 30 2013 - 02:47:21 CDT)
  • Re: need your hep about IR Spectrum Plugin (Sun Sep 29 2013 - 09:31:10 CDT)
  • Re: get resisue names from atom index number (Sun Sep 29 2013 - 09:27:28 CDT)
  • Re: User defined command order (Sat Sep 28 2013 - 04:27:12 CDT)
  • Re: rendering (Thu Sep 26 2013 - 15:13:03 CDT)
  • Re: non-orthorhombic PBCs (Thu Sep 26 2013 - 00:56:36 CDT)
  • Re: Making a trajectory movie from frames. (Tue Sep 24 2013 - 11:10:33 CDT)
  • Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 07:00:35 CDT)
  • Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 04:59:00 CDT)
  • Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 02:37:55 CDT)
  • Re: draw a time bar for a trajectory (Mon Sep 23 2013 - 11:13:35 CDT)
  • Re: water cluster analysis? (Sun Sep 22 2013 - 13:55:35 CDT)
  • Re: water cluster analysis? (Sun Sep 22 2013 - 10:27:02 CDT)
  • Re: Open VMD from a remote host (Wed Sep 18 2013 - 14:48:11 CDT)
  • Re: remove hydrogen atoms from psf file (Wed Sep 18 2013 - 09:48:34 CDT)
  • Re: remove hydrogen atoms from psf file (Wed Sep 18 2013 - 03:22:51 CDT)
  • Re: data analysis script help (Tue Sep 17 2013 - 08:18:57 CDT)
  • Re: Problems uploading new molecule (Wed Sep 11 2013 - 05:20:36 CDT)
  • Re: Problems uploading new molecule (Wed Sep 11 2013 - 04:02:51 CDT)
  • Re: Problem with VMD's depth cueing and 3DConnexion SpaceNavigator (Tue Sep 10 2013 - 08:03:49 CDT)
  • Re: water cluster size analysis (Fri Sep 06 2013 - 08:16:06 CDT)
  • Re: mol2 file format & displaying atom connectivities (Fri Sep 06 2013 - 07:43:12 CDT)
  • Re: Autobond Criterion (Fri Sep 06 2013 - 05:09:23 CDT)
  • Re: Add a gap in my simulation (Thu Sep 05 2013 - 13:38:51 CDT)
  • Re: Add a gap in my simulation (Thu Sep 05 2013 - 14:42:28 CDT)
  • Re: atom selection from multiple molecules (Mon Sep 02 2013 - 11:13:31 CDT)
  • Re: psf file (Sat Aug 31 2013 - 09:00:12 CDT)
  • Re: Question regarding color schemes on crystals and grain boundaries (Sat Aug 31 2013 - 06:37:12 CDT)
  • Re: .VMD state file does not load properly (Wed Aug 28 2013 - 11:09:28 CDT)
  • Re: .VMD state file does not load properly (Wed Aug 28 2013 - 07:45:20 CDT)
  • Re: .VMD state file does not load properly (Wed Aug 28 2013 - 04:52:20 CDT)
  • Re: .VMD state file does not load properly (Wed Aug 28 2013 - 05:05:07 CDT)
  • Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 14:20:24 CDT)
  • Re: trouble compiling/setting up VMD (Mon Aug 26 2013 - 19:57:36 CDT)
  • Re: VMD script (Sat Aug 24 2013 - 08:43:56 CDT)
  • Re: unable to load .xtc files on VMD 1.8.7 (Wed Aug 21 2013 - 19:46:26 CDT)
  • Re: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Sat Aug 17 2013 - 09:05:43 CDT)
  • Re: how to use measure cluster and clustering plugin of VMD? (Fri Aug 16 2013 - 08:33:48 CDT)
  • Re: everything grey with glsl (Sat Aug 10 2013 - 13:57:18 CDT)
  • Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 13:44:04 CDT)
  • Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 09:10:43 CDT)
  • Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 16:39:57 CDT)
  • Re: Loading new molecule without changing view? (Tue Aug 06 2013 - 07:33:01 CDT)
  • Re: Loading new molecule without changing view? (Tue Aug 06 2013 - 06:09:49 CDT)
  • Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 06:05:11 CDT)
  • Re: Animations using VMD: (Tue Aug 06 2013 - 06:02:42 CDT)
  • Re: Display CCP4 density map around selection only (Sun Aug 04 2013 - 23:11:02 CDT)
  • Re: Bond error (Sun Aug 04 2013 - 23:20:35 CDT)
  • Re: Bond error (Sun Aug 04 2013 - 03:21:21 CDT)
  • Re: Bond error (Sat Aug 03 2013 - 15:03:40 CDT)
  • Re: BUG in VMD dx reader plugin (Thu Aug 01 2013 - 05:05:03 CDT)
  • Re: BUG in VMD dx reader plugin (Thu Aug 01 2013 - 05:18:59 CDT)
  • Re: BUG in VMD dx reader plugin (Thu Aug 01 2013 - 05:06:09 CDT)
  • Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 02:19:44 CDT)
  • Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 01:36:01 CDT)
  • Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 01:59:16 CDT)
  • Re: logging in vmd (Tue Jul 30 2013 - 07:28:33 CDT)
  • Re: Leap Motion (Tue Jul 30 2013 - 04:13:53 CDT)
  • Re: How to import .lammpstrj files using LAMMPS plugin (Mon Jul 29 2013 - 01:17:40 CDT)
  • new VMD plugin for reading LAMMPS dumps with variable number of atoms (Thu Jul 25 2013 - 07:43:34 CDT)
  • Re: catdcd a vmd extension? (Tue Jul 23 2013 - 13:09:00 CDT)
  • Re: density of system (Sun Jul 21 2013 - 16:08:49 CDT)
  • Re: Dynamic number of atoms visualization (Sat Jul 20 2013 - 07:46:18 CDT)
  • Re: Dynamic number of atoms visualization (Sat Jul 20 2013 - 06:42:50 CDT)
  • Re: simulating proteins with missing resdiues (Fri Jul 19 2013 - 11:56:29 CDT)
  • Re: combine .pdb files to make movie (Fri Jul 19 2013 - 07:25:37 CDT)
  • CatDCD windows binaries (Fri Jul 19 2013 - 04:56:00 CDT)
  • Re: VMD mismatch between CUDA runtime and GPU driver (Thu Jul 18 2013 - 03:31:33 CDT)
  • Re: problems about atoms display in certain region (Wed Jul 17 2013 - 23:04:53 CDT)
  • Re: script for size distribution (Wed Jul 17 2013 - 02:26:41 CDT)
  • Re: Combine volmap occupancy maps (Wed Jul 17 2013 - 02:31:04 CDT)
  • Re: logging in vmd (Mon Jul 15 2013 - 01:31:47 CDT)
  • Re: logging in vmd (Sun Jul 14 2013 - 23:31:32 CDT)
  • Re: manipulation of atomselections (Fri Jul 05 2013 - 17:00:17 CDT)
  • Re: two Molecules in one pdb and psf (Fri Jul 05 2013 - 07:14:28 CDT)
  • Re: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Wed Jul 03 2013 - 23:44:18 CDT)
  • Re: Trouble with the mergepdbs.tcl script (Wed Jul 03 2013 - 10:46:47 CDT)
  • Re: Merge Structur (Wed Jul 03 2013 - 10:01:48 CDT)
  • Re: atom indices from x y z coordinates (Wed Jul 03 2013 - 03:56:14 CDT)
  • Re: Box boundaries displaying (Mon Jul 01 2013 - 11:08:23 CDT)
  • Re: variable particle size (Sat Jun 29 2013 - 09:59:54 CDT)
  • Re: Reusing the psf file (Sat Jun 29 2013 - 02:06:10 CDT)
  • Re: setting bonds so that they are saved in DMS format output (Fri Jun 28 2013 - 22:23:31 CDT)
  • Re: Visualise variable atoms (Thu Jun 27 2013 - 02:52:57 CDT)
  • Re: variable atoms visualization (Thu Jun 27 2013 - 01:15:49 CDT)
  • Re: question concerning measure gofr (Tue Jun 25 2013 - 12:01:22 CDT)
  • Re: How to save 2 gro file in 1 gro file? (Sun Jun 23 2013 - 12:22:58 CDT)
  • Re: How to save 2 gro file in 1 gro file? (Sun Jun 23 2013 - 09:08:14 CDT)
  • Re: graphics: not enough parameters (Sat Jun 15 2013 - 16:39:42 CDT)
  • Re: variable particle size (Fri Jun 14 2013 - 00:21:33 CDT)
  • Re: error: too many open files (Wed Jun 12 2013 - 21:22:53 CDT)
  • Re: Fw: protein schematic representaton (Wed Jun 12 2013 - 05:33:17 CDT)
  • Re: multiple vector in smd (Mon Jun 10 2013 - 23:55:51 CDT)
  • Re: best method for showing metal nanoparticle and protein in vmd (Sat Jun 08 2013 - 12:48:45 CDT)
  • Re: Dihedrals (Wed Jun 05 2013 - 10:42:43 CDT)
  • Re: Dihedrals (Wed Jun 05 2013 - 09:37:22 CDT)
  • Re: Dihedrals (Wed Jun 05 2013 - 09:03:00 CDT)
  • Re: Change atom color dynamically. (Wed Jun 05 2013 - 03:14:02 CDT)
  • Re: Calculation of VAF using signalproc plugin (Wed Jun 05 2013 - 00:40:52 CDT)
  • Re: Calculation of VAF using signalproc plugin (Mon Jun 03 2013 - 03:16:35 CDT)
  • Re: not work "selection atoms" for trajectory of dl_poly (Sat Jun 01 2013 - 11:05:38 CDT)
  • Re: How to place the origin point at the position of an atom? (Fri May 31 2013 - 03:11:16 CDT)
  • Re: why does VMD load dcd file so slowly? (Sun May 26 2013 - 01:24:16 CDT)
  • Re: Remove overlapping solvent molecules (Thu May 23 2013 - 08:37:09 CDT)
  • Re: Formatting labels in script (Fri May 17 2013 - 05:22:43 CDT)
  • Re: Error when compiling plugins: tcl.h not found (Tue May 14 2013 - 12:48:29 CDT)
  • Re: visualizing dynamic charge (Tue May 14 2013 - 11:59:37 CDT)
  • Re: visualizing dynamic charge (Tue May 14 2013 - 02:38:00 CDT)
  • Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:41:28 CDT)
  • Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 09:21:27 CDT)
  • Re: number of atoms changes on loading .cms file (Fri Apr 26 2013 - 02:50:10 CDT)
  • Re: (Thu Apr 25 2013 - 07:29:54 CDT)
  • Re: (Thu Apr 25 2013 - 06:40:58 CDT)
  • Re: differing particle numbers in each frame (Tue Apr 23 2013 - 05:58:58 CDT)
  • Re: Re: dock (Tue Apr 23 2013 - 04:22:26 CDT)
  • Re: problem in saving the output (Tue Apr 23 2013 - 03:17:05 CDT)
  • Re: mol options first and last (Mon Apr 22 2013 - 14:44:47 CDT)
  • Re: HEME acting unplanar (Mon Apr 22 2013 - 04:48:09 CDT)
  • Re: how to calculate binding free energy and contribution of individual residue? (Mon Apr 22 2013 - 03:35:20 CDT)
  • Re: problem of pbc command (Mon Apr 22 2013 - 02:48:33 CDT)
  • Re: how to write pbc option in python? (Mon Apr 22 2013 - 02:50:40 CDT)
  • Re: ellipsoidal particles (Mon Apr 22 2013 - 02:42:08 CDT)
  • Re: ellipsoidal particles (Sun Apr 21 2013 - 11:24:15 CDT)
  • Re: pdb -arge magnitude coordinates (Sat Apr 20 2013 - 12:57:38 CDT)
  • Re: how vmd return actual vector for given atom (Thu Apr 18 2013 - 11:47:28 CDT)
  • Re: problem about displaying hbond in periodic box (Tue Apr 16 2013 - 04:41:53 CDT)
  • Re: generate nanotube other than CNT (Mon Apr 15 2013 - 04:33:04 CDT)
  • Re: Improper parameters for CNT (Mon Apr 15 2013 - 03:19:26 CDT)
  • Re: generate nanotube other than CNT (Mon Apr 15 2013 - 03:31:34 CDT)
  • Re: Improper parameters for CNT (Mon Apr 15 2013 - 03:17:05 CDT)
  • Re: bug in xsfplugin [patch included] (Thu Apr 11 2013 - 11:59:11 CDT)
  • Re: bug in xsfplugin [patch included] (Thu Apr 11 2013 - 08:18:59 CDT)
  • Re: average structure generation from trajectory (Thu Apr 11 2013 - 03:16:30 CDT)
  • Re: put the water box in a grid and traverse for the atoms in each grid (Thu Apr 11 2013 - 03:20:26 CDT)
  • Re: Placing a peptide between two points (Thu Apr 11 2013 - 00:41:14 CDT)
  • Re: is there a way to measure the long axis of a protein or angle between domains in VMD (Wed Apr 10 2013 - 03:35:46 CDT)
  • Re: fftk source code (Wed Apr 10 2013 - 03:08:35 CDT)
  • Re: Writing povray files from a VMD trajectory (Tue Apr 09 2013 - 15:16:47 CDT)
  • Re: moving center of protien to another new center x,y,z (Sun Apr 07 2013 - 11:17:13 CDT)
  • Re: Disable display resetview (Thu Apr 04 2013 - 02:17:46 CDT)
  • Re: generate nanotube other than CNT (Tue Apr 02 2013 - 07:20:55 CDT)
  • Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 02 2013 - 02:06:50 CDT)
  • Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 17:42:06 CDT)
  • Re: How to generate average structure from trajectory using VMD (Tue Mar 26 2013 - 08:06:15 CDT)
  • Re: Tethering, or restraining, part of a molecule during MD playback (Mon Mar 25 2013 - 01:42:46 CDT)
  • Re: Topo tools: can't use non-numeric string as operand of "+" (Fri Mar 22 2013 - 09:35:19 CDT)
  • Re: delete segments from dcd file (Tue Mar 19 2013 - 02:13:32 CDT)
  • Re: gofr between center of mass of a functional group and solvent (Tue Mar 19 2013 - 02:17:00 CDT)
  • Re: cp: cannot stat `../LINUXAMD64/vmd_LINUXAMD64': No such file or directory (Mon Mar 18 2013 - 11:00:26 CDT)
  • Re: dx file format (Mon Mar 11 2013 - 23:30:27 CDT)
  • Re: transparent material: set different opacity (Fri Mar 08 2013 - 09:06:06 CST)
  • Re: Radial pair distribution function (Fri Mar 01 2013 - 09:39:35 CST)
  • Re: gofr with PBC (Fri Mar 01 2013 - 09:34:00 CST)
  • Re: FPR monitor+glasses (Fri Feb 22 2013 - 08:18:12 CST)
  • Re: Atom serial numbers in array format (Thu Feb 21 2013 - 06:38:45 CST)
  • Re: about visualization in VMD (Thu Feb 21 2013 - 06:41:45 CST)
  • Re: Atom serial numbers in array format (Thu Feb 21 2013 - 04:43:08 CST)
  • Re: How to save coordinates of periodic systems (Wed Feb 20 2013 - 09:34:47 CST)
  • Re: rotate a selection of a molecule and write rotated coordinates (Wed Feb 20 2013 - 04:03:54 CST)
  • Re: rotate a selection of a molecule and write rotated coordinates (Tue Feb 19 2013 - 10:07:23 CST)
  • Re: Surface won't close (Mon Feb 18 2013 - 10:37:26 CST)
  • Re: Spring script not working (Mon Feb 18 2013 - 08:57:09 CST)
  • Re: Problem related to the save trajectory (Mon Feb 18 2013 - 03:44:27 CST)
  • Re: Problem related to the save trajectory (Mon Feb 18 2013 - 02:31:13 CST)
  • Re: Problem related to the save trajectory (Mon Feb 18 2013 - 02:15:10 CST)
  • Re: Licorice in transparent surface visualisation (Fri Feb 15 2013 - 09:43:11 CST)
  • Re: Dynamic bonds for amorphous silicon carbide? (Fri Feb 15 2013 - 05:20:31 CST)
  • Re: draw structure with xyz coordinates (Mon Feb 11 2013 - 11:06:47 CST)
  • Re: differing particle numbers in each frame (Fri Feb 08 2013 - 07:53:07 CST)
  • Re: Unable to re-install vmd (Mon Feb 04 2013 - 11:43:50 CST)
  • Re: making movies in vmd (Fri Feb 01 2013 - 02:46:25 CST)
  • Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 04:08:18 CST)
  • Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 02:32:45 CST)
  • Re: cannot open vmd (Fri Jan 25 2013 - 02:28:15 CST)
  • Re: about inorganic builder and define variable (Fri Jan 18 2013 - 04:27:40 CST)
  • Re: CG- CNT (Sat Jan 12 2013 - 10:02:04 CST)
  • Re: How to read every second frame with bigdcd (Thu Jan 03 2013 - 12:33:40 CST)
  • Re: How to get the coordinate of periodic images (Sat Dec 22 2012 - 09:50:51 CST)
  • Re: Gromacs index file (Wed Dec 19 2012 - 03:52:49 CST)
  • Re: visualizing multiframe trajectory simultaneously with multimolecule (Mon Dec 17 2012 - 10:37:43 CST)
  • Re: combine.tcl (Mon Dec 17 2012 - 10:30:47 CST)
  • Re: visualizing multiframe trajectory simultaneously with multimolecule (Sat Dec 15 2012 - 01:07:21 CST)
  • Re: delete of some molecules (Sat Dec 15 2012 - 01:10:25 CST)
  • Re: visualizing multiframe trajectory simultaneously with multimolecule (Thu Dec 13 2012 - 12:53:11 CST)
  • Re: problem with ascribing data to the user field (Thu Dec 13 2012 - 06:30:54 CST)
  • Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 10:22:49 CST)
  • Re: Default XML format (Fri Dec 07 2012 - 14:10:03 CST)
  • Re: Use Movie Maker Plugin in Script (Thu Dec 06 2012 - 07:02:33 CST)
  • Re: uninstall of previous version (Thu Dec 06 2012 - 03:44:21 CST)
  • Re: invalid command name "dict" (Thu Dec 06 2012 - 02:29:59 CST)
  • Re: Full-Screen display (Tue Dec 04 2012 - 09:47:31 CST)
  • Re: Full-Screen display (Tue Dec 04 2012 - 08:54:23 CST)
  • Re: A problem about atomselect command in a script (Tue Dec 04 2012 - 02:32:54 CST)
  • Re: RDF (Fri Nov 30 2012 - 13:34:45 CST)
  • Re: delete the most recent atomselect? (Thu Nov 29 2012 - 15:42:33 CST)
  • Re: How do I make sure the normals value of trinorms? (Thu Nov 29 2012 - 08:36:17 CST)
  • Re: not very helpful documentation (Wed Nov 28 2012 - 10:40:12 CST)
  • Re: (Tue Nov 27 2012 - 16:06:29 CST)
  • Re: compiled failed (Mon Nov 26 2012 - 15:41:09 CST)
  • Re: python script failed (Mon Nov 26 2012 - 05:52:09 CST)
  • Re: pbc box problem (Thu Nov 15 2012 - 02:45:25 CST)
  • Re: Units of bond distance in vmd (Thu Nov 08 2012 - 12:20:34 CST)
  • Re: vmd cause linux system freezes randomly (Thu Nov 08 2012 - 00:15:21 CST)
  • Re: periodic images of molecule containing custom graphics (Wed Nov 07 2012 - 06:37:38 CST)
  • Re: vmd crashes during gromacs trr loading (Wed Nov 07 2012 - 03:14:28 CST)
  • Re: 3rd party tools- vmd (Tue Nov 06 2012 - 13:42:13 CST)
  • Re: Solvating protein in water sucrose solution (Tue Nov 06 2012 - 13:47:56 CST)
  • Workshop on Scientific Software Development at ICTP in Trieste (Thu Nov 01 2012 - 09:39:46 CDT)
  • Re: Re: control the spacing between the dashes in the hydrogen bonding between two atoms (Tue Oct 30 2012 - 08:59:22 CDT)
  • Re: IMD with Novint Falcon (Tue Oct 30 2012 - 08:10:18 CDT)
  • Re: Command line representation (Mon Oct 29 2012 - 07:51:16 CDT)
  • Re: Colouring by velocity component in VMD (Mon Oct 29 2012 - 07:18:10 CDT)
  • Re: IMD with Novint Falcon (Fri Oct 26 2012 - 08:22:00 CDT)
  • Re: Error in reading data file (Tue Oct 23 2012 - 10:08:15 CDT)
  • Re: Error in reading data file (Tue Oct 23 2012 - 09:56:49 CDT)
  • Re: Re: how to make separate molecule whole? (Sun Oct 21 2012 - 23:20:57 CDT)
  • Re: how to make separate molecule whole? (Sun Oct 21 2012 - 11:06:32 CDT)
  • Re: Visualizing phonon displacement patterns from axsf format forces? (Sun Oct 21 2012 - 02:49:55 CDT)
  • Re: how to put command line arguments in tcl script (Thu Oct 18 2012 - 15:42:14 CDT)
  • Re: Graphic card (Wed Oct 17 2012 - 09:34:06 CDT)
  • Re: coloring atoms based on max bond length; Need help with bond retrieval (Tue Oct 16 2012 - 10:33:57 CDT)
  • Re: coloring atoms based on max bond length; Need help with bond retrieval (Mon Oct 15 2012 - 14:12:33 CDT)
  • Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Sun Oct 14 2012 - 13:31:12 CDT)
  • Re: compiling VMD with gcc 4.7 (Thu Oct 04 2012 - 08:30:36 CDT)
  • Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 10:50:36 CDT)
  • Re: Get objects from precompiled VMD? (Thu Sep 27 2012 - 06:11:16 CDT)
  • Re: Big DCD file help (Tue Sep 25 2012 - 12:54:09 CDT)
  • Re: Big DCD file help (Tue Sep 25 2012 - 11:10:26 CDT)
  • Re: Lammps simulation (Mon Sep 24 2012 - 12:47:11 CDT)
  • Re: VMD in Linux, assigning a variable using awk (Thu Sep 20 2012 - 14:40:52 CDT)
  • Re: compiling vmd with g++-4.6 on ubuntu (Thu Sep 20 2012 - 11:24:29 CDT)
  • Re: Use of topotools (Thu Sep 20 2012 - 07:50:35 CDT)
  • Re: How to create strong bond between atoms in VMD (Thu Sep 20 2012 - 07:03:07 CDT)
  • Re: Determining the Size of my Molecule. . (Sun Sep 16 2012 - 17:10:21 CDT)
  • Re: tutorial 2 (Thu Sep 13 2012 - 04:18:16 CDT)
  • Re: problem loading LAMMPS trajectory using VMD (Thu Sep 13 2012 - 02:23:08 CDT)
  • Re: Question about reflecting wall in NAMD (Fri Aug 31 2012 - 10:17:55 CDT)
  • Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 10:44:48 CDT)
  • Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 08:05:00 CDT)
  • Re: The err happens when movie maker Renderer POV-Ray (Thu Aug 23 2012 - 04:07:30 CDT)
  • Re: RDF COM (Thu Aug 23 2012 - 02:47:02 CDT)
  • (no subject) (Wed Aug 22 2012 - 06:17:50 CDT)
  • Re: The err happens when movie maker Renderer POV-Ray (Wed Aug 22 2012 - 04:58:30 CDT)
  • Re: writing a psf with bonds (Mon Aug 20 2012 - 15:15:31 CDT)
  • Re: Scripting API: are arguments to representation types documented somewhere? (Mon Aug 20 2012 - 07:15:52 CDT)
  • Re: how to get interaction energy (Wed Aug 15 2012 - 08:37:02 CDT)
  • Re: how to get interaction energy (Wed Aug 15 2012 - 06:53:16 CDT)
  • Re: Cartesian coordinates to polar coordinates (Wed Aug 15 2012 - 01:50:57 CDT)
  • Re: creating a modified pdb/psf file (Tue Aug 14 2012 - 07:25:42 CDT)
  • Re: Failure getting correct charge on the system (Mon Aug 13 2012 - 04:45:16 CDT)
  • Re: Failure getting correct charge on the system (Mon Aug 13 2012 - 03:37:08 CDT)
  • Re: long bonds in surface structure is not shown in vmd !? (Sat Aug 11 2012 - 23:28:48 CDT)
  • Re: Re: how add new plugin to vmd (Sat Aug 11 2012 - 17:23:25 CDT)
  • Re: Re: how add new plugin to vmd (Sat Aug 11 2012 - 08:10:46 CDT)
  • Re: how add new plugin to vmd (Fri Aug 10 2012 - 16:27:00 CDT)
  • Re: Convert CHARMM psf to X-PLOR (Fri Aug 10 2012 - 14:48:01 CDT)
  • Re: Convert CHARMM psf to X-PLOR (Fri Aug 10 2012 - 10:43:03 CDT)
  • Re: SASA Algorithm?? (Fri Aug 10 2012 - 06:42:54 CDT)
  • Re: convert dcd to coordinate, each frame, conserving the identity (Fri Aug 10 2012 - 03:13:23 CDT)
  • Re: how to write topology for Metal in protein (Fri Aug 10 2012 - 02:07:38 CDT)
  • Re: Selecting based on parameters from another file (Fri Aug 10 2012 - 02:08:02 CDT)
  • Re: B-factor plugin (Thu Aug 09 2012 - 15:50:47 CDT)
  • Re: unique residue names (Thu Aug 09 2012 - 11:12:39 CDT)
  • Re: connect a spring between all the atoms present in pdb structure (Sat Aug 04 2012 - 13:20:05 CDT)
  • Re: namd-l: How to create psf for graphene (Sat Aug 04 2012 - 13:28:04 CDT)
  • Re: namd-l: connect a spring between all the atoms present in pdb structure (Sat Aug 04 2012 - 13:21:27 CDT)
  • Re: (Thu Aug 02 2012 - 05:11:39 CDT)
  • Re: how to generate .pdb file of graphene in VMD(nanotube builder) (Wed Aug 01 2012 - 06:20:08 CDT)
  • Re: Python plans (Fri Jul 27 2012 - 02:39:48 CDT)
  • Re: vmd 1.9.1 Centos (Wed Jul 25 2012 - 03:20:26 CDT)
  • Re: (Tue Jul 24 2012 - 11:10:42 CDT)
  • Re: converting Desmond trajectory and energy file to gromacs (Tue Jul 24 2012 - 06:22:00 CDT)
  • Re: (Mon Jul 23 2012 - 12:46:16 CDT)
  • Re: Problem with Reading GROMACS file in VMD (Mon Jul 23 2012 - 12:42:50 CDT)
  • Re: Problem with Reading GROMACS file in VMD (Sun Jul 22 2012 - 23:46:35 CDT)
  • Re: VMD's superposition algorithm (Thu Jul 19 2012 - 07:28:09 CDT)
  • Re: VMD's superposition algorithm (Thu Jul 19 2012 - 06:55:12 CDT)
  • Re: constant velocity for carbon nanotubes (Thu Jul 19 2012 - 02:15:07 CDT)
  • Re: periodic bonds in vmd (Tue Jul 17 2012 - 14:27:39 CDT)
  • Re: H-H dynamic bonds (Tue Jul 17 2012 - 11:22:07 CDT)
  • Re: IMD selections (Mon Jul 16 2012 - 11:25:49 CDT)
  • Re: how to change color of the one type of atom (Fri Jul 13 2012 - 09:05:31 CDT)
  • Re: vmd installation problem (Thu Jul 12 2012 - 03:52:04 CDT)
  • Re: namd-l: Re: vmd installation problem (Thu Jul 12 2012 - 01:53:15 CDT)
  • Re: Distance constraints (Fri Jul 06 2012 - 23:05:45 CDT)
  • Re: Building unit cell from asymmetric unit (Thu Jul 05 2012 - 01:50:28 CDT)
  • Re: about analysis plugin (Wed Jul 04 2012 - 11:09:07 CDT)
  • Re: difficulty in viewing AMBER mdcrd files (Mon Jul 02 2012 - 12:56:46 CDT)
  • Re: VMD selection: change atom size across various frames (Mon Jul 02 2012 - 05:10:50 CDT)
  • Re: scripting bond labeling (Sat Jun 30 2012 - 10:32:04 CDT)
  • Re: VMD selection: change atom size across various frames (Fri Jun 29 2012 - 10:26:27 CDT)
  • Re: problem with pbc wrap (Thu Jun 28 2012 - 17:09:09 CDT)
  • Re: Force Field ToolKit and QM codes other than Gaussian (Mon Jun 25 2012 - 05:07:47 CDT)
  • Re: dump to vmd (Sun Jun 24 2012 - 06:44:01 CDT)
  • Re: PMEpot plugin (Tue Jun 19 2012 - 13:06:38 CDT)
  • Re: fix the viewing angles (Mon Jun 18 2012 - 06:27:10 CDT)
  • Re: Changing the color of atoms of a particular name (Sun Jun 17 2012 - 06:45:40 CDT)
  • Re: unwrapping long trajectories (Thu Jun 14 2012 - 13:51:02 CDT)
  • Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Thu Jun 14 2012 - 07:48:04 CDT)
  • Re: VMD 1.9 installation on linux (Wed Jun 13 2012 - 20:06:28 CDT)
  • Re: scripting bond labeling (Wed Jun 13 2012 - 17:47:25 CDT)
  • Re: VMD 1.9 installation on linux (Wed Jun 13 2012 - 09:00:11 CDT)
  • Re: Problems with analysis tools (Wed Jun 13 2012 - 08:11:41 CDT)
  • Re: Problems with analysis tools (Wed Jun 13 2012 - 08:08:17 CDT)
  • Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Wed Jun 13 2012 - 05:50:48 CDT)
  • Re: Finding the Number of Chains Present via Scripting (Fri Jun 08 2012 - 12:10:36 CDT)
  • Re: Segmentation fault (core dumped) (Thu Jun 07 2012 - 08:42:51 CDT)
  • Re: Segmentation fault (core dumped) (Wed Jun 06 2012 - 08:19:58 CDT)
  • Re: Segmentation fault (core dumped) (Tue Jun 05 2012 - 10:09:48 CDT)
  • Re: Strange results when visualizing .trr trajectory (Sat Jun 02 2012 - 12:38:42 CDT)
  • Re: Drawing an ellipsoid (Thu May 31 2012 - 21:14:54 CDT)
  • Re: Drawing an ellipsoid (Thu May 31 2012 - 10:35:17 CDT)
  • Re: Problem in making IMD connection (Thu May 31 2012 - 07:14:35 CDT)
  • anybody interested in running VMD in parallel (without recompiling)? (Wed May 30 2012 - 19:40:45 CDT)
  • Re: Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 16:22:55 CDT)
  • Re: Using Dipole Moment Watcher with Gromacs configurations and trajectories (Sat May 26 2012 - 16:19:26 CDT)
  • Re: Movie making with smoothed trajectories (Thu May 24 2012 - 12:03:04 CDT)
  • Re: TR: VMD atomselect with cartesian reference (Thu May 24 2012 - 09:13:04 CDT)
  • Re: vmd on Ubuntu: tcl howto (Wed May 23 2012 - 07:09:28 CDT)
  • Re: RMSF and bigdcd (Tue May 22 2012 - 18:53:22 CDT)
  • Re: libGLU.so missing? (Fri May 18 2012 - 19:53:59 CDT)
  • Re: file splitting (Thu May 17 2012 - 11:11:00 CDT)
  • Re: panel missing! (Thu May 17 2012 - 10:16:40 CDT)
  • Re: file splitting (Thu May 17 2012 - 07:34:47 CDT)
  • Re: how to calculate PBC box volume in VMD? (Thu May 17 2012 - 02:31:06 CDT)
  • Re: panel missing! (Wed May 16 2012 - 12:23:18 CDT)
  • Re: Making only a subset of atoms transparent (or otherwise non-emphasized) (Tue May 15 2012 - 13:38:17 CDT)
  • Re: APBS for small molecules (Tue May 15 2012 - 09:22:02 CDT)
  • Re: APBS for small molecules (Tue May 15 2012 - 00:41:56 CDT)
  • Re: Loop for (Thu May 10 2012 - 22:06:41 CDT)
  • Re: Loop for (Thu May 10 2012 - 20:00:51 CDT)
  • Re: VMD1.9.1 is crashing my system (Thu May 10 2012 - 17:19:50 CDT)
  • Re: PBC missed in Amber MD (Thu May 10 2012 - 13:43:31 CDT)
  • Re: flashing the VMD (Thu May 10 2012 - 10:49:11 CDT)
  • Re: PBC missed in Amber MD (Thu May 10 2012 - 09:05:04 CDT)
  • Re: flashing the VMD (Thu May 10 2012 - 08:41:00 CDT)
  • Re: flashing the VMD (Wed May 09 2012 - 11:01:54 CDT)
  • Re: flashing the VMD (Tue May 08 2012 - 16:26:26 CDT)
  • Re: flashing the VMD (Tue May 08 2012 - 16:22:57 CDT)
  • Re: flashing the VMD (Tue May 08 2012 - 09:18:17 CDT)
  • Re: counting specific atom types (Tue May 08 2012 - 09:24:20 CDT)
  • Re: flashing the VMD (Tue May 08 2012 - 09:09:27 CDT)
  • Re: diffusion coefficient plug-in in VMD (Tue May 08 2012 - 08:12:35 CDT)
  • Re: flasshing the VMD (Tue May 08 2012 - 08:16:53 CDT)
  • Re: flasshing the VMD (Mon May 07 2012 - 22:10:30 CDT)
  • Re: strange coloring (Mon May 07 2012 - 16:05:49 CDT)
  • Re: .trr files slow to load (Mon May 07 2012 - 12:55:52 CDT)
  • Re: %-sign shortcut for mouse->force->atom not working (Sun May 06 2012 - 14:01:37 CDT)
  • Re: Make "Load all at once" the default? Adding representations? (Tue May 01 2012 - 19:13:11 CDT)
  • Re: Problem with moving protein for all frames (Tue May 01 2012 - 17:04:37 CDT)
  • Re: Make "Load all at once" the default? Adding representations? (Tue May 01 2012 - 16:54:49 CDT)
  • Re: helical content script (Tue May 01 2012 - 07:28:05 CDT)
  • Re: 3D density in the specific part of the simulation box (Tue May 01 2012 - 07:34:55 CDT)
  • Re: visualization of HOMO&LUMO in vmd (Tue May 01 2012 - 07:31:29 CDT)
  • Re: how to use the AutoIMD "Tool control" panel. (Mon Apr 30 2012 - 12:34:07 CDT)
  • Re: writing pair/bond/angle/dihedral information for lammps input (Sun Apr 29 2012 - 23:52:25 CDT)
  • Re: writing pair/bond/angle/dihedral information for lammps input (Sun Apr 29 2012 - 18:18:24 CDT)
  • Re: measure gofr script (Sat Apr 28 2012 - 12:33:09 CDT)
  • Re: measure gofr script (Sat Apr 28 2012 - 10:11:58 CDT)
  • Re: water mean residence time (Fri Apr 27 2012 - 18:30:21 CDT)
  • Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 12:41:38 CDT)
  • Re: H-H dynamic bonds (Mon Apr 23 2012 - 18:10:58 CDT)
  • Re: openGL x,y position (Sun Apr 22 2012 - 22:12:58 CDT)
  • Re: openGL x,y position (Sun Apr 22 2012 - 21:46:14 CDT)
  • Re: Re: Movie Plugin (Sun Apr 22 2012 - 12:32:41 CDT)
  • Re: HOOMD problems (Fri Apr 20 2012 - 20:19:43 CDT)
  • Re: gofr limit, Kirkwood-Buff integrals (Fri Apr 20 2012 - 17:50:26 CDT)
  • Re: HOOMD problems (Fri Apr 20 2012 - 16:37:56 CDT)
  • Re: gofr limit, Kirkwood-Buff integrals (Fri Apr 20 2012 - 14:11:28 CDT)
  • Re: Valence bond force field in NAMD (Thu Apr 19 2012 - 12:53:26 CDT)
  • Re: Misfunction of some plugins if compiled (Wed Apr 18 2012 - 21:18:53 CDT)
  • Re: Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 21:10:24 CDT)
  • Re: Saving coordinates that meet selection criteria for each frame (Tue Apr 17 2012 - 19:20:56 CDT)
  • Re: Is it possible to save the position and angle of the camera for future VMD sessions? (Fri Apr 13 2012 - 18:57:22 CDT)
  • Re: Default representation style in command line (Fri Apr 13 2012 - 07:21:39 CDT)
  • Re: Drawing a high resolution transparent or translucent sphere (Wed Apr 11 2012 - 23:45:18 CDT)
  • Re: saving dcd file different if by script or by interactive mode (Tue Apr 10 2012 - 18:16:03 CDT)
  • Re: topotools writelammps data (Tue Apr 10 2012 - 18:15:16 CDT)
  • Re: VMD QUESTION( Movie making ) (Mon Apr 09 2012 - 17:45:21 CDT)
  • Re: IMD - remove forces on mouse release (Sun Apr 08 2012 - 14:12:19 CDT)
  • Re: using min. image. conven. for transport properties (Wed Apr 04 2012 - 09:13:37 CDT)
  • Re: Auto Bead Display Size using topotools (Mon Apr 02 2012 - 15:59:06 CDT)
  • Re: python error? (Mon Apr 02 2012 - 13:48:02 CDT)
  • Re: Printing Coordinates with Tcl/Tk (Fri Mar 30 2012 - 13:38:57 CDT)
  • Re: Plotting of Co-ordinates on VMD (Fri Mar 30 2012 - 12:49:51 CDT)
  • Re: bondsrecalc question (Fri Mar 30 2012 - 12:46:52 CDT)
  • Re: Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 12:44:35 CDT)
  • Re: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? (Fri Mar 30 2012 - 08:13:09 CDT)
  • Re: secondary structure calculation (Thu Mar 29 2012 - 08:01:38 CDT)
  • Re: kill source'd tcl script (Wed Mar 28 2012 - 08:50:02 CDT)
  • Re: secondary structure calculation (Tue Mar 27 2012 - 15:26:26 CDT)
  • Re: starting tkcon (Wed Mar 21 2012 - 11:20:36 CDT)
  • Re: Define "color Element" through rgb values (Mon Mar 19 2012 - 12:55:31 CDT)
  • Re: Desmond Trajectory Files on the fly in VMD (Tue Mar 13 2012 - 08:56:45 CDT)
  • Re: Drawing the simulation box from a Gromacs trajectory (Mon Mar 12 2012 - 14:30:23 CDT)
  • Re: make movies with user-defined script (Fri Mar 09 2012 - 19:35:32 CST)
  • Re: VMD Display Error - Detected X11 'Composite' extension (Thu Mar 08 2012 - 21:06:08 CST)
  • Re: Individual components of RMSD? (Thu Mar 08 2012 - 13:07:49 CST)
  • Re: Memory used by VMD is much less than installed (Wed Mar 07 2012 - 06:34:44 CST)
  • Re: information regarding tcl script for cell volume changing with each frame (Sat Mar 03 2012 - 17:25:43 CST)
  • Re: information regarding tcl script for cell volume changing with each frame (Sat Mar 03 2012 - 14:45:14 CST)
  • Re: Calculating RDF from xyz file (Thu Mar 01 2012 - 17:36:46 CST)
  • Re: Adsorption VMD Tcl script error (Wed Feb 29 2012 - 16:56:31 CST)
  • Re: How to change the python include and linkage path in configure script (Mon Feb 27 2012 - 13:33:18 CST)
  • Re: Plugins use after compilation question (Mon Feb 27 2012 - 13:30:49 CST)
  • Re: From Vmd to lammps data file (Mon Feb 27 2012 - 09:19:31 CST)
  • Re: From Vmd to lammps data file (Mon Feb 27 2012 - 08:07:24 CST)
  • Re: [request] Best practices for rendering frames and making movies (Tue Feb 21 2012 - 18:29:19 CST)
  • Re: .xyz bond (Mon Feb 20 2012 - 06:07:02 CST)
  • Re: Distance between center of mass of two amino acid residues. (Sun Feb 19 2012 - 14:43:17 CST)
  • Re: Distance between center of mass of two amino acid residues. (Sun Feb 19 2012 - 11:37:25 CST)
  • Re: quicksurf and PBC (Sat Feb 18 2012 - 10:57:01 CST)
  • Re: trajector@VMD (Fri Feb 17 2012 - 09:38:26 CST)
  • Re: append glow lights to a VMD/Tachyon scene (Fri Feb 17 2012 - 08:11:53 CST)
  • Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 12:46:48 CST)
  • Re: Hbonds Analysis (Wed Feb 15 2012 - 18:14:24 CST)
  • Re: Hbonds Analysis (Tue Feb 14 2012 - 15:36:13 CST)
  • Re: radial distribution funtion (Mon Feb 13 2012 - 21:59:32 CST)
  • Re: Timestep (Mon Feb 13 2012 - 16:57:22 CST)
  • Re: radial distribution funtion (Mon Feb 13 2012 - 16:21:16 CST)
  • Re: PROPKA doesn't work in recent VMD1.9.1 (Sun Feb 12 2012 - 09:47:21 CST)
  • Re: charges in VMD 1.9 vs. VMD 1.8.7 (Fri Feb 10 2012 - 08:38:12 CST)
  • Re: radial distribution function (Thu Feb 09 2012 - 21:09:54 CST)
  • Re: charge visualization (Tue Feb 07 2012 - 19:49:17 CST)
  • Re: Use variable in atomselect command (Tue Feb 07 2012 - 16:15:55 CST)
  • Re: Configure VMD while GROMACS Installation (Tue Feb 07 2012 - 05:52:22 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 11:54:35 CST)
  • Re: PSFGEN and Reading Bonds from PDB Files (Mon Feb 06 2012 - 11:52:27 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 12:02:47 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 11:46:43 CST)
  • Re: PSFGEN and Reading Bonds from PDB Files (Sun Feb 05 2012 - 15:36:29 CST)
  • Re: The spheres become oval, getting close to the screen borders (Sun Feb 05 2012 - 11:07:34 CST)
  • Re: create images in vmd (Fri Feb 03 2012 - 06:34:53 CST)
  • Re: how to display the full molecule when use "within" option? (Fri Feb 03 2012 - 06:32:34 CST)
  • Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Thu Feb 02 2012 - 07:52:24 CST)
  • Re: namd-l: Gromacs analysis tools for Namd output (Wed Feb 01 2012 - 11:48:47 CST)
  • Re: Rmsd script with arguments (Tue Jan 31 2012 - 15:55:06 CST)
  • Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Tue Jan 31 2012 - 07:18:10 CST)
  • Re: Quantitative meaning of volmap isosurface (Tue Jan 31 2012 - 07:25:02 CST)
  • Re: how to fix structural alignment pdbs (Tue Jan 31 2012 - 07:22:44 CST)
  • Re: how to configure Tachyon image render size? (Mon Jan 30 2012 - 15:46:42 CST)
  • Re: problem with new plugin installation. (Sat Jan 28 2012 - 10:33:50 CST)
  • Re: Cutting a sphere with a specified radius along a trajectory (Fri Jan 27 2012 - 17:24:23 CST)
  • Re: package ::struct::set not available (Thu Jan 26 2012 - 09:40:06 CST)
  • Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 06:52:27 CST)
  • Re: unit cell volume is zero (Wed Jan 25 2012 - 16:03:04 CST)
  • Re: Re: atomselect counting (Wed Jan 25 2012 - 14:46:05 CST)
  • Re: atomselect counting (Wed Jan 25 2012 - 09:12:16 CST)
  • Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 08:46:25 CST)
  • Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 07:13:27 CST)
  • Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 16:25:37 CST)
  • Re: ImportError: cannot import name AtomSel (Mon Jan 23 2012 - 16:33:29 CST)
  • Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 14:13:02 CST)
  • Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 12:51:41 CST)
  • Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 11:53:04 CST)
  • Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 11:55:22 CST)
  • Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 09:29:37 CST)
  • Re: VMD and Centos 6 (Sun Jan 22 2012 - 10:19:06 CST)
  • Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 20:17:22 CST)
  • Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 11:03:06 CST)
  • Re: ionic radii of sodium and chloride (Thu Jan 19 2012 - 21:12:49 CST)
  • Re: Generating a psf file using VMD (Thu Jan 19 2012 - 17:55:01 CST)
  • Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 19 2012 - 13:55:04 CST)
  • Re: rendering question (Thu Jan 19 2012 - 11:55:22 CST)
  • Re: Haptic devices for IMD (Wed Jan 18 2012 - 11:24:19 CST)
  • Re: New "surf" calculations in VMD 1.9.1 beta (Wed Jan 18 2012 - 08:00:54 CST)
  • Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 17:17:25 CST)
  • Re: Question regarding HBond analysis (Tue Jan 17 2012 - 13:19:21 CST)
  • Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 11:05:20 CST)
  • Re: Question regarding HBond analysis (Mon Jan 16 2012 - 18:13:55 CST)
  • Re: Problems in setting up low pH systems (Wed Jan 11 2012 - 21:26:28 CST)
  • Re: vmd-density-profile (Sat Jan 07 2012 - 10:23:44 CST)
  • Re: method for user-defined coloring (Fri Jan 06 2012 - 12:44:15 CST)
  • Re: select whole residues (Tue Jan 03 2012 - 18:39:05 CST)
  • Re: represent water molecules (Mon Jan 02 2012 - 13:19:41 CST)
  • Re: external field application (Mon Jan 02 2012 - 12:21:06 CST)
  • Re: represent water molecules (Mon Jan 02 2012 - 11:42:41 CST)
  • Re: external field application (Sun Jan 01 2012 - 11:11:24 CST)
  • Re: using xtc file to generate pdb's (Tue Dec 27 2011 - 17:32:59 CST)
  • Re: paratool CHARMM style charges (Tue Dec 27 2011 - 09:46:32 CST)
  • Re: Change Color Scale (Wed Dec 21 2011 - 15:04:07 CST)
  • Re: Ionization (Wed Dec 21 2011 - 08:25:16 CST)
  • Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 12:32:34 CST)
  • Re: vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 12:08:37 CST)
  • Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 12:05:45 CST)
  • Re: Solvating with Nonaqueous Solvent (Thu Dec 15 2011 - 16:38:26 CST)
  • Re: Solvating with Nonaqueous Solvent (Tue Dec 13 2011 - 14:16:12 CST)
  • Re: package MDEnergy (Tue Dec 13 2011 - 13:44:01 CST)
  • Re: Povray renders labels always centered (Mon Dec 12 2011 - 10:08:49 CST)
  • Re: Tachyon render problem (Sun Dec 11 2011 - 18:09:43 CST)
  • Re: Tachyon render problem (Fri Dec 09 2011 - 09:55:22 CST)
  • Re: TCL strangeness (Thu Dec 08 2011 - 22:37:16 CST)
  • Re: Script for Angular Distribution Function? (Wed Dec 07 2011 - 10:48:47 CST)
  • Re: topology and parameter files for H2 and O2 (Tue Dec 06 2011 - 07:46:33 CST)
  • Re: out-of-order writegmx with topotools 1.2 (Mon Dec 05 2011 - 00:07:18 CST)
  • Re: Rendering long and high-quality movies from VMD (Sun Dec 04 2011 - 23:19:35 CST)
  • Re: Rendering long and high-quality movies from VMD (Sun Dec 04 2011 - 23:27:48 CST)
  • Re: out-of-order writegmx with topotools 1.2 (Sat Dec 03 2011 - 18:18:38 CST)
  • Re: Viewing System of Molecules where coordinates are in text file. (Thu Dec 01 2011 - 22:28:12 CST)
  • Re: convertind dcd to xyz file (Tue Nov 29 2011 - 17:43:05 CST)
  • Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 17:13:02 CST)
  • Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 11:45:47 CST)
  • Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Mon Nov 28 2011 - 10:21:20 CST)
  • Re: vmd solvate (Sun Nov 27 2011 - 15:00:26 CST)
  • Re: tcl script (Fri Nov 25 2011 - 14:52:32 CST)
  • Re: tcl script (Fri Nov 25 2011 - 13:16:32 CST)
  • Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 09:38:01 CST)
  • Re: how to convert Desmond trajectories into PDB in text mode? (Thu Nov 24 2011 - 14:48:44 CST)
  • Re: How to save Automatic psf builder script (Thu Nov 24 2011 - 14:45:59 CST)
  • Re: Change coordinates (Thu Nov 24 2011 - 14:42:53 CST)
  • Re: POPE CHARMM36 generations error. (Thu Nov 24 2011 - 14:46:47 CST)
  • Re: movie out of principal component analysis (Tue Nov 22 2011 - 08:10:39 CST)
  • Re: bash scripts quits after few frames (Tue Nov 22 2011 - 06:20:24 CST)
  • Re: compile VMD 1.9 with FLTK 1.3 (Mon Nov 21 2011 - 08:37:31 CST)
  • Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 22:57:45 CST)
  • Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 19:55:57 CST)
  • Re: pbc wrap (Mon Nov 14 2011 - 09:57:06 CST)
  • Re: how to place polymers on carbon nanotube surface (Fri Nov 11 2011 - 13:27:35 CST)
  • Re: topotools (Fri Nov 11 2011 - 10:14:23 CST)
  • Re: Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 08:57:13 CST)
  • Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 08:41:38 CST)
  • Re: topotools (Fri Nov 11 2011 - 07:27:27 CST)
  • Re: UPDATE OCCUPANCY (Fri Nov 11 2011 - 07:34:53 CST)
  • Re: Couldn't locate ppmtompeg (Thu Nov 10 2011 - 15:47:31 CST)
  • Re: pbwithin selection (Thu Nov 10 2011 - 09:27:47 CST)
  • Re: How to parse very large trajectories? (Wed Nov 09 2011 - 15:44:30 CST)
  • Re: Suppress "Info)" messages (Mon Nov 07 2011 - 13:15:19 CST)
  • Re: tcl procedure to set data (Sun Nov 06 2011 - 20:31:00 CST)
  • Re: lipid bilayer thickness (Sun Nov 06 2011 - 06:14:50 CST)
  • Re: Batch image creation (Fri Nov 04 2011 - 18:07:41 CDT)
  • Re: find avgstruct (Fri Nov 04 2011 - 07:29:32 CDT)
  • Re: radius of gyration (Wed Nov 02 2011 - 15:49:19 CDT)
  • Re: VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 19:08:07 CDT)
  • Re: Use of RBCG to convert multiple frames from atomistic trajectory to Coarse grained (Tue Nov 01 2011 - 17:09:50 CDT)
  • Re: Finding resname without using atomselect? (Tue Nov 01 2011 - 16:50:51 CDT)
  • Re: VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 08:15:36 CDT)
  • Re: haptic devices VMD/NAMD/IMD (Mon Oct 31 2011 - 16:55:56 CDT)
  • Re: Dynamic lines (Mon Oct 31 2011 - 14:32:47 CDT)
  • Re: Is it possible to automatically label all bonds? (Mon Oct 31 2011 - 08:10:08 CDT)
  • Re: Run a variable through VMD Tk/Tcl console .vmdrc file (Sun Oct 30 2011 - 10:04:09 CDT)
  • Re: Is it possible to automatically label all bonds? (Thu Oct 27 2011 - 12:42:02 CDT)
  • Re: Selecting Atoms within a Volume, Manipulating Volumetric Data (Tue Oct 25 2011 - 08:03:13 CDT)
  • Re: superimposing groups of three atoms (Fri Oct 21 2011 - 13:07:16 CDT)
  • Re: coloring bonds on the same segments differently from those between segments (Thu Oct 20 2011 - 20:10:23 CDT)
  • Re: angle calculation trajectory (Tue Oct 18 2011 - 13:22:15 CDT)
  • Re: atomselect and macro (Sat Oct 15 2011 - 17:33:49 CDT)
  • Re: Problem building POPE membrane with plugin using CHARMM36 (Fri Oct 14 2011 - 13:38:52 CDT)
  • Re: Error running IED with VMD (Fri Oct 14 2011 - 10:09:16 CDT)
  • Re: Installing VMD on Debian Linux (Fri Oct 14 2011 - 07:47:38 CDT)
  • Re: How to select whole residues when at least one atom is within a specific distance (Thu Oct 13 2011 - 14:37:24 CDT)
  • Re: topotools (Wed Oct 12 2011 - 16:46:59 CDT)
  • Re: amber traj to pqr - radii error (Mon Oct 10 2011 - 13:40:51 CDT)
  • Re: GPU choice for large systems (Sun Oct 02 2011 - 14:34:39 CDT)
  • Re: GPU choice for large systems (Sat Oct 01 2011 - 08:53:36 CDT)
  • Re: methanol_solvent box (Sat Oct 01 2011 - 08:31:05 CDT)
  • Re: GPU choice for large systems (Sat Oct 01 2011 - 07:58:19 CDT)
  • Re: methanol_solvent box (Sat Oct 01 2011 - 07:08:44 CDT)
  • Re: VMD with LAMMPS trjaectory - help? (Thu Sep 29 2011 - 10:08:37 CDT)
  • Re: Re: vmd topotools 1.2 (Thu Sep 29 2011 - 08:16:39 CDT)
  • Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Thu Sep 29 2011 - 08:22:26 CDT)
  • Re: VMD with LAMMPS trjaectory - help? (Wed Sep 28 2011 - 19:27:16 CDT)
  • Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Wed Sep 28 2011 - 19:46:03 CDT)
  • Re: vmd topotools 1.2 error (Wed Sep 28 2011 - 10:01:43 CDT)
  • Re: vmd topotools 1.2 error (Wed Sep 28 2011 - 09:06:59 CDT)
  • Re: Associating .crd file extension with COR Plugin (Wed Sep 28 2011 - 08:51:38 CDT)
  • Re: question on "Recompile VMD with larger index types" (Wed Sep 28 2011 - 05:44:13 CDT)
  • Re: problem of exceeding max atom number (Tue Sep 27 2011 - 13:41:45 CDT)
  • Re: Re: Selecting a laptop for VMD and NAMD (was: CUDA cores seen by VMD on GT540M) (Tue Sep 27 2011 - 10:36:20 CDT)
  • Re: convert .coor to pdb (Mon Sep 26 2011 - 07:04:11 CDT)
  • Re: RDF related problems (Sat Sep 24 2011 - 16:19:21 CDT)
  • Re: Locked files in Windows 7 (Thu Sep 22 2011 - 07:49:47 CDT)
  • Re: NetCDF plugin (Tue Sep 20 2011 - 18:59:11 CDT)
  • Re: select each element of array (Tue Sep 20 2011 - 07:20:43 CDT)
  • Re: Problem with measuring dihedrals (Tue Sep 20 2011 - 04:55:10 CDT)
  • Re: select each element of array (Mon Sep 19 2011 - 20:18:35 CDT)
  • Re: RMSD heatmapper -plugin (Mon Sep 19 2011 - 12:49:40 CDT)
  • Re: select each element of array (Mon Sep 19 2011 - 12:10:44 CDT)
  • Re: Adding water in protein (Mon Sep 19 2011 - 07:01:15 CDT)
  • Re: topotools readvarxyz (Mon Sep 19 2011 - 07:03:25 CDT)
  • Re: bug in Hbond Option (Mon Sep 19 2011 - 06:51:38 CDT)
  • RE: RDF calculation for production steps (Thu Sep 15 2011 - 10:38:16 CDT)
  • Re: LINK or PACTH command in VMD (Wed Sep 14 2011 - 13:38:40 CDT)
  • Re: Does Paratool support CgenFF? (Wed Sep 14 2011 - 09:37:26 CDT)
  • Re: RDF calculation for production steps (Tue Sep 13 2011 - 23:51:17 CDT)
  • Re: Showing and Calculating the amount of water molecules inside carbon nanotube (Tue Sep 13 2011 - 23:54:39 CDT)
  • Re: linux issues (Mon Sep 12 2011 - 12:03:04 CDT)
  • Re: Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 20:27:25 CDT)
  • Re: Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 17:51:33 CDT)
  • Re: output values in my script (Thu Sep 08 2011 - 19:51:54 CDT)
  • Re: Visualizing Trajectory file: .pdb or .xyz (Wed Sep 07 2011 - 18:11:44 CDT)
  • Re: Visualizing Trajectory file: .pdb or .xyz (Wed Sep 07 2011 - 14:55:10 CDT)
  • Re: draw intersection volume between two spheres (Wed Sep 07 2011 - 10:35:43 CDT)
  • Re: VMD align to principal axis (Tue Sep 06 2011 - 23:31:11 CDT)
  • Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 09:28:45 CDT)
  • Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 05:11:00 CDT)
  • Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 05:31:23 CDT)
  • Re: plugin (Mon Sep 05 2011 - 14:37:19 CDT)
  • Re: Density Profile in VMD (Mon Sep 05 2011 - 08:39:31 CDT)
  • Re: Radial distribution function (Sat Sep 03 2011 - 16:25:05 CDT)
  • Re: How to read pdbqt file? (Sat Sep 03 2011 - 15:53:58 CDT)
  • Re: Radial distribution function (Sat Sep 03 2011 - 11:20:33 CDT)
  • Re: Movie maker in VMD (Fri Sep 02 2011 - 12:14:32 CDT)
  • Re: Fw: Fw: Hbond in VMD (Wed Aug 31 2011 - 15:56:52 CDT)
  • Re: loading a trajectory where particles aren't conservd (Wed Aug 31 2011 - 15:42:14 CDT)
  • Re: Fw: Hbond in VMD (Wed Aug 31 2011 - 13:27:21 CDT)
  • Re: Fw: Hbond in VMD (Wed Aug 31 2011 - 13:16:11 CDT)
  • Re: Saving ionized.psf from add ions plug in of VMD (Wed Aug 31 2011 - 11:34:08 CDT)
  • Re: CUDA cores seen by VMD on GT540M (Wed Aug 31 2011 - 10:17:39 CDT)
  • Re: Hbond in VMD (Wed Aug 31 2011 - 07:45:45 CDT)
  • Re: VMD display residues (Wed Aug 31 2011 - 06:22:04 CDT)
  • Re: VMD display residues (Tue Aug 30 2011 - 13:19:46 CDT)
  • Re: Fw: Lammps Output data format (Tue Aug 30 2011 - 12:45:15 CDT)
  • Re: VMD movie (Tue Aug 30 2011 - 12:22:29 CDT)
  • Re: VMD movie (Tue Aug 30 2011 - 11:28:37 CDT)
  • Re: Lammps Output data format (Tue Aug 30 2011 - 10:54:19 CDT)
  • Re: loading a trajectory where particles aren't conservd (Mon Aug 29 2011 - 17:26:22 CDT)
  • Re: Lammps Output data format (Mon Aug 29 2011 - 13:20:02 CDT)
  • Re: 3d viz? (Mon Aug 29 2011 - 10:37:24 CDT)
  • Re: how to load Orient package in VMD (Wed Aug 24 2011 - 16:57:50 CDT)
  • Re: how to load Orient package in VMD (Wed Aug 24 2011 - 16:47:49 CDT)
  • Re: Mailing list problems (Wed Aug 24 2011 - 15:57:59 CDT)
  • Re: visualizing unrealistic bonds (Tue Aug 23 2011 - 10:18:00 CDT)
  • Re: making movie (Tue Aug 23 2011 - 09:59:59 CDT)
  • Re: RMSD calculator extension (Tue Aug 23 2011 - 09:48:38 CDT)
  • Re: Problem with psfgen (Tue Aug 23 2011 - 09:33:39 CDT)
  • Re: visualizing unrealistic bonds (Tue Aug 23 2011 - 09:30:52 CDT)
  • Re: Re: Wrap PBC inside unit cellâ€� (Tue Aug 23 2011 - 09:27:20 CDT)
  • Re: making movie (Tue Aug 23 2011 - 09:28:57 CDT)
  • Re: Wrap PBC inside unit cellâ€� (Tue Aug 23 2011 - 09:26:09 CDT)
  • Re: Turning Label Info output off in vmd console (Fri Aug 19 2011 - 18:14:30 CDT)
  • Re: Turning Label Info output off in vmd console (Thu Aug 18 2011 - 19:28:04 CDT)
  • Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 13:27:42 CDT)
  • Re: Re: namd-l: MMTools (Wed Aug 17 2011 - 20:28:28 CDT)
  • Re: namd-l: MMTools (Wed Aug 17 2011 - 10:15:50 CDT)
  • Re: changing label format with some arithmetic (Wed Aug 17 2011 - 10:13:09 CDT)
  • Re: visualizing unrealistic bonds (Mon Aug 15 2011 - 12:07:13 CDT)
  • Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sun Aug 14 2011 - 00:09:28 CDT)
  • Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 08:47:57 CDT)
  • Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 08:22:08 CDT)
  • Re: package require help (Fri Aug 12 2011 - 03:51:27 CDT)
  • Re: rmsf (Fri Aug 12 2011 - 03:52:10 CDT)
  • Re: Vmd Problem (Thu Aug 11 2011 - 16:35:56 CDT)
  • Re: Update selection every frame command (Thu Aug 11 2011 - 07:23:04 CDT)
  • Re: Molefacture - VMD agreement (Thu Aug 11 2011 - 00:14:01 CDT)
  • Re: namd-l: Solvation in VMD using Non Standard Solvent System (Wed Aug 10 2011 - 07:47:35 CDT)
  • Re: TCL and Plugins (Tue Aug 09 2011 - 13:48:48 CDT)
  • Re: script (Mon Aug 08 2011 - 22:37:15 CDT)
  • Re: xtc plugin writing ability (Fri Aug 05 2011 - 09:09:00 CDT)
  • Re: specden - IR spectral density calculator plugin (Thu Aug 04 2011 - 13:49:06 CDT)
  • Re: viewing dcd files (Thu Aug 04 2011 - 13:44:33 CDT)
  • Re: about psf file generation (Tue Aug 02 2011 - 07:43:29 CDT)
  • Re: moveby command (Sun Jul 31 2011 - 09:50:29 CDT)
  • Re: different number of atoms in each frame of the trajectory file (Fri Jul 29 2011 - 18:05:32 CDT)
  • Re: Nvidia quadro Fx1300 problem (Fri Jul 29 2011 - 10:39:19 CDT)
  • Re: How to save image in SVG format? (Tue Jul 26 2011 - 01:36:14 CDT)
  • Re: Question about eval (Mon Jul 25 2011 - 14:33:37 CDT)
  • Re: Understand a script (Mon Jul 25 2011 - 10:50:47 CDT)
  • Re: Understand a script (Mon Jul 25 2011 - 10:23:31 CDT)
  • Re: Avoid vmd closing with script (Mon Jul 25 2011 - 09:31:45 CDT)
  • Re: namd-l: how to generate transparent figures? (Mon Jul 25 2011 - 03:48:10 CDT)
  • Re: shades of licorice representation (Wed Jul 20 2011 - 08:57:58 CDT)
  • Re: shades of licorice representation (Tue Jul 19 2011 - 10:02:52 CDT)
  • Re: shades of licorice representation (Tue Jul 19 2011 - 08:44:13 CDT)
  • Re: Hydration dynamics:Phrase selection problem in vmd (Mon Jul 18 2011 - 09:40:28 CDT)
  • Re: Problem of installing VMD 1.8.3 on Fedora14 (Sun Jul 17 2011 - 16:52:34 CDT)
  • Re: [lammps-users] Initial configurations / topology for LAMMPS (Thu Jul 14 2011 - 15:29:08 CDT)
  • Re: How to change the VMD working Directory (Thu Jul 14 2011 - 09:58:26 CDT)
  • Re: Add user output to DCD trajectories (Thu Jul 14 2011 - 09:23:45 CDT)
  • Re: how to draw different set of points for different frames in a trajectory my script does not work (Tue Jul 12 2011 - 15:17:50 CDT)
  • Re: script (Tue Jul 12 2011 - 11:58:55 CDT)
  • Re: Retrieving Cremer-Pople parameters (Tue Jul 12 2011 - 09:03:56 CDT)
  • Re: PBCwrap tools (Sun Jul 10 2011 - 11:38:26 CDT)
  • Re: PBCwrap tools (Sun Jul 10 2011 - 05:34:09 CDT)
  • Re: stereo anaglyph rendering (Sun Jul 10 2011 - 05:36:00 CDT)
  • Re: PBCwrap tools (Sat Jul 09 2011 - 18:33:24 CDT)
  • Re: import selection in array for script (Fri Jul 08 2011 - 15:04:46 CDT)
  • Re: how to draw different set of points for different frames in a trajectory my script does not work (Fri Jul 08 2011 - 11:20:11 CDT)
  • Re: how to draw different set of points for different frames in a trajectory my script does not work (Fri Jul 08 2011 - 08:31:17 CDT)
  • Re: Re: Problem with for loop. (Thu Jul 07 2011 - 16:59:46 CDT)
  • Re: script (Wed Jul 06 2011 - 19:01:31 CDT)
  • Re: Re: Problem with for loop. (Wed Jul 06 2011 - 10:57:44 CDT)
  • Re: Problem with for loop. (Wed Jul 06 2011 - 10:26:10 CDT)
  • Re: Distance between atoms in frame (Tue Jul 05 2011 - 20:10:04 CDT)
  • Re: Computer hangs on trying to launch VMD CUDA (Tue Jul 05 2011 - 15:08:03 CDT)
  • Re: contacts and pbc (Sun Jul 03 2011 - 11:21:39 CDT)
  • Re: Problem with loop. it s not going to the next peptide (Fri Jul 01 2011 - 17:06:25 CDT)
  • Re: catdcd and velocity dcd file (Fri Jul 01 2011 - 10:45:16 CDT)
  • Re: Display Multiple Bond Order (Wed Jun 29 2011 - 12:41:50 CDT)
  • Re: About psf file (Wed Jun 29 2011 - 08:31:02 CDT)
  • Re: Installation problem -Solvate (Wed Jun 29 2011 - 05:25:15 CDT)
  • Re: Total Dipole Moment (Tue Jun 28 2011 - 20:02:59 CDT)
  • Re: Total Dipole Moment (Tue Jun 28 2011 - 20:11:47 CDT)
  • Re: Normalization of RDFs in gofr plugin (Tue Jun 28 2011 - 18:08:31 CDT)
  • Re: Normalization of RDFs in gofr plugin (Tue Jun 28 2011 - 13:06:49 CDT)
  • Re: Bond between two hydrogen atoms (Tue Jun 28 2011 - 12:56:11 CDT)
  • Re: Changing representations on a per-atom per-timestep basis (Tue Jun 28 2011 - 12:14:19 CDT)
  • Re: Re: best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule (Tue Jun 28 2011 - 09:55:40 CDT)
  • Re: VMD-I: rsmd calculation (Tue Jun 28 2011 - 09:53:26 CDT)
  • Re: Total Dipole Moment (Tue Jun 28 2011 - 09:48:33 CDT)
  • Re: color trajectory using specific values rather than color scale (Mon Jun 27 2011 - 10:32:51 CDT)
  • Re: protein-water RDF (Mon Jun 27 2011 - 09:08:35 CDT)
  • Re: not to display atoms in certain region (Fri Jun 24 2011 - 16:09:33 CDT)
  • Re: align axes (Thu Jun 23 2011 - 13:42:44 CDT)
  • Re: APBS installation problem (Wed Jun 22 2011 - 13:17:30 CDT)
  • Re: Rotating a non-coordinate file (Wed Jun 22 2011 - 05:56:04 CDT)
  • Re: invisible files in windows (Wed Jun 15 2011 - 17:37:36 CDT)
  • Re: water is forming bonds between hydrogens (Wed Jun 15 2011 - 10:38:26 CDT)
  • Re: rdf for specific group of atoms (Wed Jun 15 2011 - 09:14:46 CDT)
  • Re: color sidechains differently (Tue Jun 14 2011 - 22:21:07 CDT)
  • Re: Vmd vs QUANTA (Tue Jun 14 2011 - 04:55:11 CDT)
  • Re: VolMap Tool Question (Mon Jun 13 2011 - 14:31:47 CDT)
  • Re: showperiodic - not self? (Mon Jun 13 2011 - 12:51:04 CDT)
  • Re: simulation in Nitrogen box (Sat Jun 11 2011 - 10:21:45 CDT)
  • Re: topotools {.top} for Gromacs {.tpr} generation (Tue Jun 07 2011 - 15:24:30 CDT)
  • Re: Problem with Starting vmd after Debian System Upgrade (Tue Jun 07 2011 - 12:19:42 CDT)
  • Re: saving dcd with less frames (Tue Jun 07 2011 - 05:08:17 CDT)
  • Re: Dipole Moment Monitoring (Mon Jun 06 2011 - 21:45:08 CDT)
  • Re: topotools {.top} for Gromacs {.tpr} generation (Mon Jun 06 2011 - 19:14:57 CDT)
  • Re: topotools {.top} for Gromacs {.tpr} generation (Mon Jun 06 2011 - 18:26:46 CDT)
  • Re: For loops decelerate (Mon Jun 06 2011 - 16:36:31 CDT)
  • Re: Tachyon post-render commands under Win-XP (Mon Jun 06 2011 - 09:25:14 CDT)
  • Re: For loops decelerate (Fri Jun 03 2011 - 14:19:12 CDT)
  • Re: For loops decelerate (Fri Jun 03 2011 - 13:57:27 CDT)
  • Re: For loops decelerate (Thu Jun 02 2011 - 06:27:04 CDT)
  • Re: charge information for the PMEpot plugin (Wed Jun 01 2011 - 12:25:04 CDT)
  • Re: .gro format to .pqr format (Wed Jun 01 2011 - 10:52:24 CDT)
  • Re: [lammps-users] using topotools to view lammps output (Wed Jun 01 2011 - 08:48:04 CDT)
  • Re: problem with bigdcd rmsd calculaton output (Mon May 30 2011 - 23:16:30 CDT)
  • Re: Issue with NAMD/VMD tutorial (Mon May 30 2011 - 14:49:19 CDT)
  • Re: Issue with NAMD/VMD tutorial (Mon May 30 2011 - 13:15:58 CDT)
  • Re: Protein cavities (Sun May 29 2011 - 17:31:44 CDT)
  • Re: Save Coordinates for Multiple Loads (Sun May 29 2011 - 10:17:22 CDT)
  • Re: Protein cavities (Sun May 29 2011 - 03:17:08 CDT)
  • Re: use variable in atomselect (Fri May 27 2011 - 17:05:16 CDT)
  • Re: measure fit - wrong alignment (Thu May 26 2011 - 13:17:43 CDT)
  • Re: Mean value of el. potential ? (Wed May 25 2011 - 19:51:55 CDT)
  • Re: surface of an atomic property (Wed May 25 2011 - 14:01:44 CDT)
  • Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 05:35:42 CDT)
  • Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 14:08:26 CDT)
  • Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 12:14:39 CDT)
  • Re: size for render (Tue May 24 2011 - 06:47:25 CDT)
  • Re: vmd calculating wrong number of frames in xtc file using molinfo numframes ? (Mon May 23 2011 - 11:11:52 CDT)
  • Re: Non-cuda version of VMD on Linux? (Sun May 22 2011 - 05:17:34 CDT)
  • Re: color atom by stress (Sat May 21 2011 - 16:25:18 CDT)
  • Re: Displaying protein AND ligand from an amber trajectory (Fri May 20 2011 - 09:07:14 CDT)
  • Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 05:47:18 CDT)
  • Re: Aligning two proteins of varying atom numbers (Thu May 19 2011 - 11:17:37 CDT)
  • Re: run and close vmd with bash script? (Wed May 18 2011 - 10:42:53 CDT)
  • Re: run and close vmd with bash script? (Wed May 18 2011 - 08:23:49 CDT)
  • Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? (Tue May 17 2011 - 09:44:26 CDT)
  • Re: convert prmtop to psf (Tue May 17 2011 - 05:56:15 CDT)
  • Re: sharing atoms (Mon May 16 2011 - 09:43:13 CDT)
  • Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 16:47:40 CDT)
  • Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 11:51:22 CDT)
  • Re: Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 19:40:17 CDT)
  • RE: Atom ID/Color change with timesteps (Thu May 12 2011 - 16:21:21 CDT)
  • Re: Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 15:56:52 CDT)
  • Re: Large positive non-integer charge (Thu May 12 2011 - 13:56:44 CDT)
  • Re: Atom ID/Color change with timesteps (Thu May 12 2011 - 13:54:23 CDT)
  • Re: Atom ID/Color change with timesteps (Wed May 11 2011 - 19:58:38 CDT)
  • Re: Slice through molecule (Wed May 11 2011 - 09:16:40 CDT)
  • Re: changing the color of Sn atom (Wed May 11 2011 - 08:37:46 CDT)
  • Re: save coordinate POSCAR (Tue May 10 2011 - 13:50:39 CDT)
  • Re: save coordinate POSCAR (Tue May 10 2011 - 13:30:03 CDT)
  • Re: bad window parameter (Tue May 10 2011 - 10:39:44 CDT)
  • Re: Re: Calculating RMSD on two sets of points (Tue May 10 2011 - 10:43:51 CDT)
  • Re: plotting spin density (Thu May 05 2011 - 22:45:20 CDT)
  • Re: Cartoons and secondary structure prediction (Tue May 03 2011 - 07:05:39 CDT)
  • Re: SASA calculation using periodic images? (Tue May 03 2011 - 07:10:56 CDT)
  • Re: Reconstruction of XST data from DCD data (Sun May 01 2011 - 20:15:06 CDT)
  • Re: psfgen: error processing bonds (Sun May 01 2011 - 16:20:45 CDT)
  • Re: X & Y co-ordinate data (Sun May 01 2011 - 12:12:09 CDT)
  • Re: question regarding H-bond calculation (Sun May 01 2011 - 11:32:09 CDT)
  • Re: psfgen: error processing bonds (Sat Apr 30 2011 - 10:45:17 CDT)
  • Re: Save molecule in pdb format (Sat Apr 30 2011 - 04:42:15 CDT)
  • Re: psfgen: error processing bonds (Fri Apr 29 2011 - 15:11:54 CDT)
  • Re: Questions about trajectory files obtained from LAMMPS Molecular dynamics with Reax Force field (Fri Apr 29 2011 - 08:36:01 CDT)
  • Re: psfgen: error processing bonds (Fri Apr 29 2011 - 08:40:55 CDT)
  • Re: hello (Thu Apr 28 2011 - 10:01:18 CDT)
  • Re: running plugin from the command line (Wed Apr 27 2011 - 15:34:10 CDT)
  • Re: making a movie (Tue Apr 26 2011 - 18:36:48 CDT)
  • Re: generating .xsc files using periodic information (Tue Apr 26 2011 - 11:31:28 CDT)
  • Re: Generating Topo Bond Data from LAMMPS Data File (Wed Apr 20 2011 - 11:17:34 CDT)
  • Re: Simple Question regarding psf generation (Tue Apr 19 2011 - 09:24:57 CDT)
  • Re: waters selection (Mon Apr 18 2011 - 16:20:51 CDT)
  • Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 11:16:56 CDT)
  • Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:51:28 CDT)
  • Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:34:54 CDT)
  • Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:16:45 CDT)
  • Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 03:26:32 CDT)
  • Re: Re: using vmd to view gromacs trajectory (Thu Apr 14 2011 - 11:43:36 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 12:05:24 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:38:34 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 10:38:19 CDT)
  • Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 10:56:17 CDT)
  • Re: trajectory generation using gaussian cube files (Mon Apr 11 2011 - 16:47:48 CDT)
  • Re: box vectores in .trr (Sat Apr 09 2011 - 15:17:23 CDT)
  • Re: Water Models (Sat Apr 02 2011 - 05:34:38 CDT)
  • Re: How to create bonds in VMD? (Fri Apr 01 2011 - 11:59:54 CDT)
  • Re: viewing trajectory (Tue Mar 29 2011 - 19:32:41 CDT)
  • Re: Save Coordinates Question ... (Fri Mar 25 2011 - 13:04:44 CDT)
  • Re: measure dipole (Fri Mar 25 2011 - 09:14:47 CDT)
  • Re: measure dipole (Thu Mar 24 2011 - 13:53:10 CDT)
  • Re: How can I operate on multiple .pdb structures in a list (Wed Mar 23 2011 - 19:43:49 CDT)
  • Re: ANALYZING DESMOND OUTPUT IN VMD (Sun Mar 20 2011 - 15:49:12 CDT)
  • Re: "non-grid" volumetric data (Sat Mar 19 2011 - 17:53:16 CDT)
  • Re: "non-grid" volumetric data (Sat Mar 19 2011 - 04:32:27 CDT)
  • Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Fri Mar 18 2011 - 11:14:31 CDT)
  • Re: MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 14:23:30 CDT)
  • Re: pdb file with different number of molecules (Wed Mar 16 2011 - 13:20:42 CDT)
  • Re: MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 10:54:41 CDT)
  • Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 18:08:53 CDT)
  • Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 13:43:28 CDT)
  • Re: zero box vector (Sun Mar 13 2011 - 11:49:26 CDT)
  • Re: zero box vector (Sat Mar 12 2011 - 05:20:48 CST)
  • Re: tcl script (Fri Mar 11 2011 - 11:49:39 CST)
  • Re: 2 Issues in VMD 1.9 beta3 (Fri Mar 11 2011 - 08:14:02 CST)
  • Re: problem on making a movie (Fri Mar 11 2011 - 05:58:33 CST)
  • Re: Not calculate bonds by default. (Thu Mar 10 2011 - 19:08:44 CST)
  • Re: zero box vector (Thu Mar 10 2011 - 12:37:31 CST)
  • Re: Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 09:44:13 CST)
  • Re: Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 08:18:03 CST)
  • Re: tcl script (Wed Mar 09 2011 - 09:41:31 CST)
  • Re: Extra bond in TIP3 water (Wed Mar 09 2011 - 06:04:00 CST)
  • Re: how to make default background color to white (Wed Mar 09 2011 - 04:31:00 CST)
  • Re: ERROR (Wed Mar 09 2011 - 04:17:56 CST)
  • Re: how to make default background color to white (Tue Mar 08 2011 - 10:45:40 CST)
  • Re: measure energy elect vs. NAMDenergy (Tue Mar 08 2011 - 06:23:07 CST)
  • Re: Android support (Sun Mar 06 2011 - 12:38:38 CST)
  • Re: view temperature, forces and velocities (Sat Mar 05 2011 - 12:27:23 CST)
  • Re: Error in coordinate information of PDB file after merging (Wed Mar 02 2011 - 10:39:01 CST)
  • Re: VMD.RC Question (Tue Mar 01 2011 - 16:51:49 CST)
  • Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 12:33:03 CST)
  • Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 11:23:36 CST)
  • Re: Pot.dx files (Sat Feb 26 2011 - 17:29:50 CST)
  • Re: Pot.dx files (Sat Feb 26 2011 - 15:50:57 CST)
  • Re: Server for structural models of the unfolded state of proteins (Fri Feb 25 2011 - 19:48:08 CST)
  • Re: lindex related question (Fri Feb 25 2011 - 16:11:42 CST)
  • Re: lindex related question (Fri Feb 25 2011 - 15:49:48 CST)
  • Re: Adding bonds between many metal atoms (Fri Feb 25 2011 - 10:33:27 CST)
  • Re: Using the MovieMaker (Thu Feb 24 2011 - 16:57:19 CST)
  • Re: Incorrect results from 'measure dipole -masscenter' (Wed Feb 23 2011 - 09:12:37 CST)
  • Re: how to write out the dcd file by vmd python command? (Tue Feb 22 2011 - 07:19:28 CST)
  • Re: Drawing using variables (Mon Feb 21 2011 - 17:14:58 CST)
  • Re: VMD Volmap ILS Error & Orient Function (Mon Feb 21 2011 - 15:17:52 CST)
  • Re: memory leak 1.8.7 and 1.9b1 (Mon Feb 21 2011 - 10:10:41 CST)
  • Re: ParaTool (Sun Feb 20 2011 - 12:25:46 CST)
  • Re: atoms selection (Sun Feb 20 2011 - 12:18:56 CST)
  • Re: VMD Volmap ILS Error & Orient Function (Sun Feb 20 2011 - 12:32:15 CST)
  • Re: Application Error while use of Auto PSF Builder (Sun Feb 20 2011 - 09:42:19 CST)
  • Re: scripts CGTools (Fri Feb 18 2011 - 07:25:44 CST)
  • Re: VMD Volmap ILS Error & Orient Function (Thu Feb 17 2011 - 13:54:49 CST)
  • Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 10:15:08 CST)
  • Re: Dynamically updating water colors for each frame of a trajectory (Wed Feb 16 2011 - 18:01:35 CST)
  • Re: latest vmd (Sat Feb 12 2011 - 19:06:57 CST)
  • Re: setting different bond length for different atom pair (Fri Feb 11 2011 - 13:00:56 CST)
  • Re: multiple topology files and resetpsf (Tue Feb 08 2011 - 16:38:35 CST)
  • Re: Displaying an overlay of multiple structures with VMD (Tue Feb 08 2011 - 16:28:23 CST)
  • Re: VMD Volmap ILS Error (Tue Feb 08 2011 - 16:25:00 CST)
  • Re: Multiseq in text mode (Mon Feb 07 2011 - 19:33:48 CST)
  • Re: VMD Volmap ILS Error (Mon Feb 07 2011 - 19:25:54 CST)
  • Re: graphical representations over a number of molecule files (Sun Feb 06 2011 - 15:43:12 CST)
  • Re: Re: convert prmtop to psf (Wed Feb 02 2011 - 15:45:16 CST)
  • Re: Re: convert prmtop to psf (Wed Feb 02 2011 - 09:26:32 CST)
  • Re: Re: USING IED for essential dynamics in VMD (Tue Feb 01 2011 - 19:34:30 CST)
  • Re: Re: convert prmtop to psf (Tue Feb 01 2011 - 17:41:31 CST)
  • Re: water molecule count (Tue Feb 01 2011 - 11:33:34 CST)
  • Re: How to use VMD script "PorcupinePlot.tcl" (Mon Jan 31 2011 - 11:59:50 CST)
  • Re: CG Builder (Sun Jan 30 2011 - 08:54:59 CST)
  • Re: CG Builder (Sun Jan 30 2011 - 05:53:54 CST)
  • Re: Re: Trouble rendering tranparent atoms with Tachyon (Fri Jan 28 2011 - 09:56:06 CST)
  • Re: illegal stereo mode (Fri Jan 28 2011 - 09:23:45 CST)
  • Re: vrml2 output crashes VTK/Paraview (Thu Jan 27 2011 - 20:05:25 CST)
  • RE: How can I add bonds ? (Thu Jan 27 2011 - 14:49:19 CST)
  • Re: removing all water molecules (Thu Jan 27 2011 - 08:28:46 CST)
  • Re: Slower FPS in dual monitor systems? (Thu Jan 27 2011 - 08:17:19 CST)
  • Re: removing all water molecules (Thu Jan 27 2011 - 08:08:27 CST)
  • Re: Question regarding g(r) utility (Wed Jan 26 2011 - 18:35:47 CST)
  • Re: How can I add bonds ? (Wed Jan 26 2011 - 10:02:42 CST)
  • Re: duplicate frames / slow down movie (Tue Jan 25 2011 - 08:55:42 CST)
  • Re: Secondary Structure of alkane polymers (Mon Jan 24 2011 - 21:27:07 CST)
  • Re: Secondary Structure of alkane polymers (Mon Jan 24 2011 - 16:42:43 CST)
  • Re: How can I add bonds ? (Mon Jan 24 2011 - 09:58:19 CST)
  • Re: Displaying Bead and Bonds (Wed Jan 19 2011 - 14:30:29 CST)
  • Re: Where can I download VMD alpha version (Sat Jan 15 2011 - 10:45:14 CST)
  • Re: volumetric trajectory (Fri Jan 14 2011 - 12:49:50 CST)
  • Re: VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. (Wed Jan 12 2011 - 11:40:12 CST)
  • Re: namd energy plugin error: toplevel (Tue Jan 11 2011 - 09:22:22 CST)
  • Re: volumetric trajectory (Mon Jan 10 2011 - 17:29:39 CST)
  • Re: vmd with 3d vision (Fri Jan 07 2011 - 16:59:21 CST)
  • Re: vmd with 3d vision (Fri Jan 07 2011 - 16:50:24 CST)
  • Re: vmd with 3d vision (Fri Jan 07 2011 - 16:34:33 CST)
  • Re: vmd with 3d vision (Fri Jan 07 2011 - 16:20:40 CST)
  • Re: Binary request (Fri Jan 07 2011 - 08:15:18 CST)
  • Re: Binary request (Fri Jan 07 2011 - 09:01:48 CST)
  • Re: Re: How to show dynamic bonds? (Thu Jan 06 2011 - 08:27:52 CST)
  • Re: orientation of protein molecule (Wed Jan 05 2011 - 19:17:55 CST)
  • Re: VMD 1.8.7 and lammpsplugin.so error (Wed Jan 05 2011 - 16:48:16 CST)
  • Re: How to show dynamic bonds? (Tue Jan 04 2011 - 09:28:39 CST)
  • Re: (Mon Jan 03 2011 - 05:04:23 CST)
  • Re: error in the conversion of dcd to pdb files (Mon Jan 03 2011 - 04:58:45 CST)
  • Re: the IR spetra calculation module - from MD trajectory (Sat Jan 01 2011 - 16:09:04 CST)
  • Re: error in the conversion of dcd to pdb files (Fri Dec 31 2010 - 04:54:08 CST)
  • Re: Volmap Tool: Angular or spatial correlation function around a center molecule (Thu Dec 30 2010 - 14:53:56 CST)
  • Re: MOE and NAMD (Thu Dec 30 2010 - 14:43:20 CST)
  • Re: psfgen or autopsf (Sun Dec 26 2010 - 09:25:08 CST)
  • Re: conversion of gromacs trajectory file (xtc) to amber trajectory file (mdcrd) (Sat Dec 25 2010 - 11:20:06 CST)
  • Re: Bad Length and GLXBadLargeRequest errors (Thu Dec 23 2010 - 04:01:03 CST)
  • Re: Installing vmd-1.8.7 on LINUXAMD64 (Tue Dec 21 2010 - 08:49:30 CST)
  • Re: selection of amino acids with certain distance each others (Sun Dec 19 2010 - 13:59:02 CST)
  • Re: xterm (Sat Dec 18 2010 - 04:42:42 CST)
  • Re: Save Atom Selection to DCD (Thu Dec 16 2010 - 04:29:53 CST)
  • Re: Rv: Re: Phonon spectrum and VACF (Tue Dec 14 2010 - 13:08:07 CST)
  • Re: Adsorption and diffusion (Tue Dec 14 2010 - 04:21:44 CST)
  • Re: how to measure some constants (Tue Dec 14 2010 - 04:13:41 CST)
  • Re: load of information on B factor as independent file (Tue Dec 14 2010 - 02:33:54 CST)
  • Re: HBONDS bug? (Tue Dec 14 2010 - 02:36:38 CST)
  • Re: automatic PSF builder (Mon Dec 13 2010 - 04:03:50 CST)
  • Re: color change on atoms selected using mouse (Thu Dec 09 2010 - 11:04:44 CST)
  • Re: Plotting potential energy (Thu Dec 09 2010 - 05:27:57 CST)
  • Re: Phonon spectrum and VACF (Thu Dec 09 2010 - 05:26:13 CST)
  • Re: surface representation question (Thu Dec 09 2010 - 02:46:16 CST)
  • Re: RE : Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 13:44:37 CST)
  • Re: Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 10:47:31 CST)
  • Re: generating lipid membrane psf file (Thu Dec 02 2010 - 10:39:53 CST)
  • Re: Output of forces (Thu Dec 02 2010 - 04:29:05 CST)
  • Re: VASP crystal structure visualisation (Fri Nov 26 2010 - 16:11:41 CST)
  • Re: VASP crystal structure visualisation (Thu Nov 25 2010 - 17:10:04 CST)
  • Re: how to display bond btw backbone atom and sidechain atom (Wed Nov 24 2010 - 06:07:32 CST)
  • Re: Test Graphic card performance using VMD as benchmark (Fri Nov 19 2010 - 15:50:23 CST)
  • Re: .xsf triclinic cell contents (Fri Nov 19 2010 - 14:49:31 CST)
  • Re: rgyr calculation problem (Fri Nov 19 2010 - 13:35:45 CST)
  • Re: tcl script problem using -dispdev text .. (Fri Nov 19 2010 - 06:27:46 CST)
  • Re: radial distribution function from the center of mass (Thu Nov 18 2010 - 20:27:55 CST)
  • Re: radial distribution function from the center of mass (Thu Nov 18 2010 - 20:20:18 CST)
  • Re: .xsf triclinic cell contents (Thu Nov 18 2010 - 15:41:28 CST)
  • Re: does vmd allow change in volume (Thu Nov 18 2010 - 14:34:29 CST)
  • Re: tcl script problem using -dispdev text .. (Thu Nov 18 2010 - 08:28:41 CST)
  • Re: missing operator at _@_in expression "$i _@_$n" (Wed Nov 17 2010 - 10:39:07 CST)
  • Re: atom selection in vmd (Wed Nov 17 2010 - 09:56:35 CST)
  • Re: Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 10:43:38 CST)
  • Re: Headtracking software (Tue Nov 16 2010 - 10:48:32 CST)
  • Re: question on color assignment on trajectories (Mon Nov 15 2010 - 22:06:45 CST)
  • Re: Water molecules within a definite radius (Mon Nov 15 2010 - 18:34:23 CST)
  • Re: Background gradient in image (Mon Nov 15 2010 - 16:48:25 CST)
  • Re: Water molecules within a definite radius (Mon Nov 15 2010 - 16:22:49 CST)
  • Interactive MD driver/controller software no longer in beta (Fri Nov 12 2010 - 09:41:59 CST)
  • Re: rgyr calculation problem (Wed Nov 10 2010 - 12:40:40 CST)
  • Re: rgyr calculation problem (Wed Nov 10 2010 - 11:12:06 CST)
  • Re: dynamic atom selection (Tue Nov 09 2010 - 11:06:31 CST)
  • RE: Graphics card for VMD, number of atoms, file format (Tue Nov 09 2010 - 10:51:32 CST)
  • Re: dynamic atom selection (Tue Nov 09 2010 - 08:10:49 CST)
  • Re: 3D protein visualization (Mon Nov 08 2010 - 13:22:50 CST)
  • Re: Graphics card for VMD, number of atoms, file format (Mon Nov 08 2010 - 12:38:46 CST)
  • Re: regarding merging of protein and a ligand (Sat Nov 06 2010 - 16:54:53 CDT)
  • Re: rgyr calculation problem (Fri Nov 05 2010 - 17:09:31 CDT)
  • Re: VMD text mode/unwrap (Tue Nov 02 2010 - 08:43:42 CDT)
  • Re: psf format (Sun Oct 31 2010 - 13:54:12 CDT)
  • Re: Contour plots for XYZ format (Sat Oct 30 2010 - 19:17:46 CDT)
  • Re: Contour plots for XYZ format (Sat Oct 30 2010 - 10:56:04 CDT)
  • Re: menus unresponsive in ubuntu 10.10 (Sat Oct 30 2010 - 10:58:17 CDT)
  • Re: Where to download Hbond plugin (Sat Oct 30 2010 - 11:01:01 CDT)
  • Re: Reading MatStudio/ LAMMPS structures to VMD (Fri Oct 29 2010 - 11:37:11 CDT)
  • Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 13:11:30 CDT)
  • Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 09:22:13 CDT)
  • Re: Reading MatStudio/ LAMMPS structures to VMD (Tue Oct 26 2010 - 09:43:48 CDT)
  • Re: Reading MatStudio/ LAMMPS structures to VMD (Sun Oct 24 2010 - 17:02:38 CDT)
  • Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 22:04:44 CDT)
  • Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 12:53:31 CDT)
  • Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 11:02:34 CDT)
  • Re: Novint Falcon (Tue Oct 19 2010 - 08:19:49 CDT)
  • Re: Best way for model post processing? (Mon Oct 18 2010 - 12:11:55 CDT)
  • Re: psf format (Sun Oct 17 2010 - 13:36:34 CDT)
  • Re: Memory leak with "mol modselect" and index (Sun Oct 17 2010 - 13:29:22 CDT)
  • Re: Bond Colors (Thu Oct 14 2010 - 11:58:09 CDT)
  • Re: Bond Colors (Wed Oct 13 2010 - 12:38:18 CDT)
  • Re: Bond Colors (Wed Oct 13 2010 - 09:41:00 CDT)
  • Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:23:19 CDT)
  • Re: How to stop a script (eg : source myscript.tcl) ? (Mon Oct 11 2010 - 09:23:14 CDT)
  • Re: trouble with measure hbonds (Mon Oct 04 2010 - 16:02:13 CDT)
  • Re: IR Spectra plugin (Wed Sep 29 2010 - 12:03:13 CDT)
  • Re: missing atoms (Mon Sep 27 2010 - 10:29:25 CDT)
  • Re: protein breaks into parts after converting trajectory file to pdb file (Mon Sep 27 2010 - 10:32:58 CDT)
  • Re: ppmtompeg (Wed Sep 22 2010 - 10:54:35 CDT)
  • Re: vmd_pdb file format (Fri Sep 17 2010 - 12:35:27 CDT)
  • Re: maximum trajectory size? (Thu Sep 16 2010 - 16:12:11 CDT)
  • Re: compile vmd (Wed Sep 15 2010 - 13:09:28 CDT)
  • Re: Draw a box cell for a crystal (Wed Sep 15 2010 - 08:15:50 CDT)
  • Re: compile windows binary in linux (Mon Sep 13 2010 - 15:13:13 CDT)
  • Re: Visualization problem with aromatic bromo atom? (Sun Sep 12 2010 - 14:59:54 CDT)
  • (no subject) (Sun Sep 12 2010 - 12:33:25 CDT)
  • Re: Hydrogen bond angle (Fri Aug 27 2010 - 09:41:22 CDT)
  • Re: DCD Based on a parameter (Thu Aug 26 2010 - 11:11:07 CDT)
  • Re: converting old LAMMPS ASCII dumps (Tue Aug 24 2010 - 09:48:26 CDT)
  • Re: Structure won't move after loading trajectory (Mon Aug 23 2010 - 20:39:30 CDT)
  • Re: converting old LAMMPS ASCII dumps (Mon Aug 23 2010 - 20:04:32 CDT)
  • Re: OSX 10.6 support? (Mon Aug 23 2010 - 17:28:21 CDT)
  • Re: RMSF calculation: residue wise (Fri Aug 20 2010 - 12:13:21 CDT)
  • Re: VMD plus Phantom (Wed Aug 18 2010 - 14:13:53 CDT)
  • Re: tcl script (Wed Aug 18 2010 - 04:01:00 CDT)
  • Re: RSMD of coarse grained molecules (Mon Aug 16 2010 - 22:21:50 CDT)
  • Re: VMD 3D movies rendering (Mon Aug 16 2010 - 08:40:36 CDT)
  • Re: where can I download Tachyon version 0.98.10 ? (Sun Aug 15 2010 - 04:28:42 CDT)
  • Re: where can I download Tachyon version 0.98.10 ? (Sat Aug 14 2010 - 08:19:12 CDT)
  • Re: cant connect Novint Falcon with VMD (Fri Aug 13 2010 - 14:30:28 CDT)
  • Re: VMD questions about animating residue distance lines and contact maps (Fri Aug 13 2010 - 11:12:55 CDT)
  • Re: cant connect Novint Falcon with VMD (Fri Aug 13 2010 - 00:03:51 CDT)
  • Re: About Atom Index Order (Thu Aug 12 2010 - 18:20:52 CDT)
  • Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 14:22:13 CDT)
  • Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 14:37:14 CDT)
  • Re: About Atom Index Order (Thu Aug 12 2010 - 04:52:38 CDT)
  • Re: About Atom Index Order (Wed Aug 11 2010 - 22:01:11 CDT)
  • Re: Problem Material Studio/VMD (Wed Aug 11 2010 - 04:26:56 CDT)
  • Re: Solvate plug-in (Tue Aug 10 2010 - 23:28:11 CDT)
  • Re: Writing Python Plugins properly (Tue Aug 10 2010 - 21:38:07 CDT)
  • Re: Superimpose protein - plot water position - visualize water pathway (Sat Aug 07 2010 - 20:42:05 CDT)
  • Re: NAMD energy plugin (Thu Aug 05 2010 - 08:53:18 CDT)
  • Re: povray rendering help (Fri Jul 30 2010 - 08:41:35 CDT)
  • Re: "can not find channel named ... (Wed Jul 28 2010 - 06:55:13 CDT)
  • Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 09:09:19 CDT)
  • Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 08:11:34 CDT)
  • Re: trajectory sort by RMSD or other (Tue Jul 20 2010 - 17:17:33 CDT)
  • Re: trajectory sort by RMSD or other (Tue Jul 20 2010 - 13:04:57 CDT)
  • Re: Adding other online PDB data bases to VMD (Fri Jul 16 2010 - 19:58:22 CDT)
  • Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 13:05:49 CDT)
  • Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 12:47:26 CDT)
  • Re: Graphics Representation - Drawing methods (Tue Jul 13 2010 - 18:08:18 CDT)
  • Re: VMD cuda (Mon Jul 12 2010 - 16:50:26 CDT)
  • Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 16:01:03 CDT)
  • Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 09:49:19 CDT)
  • Re: color charmm dcd by kinetic energy (Mon Jul 05 2010 - 17:02:53 CDT)
  • Re: contact map (Mon Jul 05 2010 - 11:47:31 CDT)
  • Re: Conversion of DCD trajectories to AMBER ones ? (Mon Jul 05 2010 - 05:54:16 CDT)
  • Re: Re: convert prmtop to psf (Tue Jun 22 2010 - 14:01:36 CDT)
  • Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 08:45:15 CDT)
  • Re: vmd on Microsoft 2000 and Phantom (Tue Jun 22 2010 - 08:48:53 CDT)
  • Re: OpenGL Display slow/freeze (Mon Jun 21 2010 - 22:52:13 CDT)
  • Re: Re: convert prmtop to psf (Mon Jun 21 2010 - 17:25:22 CDT)
  • Re: structure file for big molecules (Sun Jun 20 2010 - 18:55:39 CDT)
  • Re: namdenergy: writepdb failed (Sun Jun 20 2010 - 08:25:03 CDT)
  • Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:10:23 CDT)
  • Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:25:36 CDT)
  • Re: visualize trajectories from lammps parallel results (Thu Jun 17 2010 - 15:34:31 CDT)
  • Re: Color by velocity (speed?) (Wed Jun 16 2010 - 13:01:21 CDT)
  • Re: particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 15:02:45 CDT)
  • Re: particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 12:56:50 CDT)
  • Re: topotools (Tue Jun 15 2010 - 12:00:00 CDT)
  • Re: topotools (Tue Jun 15 2010 - 11:31:40 CDT)
  • Re: top2psf.tcl (Tue Jun 15 2010 - 10:31:42 CDT)
  • Re: top2psf.tcl (Tue Jun 15 2010 - 08:59:42 CDT)
  • Re: top2psf.tcl (Tue Jun 15 2010 - 08:29:32 CDT)
  • Re: top2psf.tcl (Sun Jun 13 2010 - 07:19:12 CDT)
  • Re: Problems with Linux install... (Wed Jun 09 2010 - 21:26:53 CDT)
  • Re: Rending to png format using tachyon or otherwise ? (Wed Jun 09 2010 - 13:08:57 CDT)
  • Re: topotools and Partial charges (Wed Jun 09 2010 - 11:49:55 CDT)
  • Re: about vmd solvation plugin (Wed Jun 09 2010 - 07:11:11 CDT)
  • Re: about vmd solvation plugin (Sat Jun 05 2010 - 19:32:54 CDT)
  • Re: Re: Problems with Linux install... (Fri Jun 04 2010 - 14:18:40 CDT)
  • Re: Trouble compiling from source - Mac OS X (Fri Jun 04 2010 - 13:11:08 CDT)
  • Re: about ".cpmd" format (Fri Jun 04 2010 - 00:50:48 CDT)
  • Re: about paratool (Thu Jun 03 2010 - 04:59:08 CDT)
  • Re: Interaction Energy (Wed Jun 02 2010 - 17:00:48 CDT)
  • Re: Visualize intersection of overlapping spheres? (Wed Jun 02 2010 - 13:46:02 CDT)
  • Re: Compiling without graphics (Tue Jun 01 2010 - 21:55:58 CDT)
  • Re: RMSD Trajectory Tool (Tue Jun 01 2010 - 22:02:36 CDT)
  • Re: RDF and Coordination Number (Fri May 28 2010 - 08:52:10 CDT)
  • Re: Modelling program that does hydrogen adjust (Fri May 28 2010 - 08:30:34 CDT)
  • Re: Residue Number Assignment by VMD (Fri May 28 2010 - 08:24:45 CDT)
  • Re: radial distribution function problem (Wed May 26 2010 - 11:26:30 CDT)
  • Re: monomer transposes boundary box (Tue May 25 2010 - 08:29:22 CDT)
  • Re: monomer transposes boundary box (Tue May 25 2010 - 08:16:51 CDT)
  • Re: monomer transposes boundary box (Tue May 25 2010 - 08:35:22 CDT)
  • Re: Tachyon 0.9.10 and recommende version of cuda? (Mon May 24 2010 - 07:45:24 CDT)
  • Re: LAMMPS Trajectory (Sun May 23 2010 - 17:24:08 CDT)
  • Re: Atom Selection for RDF (Sat May 22 2010 - 12:46:48 CDT)
  • Re: Atom Selection for RDF (Sat May 22 2010 - 10:25:06 CDT)
  • Re: Frames-Movie (Wed May 19 2010 - 14:39:12 CDT)
  • Re: Cutting a bond (Wed May 19 2010 - 14:33:01 CDT)
  • Re: Adding an atom to the existing pdb (Wed May 19 2010 - 06:36:59 CDT)
  • Re: compile error (Tue May 18 2010 - 06:27:22 CDT)
  • Re: Radial distribution function: "y" axis (Mon May 17 2010 - 17:13:23 CDT)
  • Re: Radial distribution function: "y" axis (Sun May 16 2010 - 14:01:26 CDT)
  • Re: append pdb (Sun May 16 2010 - 11:00:52 CDT)
  • Re: Xrequest in VMD (Wed May 12 2010 - 06:44:02 CDT)
  • Re: Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 20:08:25 CDT)
  • Re: Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 19:19:21 CDT)
  • Re: units of "measure dipole" (Tue May 11 2010 - 16:23:51 CDT)
  • Re: units of "measure dipole" (Tue May 11 2010 - 15:53:29 CDT)
  • Re: units of "measure dipole" (Tue May 11 2010 - 15:29:59 CDT)
  • Re: namd-l: Atom movement within a range of Z value (Tue May 11 2010 - 15:27:44 CDT)
  • Re: LAMMPS trajectory file (Mon May 10 2010 - 23:25:23 CDT)
  • Re: Creating AVI movies (Mon May 10 2010 - 08:21:13 CDT)
  • Re: Stereoscopic visualization (Sun May 09 2010 - 14:12:14 CDT)
  • Re: Stereoscopic visualization (Sun May 09 2010 - 11:58:13 CDT)
  • Re: adding atomselections? (Sat May 08 2010 - 19:34:30 CDT)
  • Re: selecting from different molecules simultaneously (Thu May 06 2010 - 19:55:33 CDT)
  • Re: G(r) tcl script not including intramolecular correlations (Thu May 06 2010 - 19:46:26 CDT)
  • Re: selecting from different molecules simultaneously (Wed May 05 2010 - 21:39:54 CDT)
  • Re: animation with variable number/names of atoms (Tue May 04 2010 - 07:40:37 CDT)
  • Re: animation with variable number/names of atoms (Mon May 03 2010 - 16:47:05 CDT)
  • Re: ellipsoidal particles (Sun May 02 2010 - 15:08:54 CDT)
  • Re: choice of VDW radius (Fri Apr 30 2010 - 08:34:36 CDT)
  • Re: paratools charmm partial charges (Fri Apr 30 2010 - 08:38:27 CDT)
  • Re: Paratools Question (Wed Apr 28 2010 - 23:47:45 CDT)
  • Re: topotools (Wed Apr 28 2010 - 15:30:47 CDT)
  • Re: topotools (Wed Apr 28 2010 - 10:37:36 CDT)
  • Re: topotools (Wed Apr 28 2010 - 04:46:11 CDT)
  • Re: Is nvidia 3D Vision + quadro working in linux (Tue Apr 27 2010 - 18:20:38 CDT)
  • Re: Run Python Scripts in VMD on Mac OS X (Tue Apr 27 2010 - 08:38:32 CDT)
  • Re: representation question (Mon Apr 26 2010 - 15:09:17 CDT)
  • Re: Conversion of GAMESS Quantum MD trajectory file (Mon Apr 26 2010 - 15:01:16 CDT)
  • VRPN driver for Novint Falcon haptic device available - Looking for Testers (Fri Apr 23 2010 - 15:59:34 CDT)
  • Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:11:05 CDT)
  • Re: vmd does not read pqr file correct, vmd parse chain information incorrect. (Tue Apr 20 2010 - 19:18:09 CDT)
  • Re: Problem with vmd and pqr file (Sun Apr 18 2010 - 18:50:33 CDT)
  • Re: Problem with vmd and pqr file (Sun Apr 18 2010 - 11:14:01 CDT)
  • Re: Colouring atoms named with the same first letter (Fri Apr 16 2010 - 12:03:24 CDT)
  • Re: recognizing TCL variables in a matrix argument (Thu Apr 15 2010 - 19:45:15 CDT)
  • Re: how to download & install QMTool plugin (Wed Apr 14 2010 - 10:42:52 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 08:58:28 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 08:08:08 CDT)
  • Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 05:43:37 CDT)
  • Re: DynamicBonding (Fri Apr 09 2010 - 15:43:03 CDT)
  • Re: DynamicBonding (Fri Apr 09 2010 - 15:23:38 CDT)
  • Re: Turn off initial VMD animation and "menu tkcon on" problem (Fri Apr 09 2010 - 08:37:36 CDT)
  • Re: build dependency (Fri Apr 09 2010 - 04:37:59 CDT)
  • Re: question about vmd use (Fri Apr 09 2010 - 04:42:49 CDT)
  • Re: center of unit cell (Thu Apr 08 2010 - 11:13:45 CDT)
  • Re: Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 08:43:19 CDT)
  • Re: Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 06:08:23 CDT)
  • Re: Generating nanotubes psf file (Mon Apr 05 2010 - 16:05:34 CDT)
  • Re: Generating nanotubes psf file (Mon Apr 05 2010 - 14:30:21 CDT)
  • Re: Generating nanotubes psf file (Mon Apr 05 2010 - 11:56:07 CDT)
  • Re: Generating nanotubes psf file (Mon Apr 05 2010 - 09:52:55 CDT)
  • Re: [Help] cross-sections (Sun Apr 04 2010 - 05:27:44 CDT)
  • Re: Creating length dependent coloured bonds in VMD (Tue Mar 30 2010 - 15:12:28 CDT)
  • Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory (Thu Mar 25 2010 - 10:49:09 CDT)
  • Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory (Thu Mar 25 2010 - 06:01:48 CDT)
  • Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 12:04:45 CDT)
  • Re: implicit solvent (Tue Mar 23 2010 - 12:00:04 CDT)
  • Re: writepdb using selection form different molecules (Mon Mar 22 2010 - 13:16:43 CDT)
  • Re: Running IMD interactivelly under the shell (Thu Mar 18 2010 - 17:56:52 CDT)
  • Re: Running IMD interactivelly under the shell (Thu Mar 18 2010 - 16:54:42 CDT)
  • Re: was: Selecting Cl- Na; now: redefining key words in VMD (Wed Mar 17 2010 - 17:20:02 CDT)
  • Re: CGenFF atom types (Sun Mar 14 2010 - 21:19:30 CDT)
  • Re: running ILS under Windows 7 (Sun Mar 14 2010 - 14:11:16 CDT)
  • Re: Fwd: trajectory_path.tcl queries (Sun Mar 14 2010 - 10:10:02 CDT)
  • Re: Topotools1.0 (Sat Mar 13 2010 - 14:03:22 CST)
  • Re: Patch for Three or More monomers (Fri Mar 12 2010 - 11:32:10 CST)
  • Re: water molecules around proteins (Fri Mar 12 2010 - 09:20:07 CST)
  • Re: MergeStructs Plugin in text mode (Fri Mar 12 2010 - 09:11:24 CST)
  • Re: water molecules around proteins (Thu Mar 11 2010 - 11:51:01 CST)
  • Re: water molecules around proteins (Wed Mar 10 2010 - 17:41:03 CST)
  • Re: Problems with "animate next" inside for-loops (Wed Mar 10 2010 - 17:23:04 CST)
  • Re: MergeStructs Plugin in text mode (Wed Mar 10 2010 - 07:57:38 CST)
  • Re: Isosurface wraps in PME Electrostatics calc'n (Tue Mar 09 2010 - 14:59:13 CST)
  • Re: MergeStructs Plugin in text mode (Tue Mar 09 2010 - 13:24:49 CST)
  • Re: analyzing gromacs trajectory (.trr) with VMD (Tue Mar 09 2010 - 04:47:13 CST)
  • Re: trajectory_path.tcl queries (Sun Mar 07 2010 - 10:53:39 CST)
  • Re: CUDA issues (Thu Mar 04 2010 - 13:16:58 CST)
  • Re: Problem with New cartoon representation (Mon Mar 01 2010 - 03:33:05 CST)
  • Re: Rotating user-defined graphics? (Fri Feb 26 2010 - 13:24:30 CST)
  • Re: about command measure dipole (Wed Feb 24 2010 - 13:22:51 CST)
  • Re: a problem in visualizing dump files with vmd (Tue Feb 23 2010 - 05:44:27 CST)
  • Re: Numeric Library of Python for VMD 1.8.7 (Wed Feb 17 2010 - 23:36:39 CST)
  • Re: slowing down movie maker (Wed Feb 17 2010 - 21:24:14 CST)
  • Re: get view direction (Tue Feb 16 2010 - 06:21:23 CST)
  • Re: xyz file and VASP CHGCAR file do not overlap (Mon Feb 15 2010 - 11:22:28 CST)
  • Re: running namd2 on Mac PPC cluster (Sun Feb 14 2010 - 15:16:22 CST)
  • Re: top_all22_prot.inp & par_all22_prot.inp (Sun Feb 14 2010 - 13:06:20 CST)
  • Re: Retrieving an atom and its coordinates (Sat Feb 13 2010 - 17:20:59 CST)
  • Re: psfgen generates 0 atom .psf file (Fri Feb 12 2010 - 22:52:25 CST)
  • Re: xyz file and VASP CHGCAR file do not overlap (Fri Feb 12 2010 - 15:00:45 CST)
  • Re: RMSD trajectory tools (Fri Feb 12 2010 - 07:20:42 CST)
  • Re: Boolean operators and the new atomsel type (Wed Feb 10 2010 - 14:35:37 CST)
  • RE: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 08:24:14 CST)
  • Re: Blank thumbnails and non-working snapshots (Mon Feb 08 2010 - 11:47:35 CST)
  • Re: problem with generating PSF file for guanine based molecule (Sun Feb 07 2010 - 14:05:19 CST)
  • Re: molecular dipole moment (Thu Feb 04 2010 - 05:11:59 CST)
  • Re: VMD script: save coordinates problem (Mon Feb 01 2010 - 21:10:15 CST)
  • Re: running LAMMPS output via VMD (Mon Feb 01 2010 - 07:37:44 CST)
  • Re: Number of H bond formation in VMD (Fri Jan 29 2010 - 09:18:32 CST)
  • Re: About Paratool (Wed Jan 27 2010 - 04:48:11 CST)
  • Re: Number of Hydrogen Bonds among Water an Protein (Tue Jan 26 2010 - 15:39:18 CST)
  • Re: VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 (Mon Jan 25 2010 - 16:08:58 CST)
  • Re: Number of Hydrogen Bonds among Water an Protein (Mon Jan 25 2010 - 08:55:05 CST)
  • Re: Graphics card for molecular graphics (Sun Jan 24 2010 - 13:09:26 CST)
  • Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 11:42:57 CST)
  • Re: How to display real time when reading trr file? (Wed Jan 20 2010 - 05:06:06 CST)
  • Re: masure distance trajectory - delete variable (Sun Jan 17 2010 - 11:54:03 CST)
  • Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 22:36:14 CST)
  • Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 18:12:12 CST)
  • Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Fri Jan 15 2010 - 12:11:21 CST)
  • Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 09:10:27 CST)
  • Re: labeling bonds between two atoms (Thu Jan 14 2010 - 17:17:35 CST)
  • Re: Topotools plugin: guessimpropers? (Wed Jan 13 2010 - 11:08:36 CST)
  • Re: Topotools plugin: guessimpropers? (Wed Jan 13 2010 - 09:19:16 CST)
  • Re: HOOMD plugin (Tue Jan 12 2010 - 13:11:32 CST)
  • Re: PME isosurface not superimposed on protein (Mon Jan 11 2010 - 16:59:59 CST)
  • Re: vmd installation in linux (Fri Jan 08 2010 - 10:35:48 CST)
  • Re: vmd installation in linux (Fri Jan 08 2010 - 08:27:06 CST)
  • Re: allowing negative 'resid' numbers in selection strings (Fri Jan 08 2010 - 08:49:01 CST)
  • Re: VMD lammps plugin: a possible bug (Fri Jan 08 2010 - 08:19:15 CST)
  • Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 08:03:21 CST)
  • Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 06:26:43 CST)
  • Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 06:25:40 CST)
  • Re: VMD lammps plugin: a possible bug (Thu Jan 07 2010 - 12:03:23 CST)
  • Re: VMD hangs up with a file size ~ 1.2 GB ? (Thu Jan 07 2010 - 06:04:14 CST)
  • Re: VMD hangs up with a file size ~ 1.2 GB ? (Thu Jan 07 2010 - 05:55:29 CST)
  • Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 22:22:56 CST)
  • Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 10:48:28 CST)
  • Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 07:41:05 CST)
  • Re: (Tue Jan 05 2010 - 08:12:16 CST)
  • Re: vmd installation in linux (Sun Jan 03 2010 - 05:23:58 CST)
  • Re: Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Sat Jan 02 2010 - 16:24:07 CST)
  • Re: About the criterion of H bond (Sat Jan 02 2010 - 03:33:38 CST)
  • Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Fri Jan 01 2010 - 10:16:38 CST)
  • Re: Re: Superposition of Multiple Trajectory Timesteps (Thu Dec 31 2009 - 10:57:08 CST)
  • Re: Superposition of Multiple Trajectory Timesteps (Thu Dec 31 2009 - 08:08:03 CST)
  • Re: IMD in VMD (Wed Dec 30 2009 - 00:58:00 CST)
  • Re: UNIT CELL (Tue Dec 29 2009 - 10:37:59 CST)
  • Re: vmd 1.8.7 - console window fullscreen (Fri Dec 25 2009 - 02:23:27 CST)
  • Re: installation problem (Wed Dec 23 2009 - 14:30:56 CST)
  • Re: installation problem (Wed Dec 23 2009 - 02:14:47 CST)
  • Re: rdf curve (Tue Dec 22 2009 - 09:08:20 CST)
  • Re: superimposed structure (Sun Dec 20 2009 - 09:55:04 CST)
  • Re: pbc wrap center on protein (Sat Dec 19 2009 - 14:45:59 CST)
  • Re: Graphics card for VMD (Tue Dec 15 2009 - 12:26:08 CST)
  • Re: superimposed structure (Tue Dec 15 2009 - 09:34:12 CST)
  • Re: hbonds.tcl selection problem in command-line (Tue Dec 15 2009 - 06:17:46 CST)
  • Re: Counting number of water molecules (Wed Dec 09 2009 - 17:32:07 CST)
  • Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Tue Dec 08 2009 - 16:53:15 CST)
  • Re: Broken bonds in trajectory due to pbc (Tue Dec 08 2009 - 16:32:01 CST)
  • Re: building VMD is tricky -please help (Tue Dec 01 2009 - 18:31:54 CST)
  • Re: Cant start IED (Tue Dec 01 2009 - 07:26:44 CST)
  • Re: coloring by difference in beta factors (Tue Dec 01 2009 - 07:30:43 CST)
  • Re: Polyhedra with two selections? (Mon Nov 30 2009 - 05:10:54 CST)
  • Re: Color by position behavior (Sun Nov 29 2009 - 03:47:08 CST)
  • Re: problems with CG protein-lipidbilayer-water system (Sat Nov 21 2009 - 16:54:04 CST)
  • Re: aquire coordinates from the points of the solvent representation (Fri Nov 20 2009 - 13:23:11 CST)
  • Re: solvate error (Thu Nov 19 2009 - 12:29:08 CST)
  • Re: xzy format and ResType (Tue Nov 17 2009 - 14:40:46 CST)
  • Re: polymer bead spring model file format (Tue Nov 17 2009 - 12:40:49 CST)
  • Re: PBCTools-problem getting unitcell parameters (Thu Nov 12 2009 - 20:25:30 CST)
  • Re: problems displaying newcartoon representation (Thu Nov 12 2009 - 12:09:16 CST)
  • Re: bad_alloc error (Wed Nov 11 2009 - 10:43:34 CST)
  • plugin for reading (and writing) trajectories with a varying number of atoms (Fri Nov 06 2009 - 14:51:02 CST)
  • Re: running under Shell using VMD (Tue Nov 03 2009 - 21:43:33 CST)
  • Re: RBCG bead diameter (Sat Oct 31 2009 - 14:42:05 CDT)
  • Re: using NAMD with SPC water (Sat Oct 31 2009 - 14:23:13 CDT)
  • Re: namd-l: abnormal water surface after nvt and npt for POPC membrane (Wed Oct 28 2009 - 10:55:16 CDT)
  • Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 13:18:17 CDT)
  • Re: Tachyon Rendering (Tue Oct 27 2009 - 11:23:48 CDT)
  • Re: using NAMD with SPC water (Mon Oct 26 2009 - 10:42:13 CDT)
  • Re: using NAMD with SPC water (Mon Oct 26 2009 - 10:08:08 CDT)
  • Re: using NAMD with SPC water (Mon Oct 26 2009 - 08:48:24 CDT)
  • Re: VMD and Intel X3100 GPU (Sat Oct 24 2009 - 17:28:33 CDT)
  • Re: Input File Format (Wed Oct 21 2009 - 14:52:05 CDT)
  • Re: bond connectivity not displayed in VMD (Wed Oct 21 2009 - 12:58:15 CDT)
  • Re: questions (Wed Oct 21 2009 - 13:03:57 CDT)
  • Re: Atom sorting according to resid (Wed Oct 21 2009 - 11:21:58 CDT)
  • Re: Translating an atom along a specific direction and saving the pdb files (Tue Oct 20 2009 - 10:38:17 CDT)
  • Re: X server is not capable of displaying double RGB images with a Z buffer (Tue Oct 20 2009 - 10:40:59 CDT)
  • Re: NAMD can't malloc() error (Mon Oct 19 2009 - 13:29:20 CDT)
  • Re: Arbitrary values of isosurface (Mon Oct 19 2009 - 08:58:17 CDT)
  • Re: paratool: unable to load optimized geometry (Mon Oct 19 2009 - 08:51:46 CDT)
  • Re: Calculate Free Volume? (Mon Oct 19 2009 - 08:59:32 CDT)
  • Re: Re: Water Sphere Solvation (Sun Oct 18 2009 - 09:25:30 CDT)
  • Re: Question about running tcl/tk script without graphic interface (vmd option -dispdev none ...) (Fri Oct 16 2009 - 18:25:07 CDT)
  • Re: Problems with selecting atoms for representations (Tue Oct 13 2009 - 11:29:09 CDT)
  • Re: writing gromacs .trr format with nonorthorhomic cells (Tue Oct 13 2009 - 08:59:59 CDT)
  • Re: colour residues (Mon Oct 12 2009 - 19:05:13 CDT)
  • Re: covalently bonded atoms (Mon Oct 12 2009 - 12:41:31 CDT)
  • Re: format of pdb file (Mon Oct 12 2009 - 10:10:06 CDT)
  • Re: catdcd (Mon Oct 12 2009 - 10:43:42 CDT)
  • Re: Load struture form memory (Mon Oct 12 2009 - 08:35:22 CDT)
  • Re: Lipid Membrane (Mon Oct 12 2009 - 08:39:20 CDT)
  • RE: how to display the periodic box in VMD (Thu Oct 08 2009 - 14:30:27 CDT)
  • Re: how to display the periodic box in VMD (Wed Oct 07 2009 - 18:39:55 CDT)
  • Re: Bond representation of coarse grained molecules (Wed Oct 07 2009 - 09:39:42 CDT)
  • Re: How to translate my diffused protein back to COM? (Mon Oct 05 2009 - 20:31:13 CDT)
  • Re: Tracking atoms automatically (Mon Oct 05 2009 - 13:24:17 CDT)
  • Re: distance of two center of mass (Mon Oct 05 2009 - 06:04:33 CDT)
  • Re: Breaking a trajectory into separate files with tcl (Mon Oct 05 2009 - 01:41:49 CDT)
  • Re: Problems with Stride (Fri Oct 02 2009 - 13:06:45 CDT)
  • Re: Reading output of quantum packages and plotting orbitals (Fri Oct 02 2009 - 11:52:09 CDT)
  • Re: how to load an external file to user field (Thu Oct 01 2009 - 16:12:41 CDT)
  • Re: Reading output of quantum packages and plotting orbitals (Wed Sep 30 2009 - 17:38:26 CDT)
  • Re: H_Bonds (Mon Sep 28 2009 - 14:16:12 CDT)
  • Re: text timer in vmd animations (Mon Sep 28 2009 - 10:40:38 CDT)
  • Re: Return value of a vector (Mon Sep 28 2009 - 09:35:25 CDT)
  • Re: user field (Mon Sep 28 2009 - 09:28:03 CDT)
  • Re: text timer in vmd animations (Mon Sep 28 2009 - 09:30:19 CDT)
  • Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 12:16:30 CDT)
  • Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 10:02:52 CDT)
  • Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 09:11:49 CDT)
  • Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 07:55:47 CDT)
  • Re: Frame creation (Fri Sep 25 2009 - 05:14:03 CDT)
  • Re: Velocity Auto Correlation (Thu Sep 24 2009 - 21:49:01 CDT)
  • Re: Velocity Auto Correlation (Thu Sep 24 2009 - 09:30:33 CDT)
  • Re: Frame creation (Thu Sep 24 2009 - 10:13:16 CDT)
  • Re: atom selection (Mon Sep 21 2009 - 14:22:08 CDT)
  • Re: Resize window from TCL (Mon Sep 21 2009 - 13:08:14 CDT)
  • Re: automated loading (Mon Sep 21 2009 - 11:18:17 CDT)
  • Re: problem with density map obtained by volmap (Sun Sep 20 2009 - 13:44:03 CDT)
  • Re: Question about PSF generation (Sun Sep 20 2009 - 13:34:12 CDT)
  • Re: Velocity Auto Correlation (Sat Sep 19 2009 - 10:14:22 CDT)
  • Re: water molecules around proteins (Sat Sep 19 2009 - 09:55:57 CDT)
  • Re: Velocity Auto Correlation (Fri Sep 18 2009 - 16:18:44 CDT)
  • Re: Velocity Auto Correlation (Fri Sep 18 2009 - 15:36:45 CDT)
  • Re: Reading new amber prmtop formats. (Wed Sep 16 2009 - 13:28:37 CDT)
  • Re: PSF for AMBER top + crd files (Tue Sep 15 2009 - 17:10:32 CDT)
  • Re: Segmentation fault on linux Fedora 11 (Mon Sep 14 2009 - 14:45:02 CDT)
  • Re: get coordinates (Sat Sep 12 2009 - 13:01:35 CDT)
  • Re: psf for CNT? (Wed Sep 09 2009 - 10:46:49 CDT)
  • Re: VMD on Suse 11.1 w/ NVIDIA dies. (Wed Sep 09 2009 - 09:17:55 CDT)
  • Re: Bond representation of coarse grained molecules (Sat Sep 05 2009 - 14:45:59 CDT)
  • Re: VMD on Suse 11.1 w/ NVIDIA dies. (Sat Sep 05 2009 - 14:33:34 CDT)
  • Re: Script error (Tue Sep 01 2009 - 12:55:26 CDT)
  • Re: User field (Fri Aug 28 2009 - 16:14:00 CDT)
  • Re: viewing MOs (Fri Aug 28 2009 - 10:29:57 CDT)
  • Re: tinkerxyz (Tue Aug 25 2009 - 21:21:28 CDT)
  • Re: problem with 1.8.7 installation (Tue Aug 25 2009 - 06:43:51 CDT)
  • Re: Color bar (Thu Aug 20 2009 - 17:28:26 CDT)
  • Re: Pyhton Mode (Thu Aug 20 2009 - 08:10:51 CDT)
  • Re: Render command not executed (Wed Aug 19 2009 - 04:30:36 CDT)
  • Re: Turn off the autobond feature in VMD (Wed Aug 12 2009 - 09:40:08 CDT)
  • Re: Periodic Bonding (Wed Aug 12 2009 - 09:42:00 CDT)
  • Re: Why the win_version of vmd1.86 can not change to python interpreter? (Sat Aug 01 2009 - 09:30:12 CDT)
  • Re: vmd Linux 64 (Fri Jul 31 2009 - 07:50:20 CDT)
  • Re: visualization problem (Fri Jul 31 2009 - 07:44:29 CDT)
  • Re: Stripping out H20 (Sun Jul 26 2009 - 20:09:45 CDT)
  • Re: File to benchmark a new GPU system (Sun Jul 26 2009 - 20:07:37 CDT)
  • Re: PDB COORDINATES (Sun Jul 26 2009 - 19:59:55 CDT)
  • Re: Stripping out H20 (Sun Jul 26 2009 - 18:47:33 CDT)
  • Re: File to benchmark a new GPU system (Sun Jul 26 2009 - 18:22:59 CDT)
  • Re: question about atomselect and periodic condition (Fri Jul 24 2009 - 09:17:13 CDT)
  • Re: time-averaged RMSD per residue (Fri Jul 24 2009 - 09:19:52 CDT)
  • Re: Problem: VMD 1.8.7 beta 5 does not launch on AIX (Fri Jul 24 2009 - 09:22:09 CDT)
  • Re: drawing bond for coarse grained model (Thu Jul 23 2009 - 14:06:53 CDT)
  • Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 12:29:49 CDT)
  • Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 11:23:34 CDT)
  • Re: Disable the set output (Thu Jul 23 2009 - 07:45:34 CDT)
  • Re: error using Molecule.save() (vmd python) (Tue Jul 21 2009 - 08:43:21 CDT)
  • Re: IMD interface for VASP (Mon Jul 20 2009 - 19:03:45 CDT)
  • Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 15:43:56 CDT)
  • Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 11:36:28 CDT)
  • Re: VMD 1.8.7 installation problem (Mon Jul 20 2009 - 08:49:00 CDT)
  • Re: File conversion for from Amber to Charmm (Mon Jul 20 2009 - 08:54:41 CDT)
  • Re: Re PSF file generation (Mon Jul 20 2009 - 08:49:33 CDT)
  • Re: Problem With Psfgen again (Fri Jul 17 2009 - 14:37:13 CDT)
  • Re: File conversion for from Amber to Charmm (Fri Jul 17 2009 - 10:14:24 CDT)
  • Re: error after changing of PYTHONPATH variable (Fri Jul 17 2009 - 09:16:22 CDT)
  • Re: error after changing of PYTHONPATH variable (Fri Jul 17 2009 - 08:22:13 CDT)
  • Re: File conversion for from Amber to Charmm (Fri Jul 17 2009 - 07:23:35 CDT)
  • Re: Problems with psfgen (Thu Jul 16 2009 - 17:30:59 CDT)
  • Re: make movie w/ VMD in SUSE environment (Thu Jul 16 2009 - 11:40:03 CDT)
  • Re: A problem on PBC (Thu Jul 16 2009 - 11:56:57 CDT)
  • Re: ied and gypython (Thu Jul 16 2009 - 09:22:39 CDT)
  • Re: python and vmd (Wed Jul 15 2009 - 07:46:20 CDT)
  • Re: getting other variables out of LAMMPS ascii dump files (Tue Jul 14 2009 - 18:00:35 CDT)
  • Re: getting other variables out of LAMMPS ascii dump files (Mon Jul 13 2009 - 14:21:03 CDT)
  • Re: How to make a selection in atomselect using an element in a list? (Wed Jul 08 2009 - 11:17:14 CDT)
  • Re: namd-l: Re: Hardware for NAMD / VMD machine (Mon Jul 06 2009 - 16:46:40 CDT)
  • Re: NAMDenergy: problems on changing VMD version/platform (Sun Jul 05 2009 - 13:58:50 CDT)
  • Re: NAMDenergy: problems on changing VMD version/platform (Sat Jul 04 2009 - 11:54:50 CDT)
  • Re: namd-l: Hardware for NAMD / VMD machine (Fri Jul 03 2009 - 11:56:08 CDT)
  • Re: Curious about analytical capabilities of VMD (Fri Jul 03 2009 - 11:04:53 CDT)
  • Re: Manunlly Assign Secondary Structure (May Not Be Realistic) (Thu Jul 02 2009 - 14:42:30 CDT)
  • Re: superimposing proteins based on a few residues (Wed Jul 01 2009 - 17:13:25 CDT)
  • Re: Coloring atoms by a general scalar (Wed Jul 01 2009 - 08:12:52 CDT)
  • Re: Some VMD questions (Tue Jun 30 2009 - 13:56:02 CDT)
  • Re: Coloring atoms by a general scalar (Tue Jun 30 2009 - 12:53:26 CDT)
  • Re: Funny tcl/tk script behavior.... (Tue Jun 30 2009 - 09:48:45 CDT)
  • Re: atom name can not exceed four characters in pdb and psf? (Mon Jun 29 2009 - 22:32:22 CDT)
  • GPGPU Programming summer school at University of Tennessee, Aug 10-14. (Mon Jun 29 2009 - 14:44:15 CDT)
  • Re: running vmd on computer node (Mon Jun 29 2009 - 13:46:51 CDT)
  • Re: Curious about analytical capabilities of VMD (Mon Jun 29 2009 - 08:51:01 CDT)
  • Re: Curious about analytical capabilities of VMD (Fri Jun 26 2009 - 07:09:06 CDT)
  • Re: Rejecting plugin... (Wed Jun 24 2009 - 14:30:15 CDT)
  • Re: vmd error message in Fedora 11 (Wed Jun 24 2009 - 12:07:24 CDT)
  • bigdcd v3 available. testers needed. (Wed Jun 24 2009 - 09:07:14 CDT)
  • Re: alignment (Fri Jun 19 2009 - 10:56:09 CDT)
  • Re: "Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Thu Jun 18 2009 - 11:13:59 CDT)
  • Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Wed Jun 17 2009 - 12:01:30 CDT)
  • Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 22:59:20 CDT)
  • Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 07:31:03 CDT)
  • Re: "Save coordinates..." silently overwrites existing files... (Mon Jun 15 2009 - 11:29:10 CDT)
  • Re: Memory allocation problem (Mon Jun 15 2009 - 10:00:02 CDT)
  • Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Mon Jun 15 2009 - 10:18:34 CDT)
  • Re: Ho to save exactly the screen structure? (Mon Jun 15 2009 - 10:20:28 CDT)
  • Re: vmdnumpy for IED... (Sun Jun 14 2009 - 18:23:41 CDT)
  • Re: Ho to save exactly the screen structure? (Sun Jun 14 2009 - 16:58:32 CDT)
  • RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Sat Jun 13 2009 - 17:00:27 CDT)
  • Re: Tcl commands and X11 (Fri Jun 12 2009 - 13:26:59 CDT)
  • Re: FW: Unable to render electrostatic potential cube files with most non-HF densities (Thu Jun 11 2009 - 09:19:21 CDT)
  • Re: Transparency settings (Wed Jun 10 2009 - 09:38:57 CDT)
  • RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Wed Jun 10 2009 - 08:36:44 CDT)
  • Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 08:16:58 CDT)
  • Re: disulphide bond formation (Fri Jun 05 2009 - 10:45:12 CDT)
  • Re: vmd 1.8.7 - problems loading vmd state file (Fri Jun 05 2009 - 11:09:59 CDT)
  • debugging tool for atomselect (Thu Jun 04 2009 - 17:05:10 CDT)
  • Re: Energy (Wed Jun 03 2009 - 22:29:45 CDT)
  • Re: Memory Problem with tcl/tk script...(2) (Wed Jun 03 2009 - 13:57:40 CDT)
  • Re: vmd 1.8.7 - problems loading vmd state file (Wed Jun 03 2009 - 08:16:06 CDT)
  • Re: adding atoms to empty molecules (Tue Jun 02 2009 - 09:22:43 CDT)
  • Re: Memory Problem with tcl/tk script... (Tue Jun 02 2009 - 09:27:22 CDT)
  • Re: Macbook and VMD Tk windows (Fri May 29 2009 - 08:07:21 CDT)
  • Re: VMD crash (Thu May 28 2009 - 19:46:33 CDT)
  • Re: VMD crash (Thu May 28 2009 - 19:05:48 CDT)
  • Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Thu May 28 2009 - 10:31:42 CDT)
  • Re: problem with dispdev (Wed May 27 2009 - 16:20:37 CDT)
  • Re: main window missing? (Wed May 27 2009 - 16:01:33 CDT)
  • Re: Isosurface and Fieldlines Not rendered in colour (Tue May 26 2009 - 08:44:49 CDT)
  • Re: default colors (Mon May 25 2009 - 16:10:47 CDT)
  • bigdcd are related issues. was: Re: VMD 1.8.7 beta 3 posted for download... (Mon May 25 2009 - 11:42:59 CDT)
  • Re: Plugin: molfile_plugin_t filename_extension; problem and bug... (Mon May 25 2009 - 09:52:04 CDT)
  • Re: Re: abinit plugin for VMD not yet tried? (Mon May 25 2009 - 10:05:30 CDT)
  • Re: VMD 1.8.7 beta 3 posted for download... (Sun May 24 2009 - 19:52:41 CDT)
  • Re: How to compute excluded volume using volmap? (Sun May 24 2009 - 14:32:20 CDT)
  • Re: VMD crashes in VolumeSlice representation (Sun May 24 2009 - 13:49:41 CDT)
  • Re: "Determine file type" list is far too long... (Sun May 24 2009 - 11:40:33 CDT)
  • Re: Problem in loading data (Sun May 24 2009 - 11:08:09 CDT)
  • Re: "Determine file type" list is far too long... (Sun May 24 2009 - 08:52:35 CDT)
  • Re: Re: abinit plugin for VMD not yet tried? (Sun May 24 2009 - 08:38:11 CDT)
  • Re: Question3 about introducing variables in "mol selection..." (Fri May 22 2009 - 17:09:08 CDT)
  • Re: Question2 about introducing variables in "mol selection..." (Fri May 22 2009 - 16:10:24 CDT)
  • Re: Question about introducing variables in "mol selection..." (Fri May 22 2009 - 11:34:03 CDT)
  • Re: pdb file generated not readable by tleap (Fri May 22 2009 - 10:08:06 CDT)
  • Re: abinit plugin for VMD not yet tried? (Fri May 22 2009 - 10:05:14 CDT)
  • Re: bonds in .psf file (Thu May 21 2009 - 12:48:40 CDT)
  • Re: angles and dihedrals in .psf file (Thu May 21 2009 - 11:28:15 CDT)
  • Re: Adding two separate pdb files: Lipid Bilayer's with Protein's (Wed May 20 2009 - 16:34:45 CDT)
  • Re: pdb file generated not readable by tleap (Wed May 20 2009 - 16:28:54 CDT)
  • Re: Distance between COM for 2 chains for each frame of trajectory (Wed May 20 2009 - 14:05:27 CDT)
  • Re: Distance between COM for 2 chains for each frame of trajectory (Wed May 20 2009 - 12:09:39 CDT)
  • Re: how to load a state from the command line (Wed May 20 2009 - 09:51:47 CDT)
  • Re: default colors (Wed May 20 2009 - 09:38:40 CDT)
  • Re: VMD 1.8.7b3 and desktop effects on Fedora 10 (Wed May 20 2009 - 08:43:16 CDT)
  • Re: Request for change in gaussian cube reader (Tue May 19 2009 - 14:32:10 CDT)
  • Re: VMD 1.8.7 beta 3 posted for download... (Mon May 18 2009 - 20:29:44 CDT)
  • Re: VMD as a python module (Mon May 18 2009 - 09:27:16 CDT)
  • Re: vmd / python / f10 (Sun May 17 2009 - 08:37:47 CDT)
  • Re: namdenergy missing for -dispdev none (vmd 1.8.6) (Fri May 15 2009 - 13:27:22 CDT)
  • Re: Change requested in lammps plugin for VMD (Fri May 15 2009 - 12:32:48 CDT)
  • Re: adding bonds with the mouse and writing psf (Fri May 15 2009 - 10:28:59 CDT)
  • Re: How to color atom by charge (Thu May 14 2009 - 07:01:32 CDT)
  • Re: Color problem. (Wed May 13 2009 - 17:45:44 CDT)
  • Re: Can bonds radius be controlled by tcl command? (Wed May 13 2009 - 17:55:17 CDT)
  • Re: Sphere representaion with radius from pdb field "occupancy" or "temp. fac" (Wed May 13 2009 - 05:56:32 CDT)
  • Re: How to compute excluded volume using volmap? (Tue May 12 2009 - 08:47:43 CDT)
  • Re: selecting waters (Mon May 11 2009 - 13:11:50 CDT)
  • Re: calculate charges of the binding site residues with psfgen (Sun May 10 2009 - 07:00:29 CDT)
  • Re: Thiol on gold (Fri May 08 2009 - 10:17:49 CDT)
  • Re: vmd-read data from lammps (Thu May 07 2009 - 21:22:51 CDT)
  • Re: Display not updated when using move() from Python in VMD 1.8.6 (Thu May 07 2009 - 10:45:00 CDT)
  • Re: Display not updated when using move() from Python in VMD 1.8.6 (Thu May 07 2009 - 09:44:06 CDT)
  • Re: Display not updated when using move() from Python in VMD 1.8.6 (Wed May 06 2009 - 18:18:54 CDT)
  • Re: VMD 1.8.7beta1 doesn't close OpenGL window (Tue May 05 2009 - 08:26:03 CDT)
  • Re: selecting ribose atoms? (Fri May 01 2009 - 19:48:34 CDT)
  • Re: Size of a protein (Wed Apr 29 2009 - 16:50:25 CDT)
  • Re: hydrogen bonds tcl script (Tue Apr 28 2009 - 10:17:26 CDT)
  • Re: Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? (Tue Apr 28 2009 - 08:32:24 CDT)
  • Re: Manipulating dcd using script in VMD (Tue Apr 28 2009 - 08:24:04 CDT)
  • Re: graphics for publication (Fri Apr 24 2009 - 11:26:58 CDT)
  • Re: Error processing bonds (Fri Apr 24 2009 - 08:42:34 CDT)
  • Re: local packing density around a chemical group (say, a methyl group or a side chain) (Thu Apr 23 2009 - 11:27:20 CDT)
  • Re: Select atoms using coordinates (Thu Apr 23 2009 - 08:48:57 CDT)
  • Re: installed plugin won't show up next time (Thu Apr 23 2009 - 08:45:51 CDT)
  • Re: sys.argv, python and VMD (Wed Apr 22 2009 - 10:42:58 CDT)
  • Re: Secondary Structure Depiction (Tue Apr 21 2009 - 14:07:41 CDT)
  • Re: Secondary Structure Depiction (Tue Apr 21 2009 - 11:23:10 CDT)
  • Re: pbctools on alpha version (Sat Apr 18 2009 - 10:11:47 CDT)
  • Re: Possible bug in vmd 1.8.7 alpha? (Sat Apr 18 2009 - 10:15:24 CDT)
  • Re: display all frames simultaneously (Thu Apr 16 2009 - 22:11:12 CDT)
  • Re: Problem in finding the HBonds (Wed Apr 15 2009 - 07:56:52 CDT)
  • Re: (Tue Apr 14 2009 - 07:25:54 CDT)
  • Re: install plugin: problems with vmd_install_extension (Fri Apr 10 2009 - 10:13:57 CDT)
  • Re: install plugin: problems with vmd_install_extension (Fri Apr 10 2009 - 09:10:13 CDT)
  • Re: within, used with pbcwrap (Fri Apr 10 2009 - 09:03:36 CDT)
  • Re: about TkConsole (Tue Apr 07 2009 - 21:32:40 CDT)
  • Re: about TkConsole (Tue Apr 07 2009 - 12:58:48 CDT)
  • Re: OS X intel binary problem (Sun Apr 05 2009 - 09:48:37 CDT)
  • Re: too many bonds (Sun Apr 05 2009 - 08:57:59 CDT)
  • Re: OS X intel binary problem (Sun Apr 05 2009 - 09:05:07 CDT)
  • Re: Problem with autoionize ? (Thu Apr 02 2009 - 11:46:33 CDT)
  • Re: Problem with autoionize ? (Thu Apr 02 2009 - 09:25:33 CDT)
  • Re: How to add heme to dowser plugin? (Mon Mar 30 2009 - 20:24:24 CDT)
  • Re: openGL library (Thu Mar 26 2009 - 20:20:31 CDT)
  • Re: howto select stain reveal map (Thu Mar 26 2009 - 06:41:07 CDT)
  • Re: how to block psfgen warning messages (Wed Mar 25 2009 - 17:17:19 CDT)
  • Re: merging atomselection (Wed Mar 25 2009 - 17:20:45 CDT)
  • Re: Command line argument (Wed Mar 25 2009 - 10:57:22 CDT)
  • Re: vmd_plot (Wed Mar 25 2009 - 07:47:14 CDT)
  • Re: building VMD on LINUX (Tue Mar 17 2009 - 08:58:38 CDT)
  • Re: rlwrap bug in Ubuntu (Sun Mar 15 2009 - 15:14:45 CDT)
  • Re: rlwrap bug in Ubuntu (Sun Mar 15 2009 - 09:32:49 CDT)
  • Re: regarding draw_arrow.tcl (Fri Mar 13 2009 - 09:51:23 CDT)
  • Re: regarding draw_arrow.tcl (Wed Mar 11 2009 - 11:30:30 CDT)
  • Re: How to use " segment " in tcl script. (Wed Mar 11 2009 - 10:15:05 CDT)
  • Re: obj export (Tue Mar 10 2009 - 10:25:07 CDT)
  • Re: obj export (Tue Mar 10 2009 - 09:24:01 CDT)
  • Re: charmm binary ele. pot. (Mon Mar 09 2009 - 13:59:25 CDT)
  • <please insert a decent subject here next time, thanks> (Mon Mar 09 2009 - 12:08:49 CDT)
  • Re: charmm binary ele. pot. (Mon Mar 09 2009 - 11:57:21 CDT)
  • Re: correlation (Sun Mar 08 2009 - 10:33:03 CDT)
  • Re: problem with Dowser (Sat Mar 07 2009 - 20:18:42 CST)
  • Re: Display issue on VMD for Linux (Wed Mar 04 2009 - 21:55:04 CST)
  • Re: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 08:55:24 CST)
  • Re: OpenGL Window (Wed Mar 04 2009 - 07:55:24 CST)
  • Re: select atoms (Mon Mar 02 2009 - 20:24:55 CST)
  • Re: Help: Installation Problem (Sat Feb 28 2009 - 07:45:27 CST)
  • Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 22:01:19 CST)
  • Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 20:47:32 CST)
  • Re: (Fri Feb 27 2009 - 14:48:42 CST)
  • Re: Displaying local water molecules throughout trajectory (Thu Feb 26 2009 - 15:20:50 CST)
  • Re: Help: Installation Problem (Thu Feb 26 2009 - 10:57:30 CST)
  • Re: embed VMD in web page (Wed Feb 25 2009 - 12:03:34 CST)
  • Re: question about "measure dihed" with COM points (Tue Feb 24 2009 - 19:51:15 CST)
  • Re: Adding a Water Box (Mon Feb 23 2009 - 19:00:55 CST)
  • Re: Can you show me an example of the .xyz file that is used to calculate the IR spectrum (Mon Feb 23 2009 - 14:46:18 CST)
  • Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 10:20:55 CST)
  • Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 09:15:44 CST)
  • Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 09:08:58 CST)
  • Re: a way to create a nice image (Sun Feb 22 2009 - 11:16:17 CST)
  • Re: a way to create a nice image (Sat Feb 21 2009 - 11:03:44 CST)
  • Re: transparent background (Fri Feb 20 2009 - 14:39:17 CST)
  • Re: converting trajectory files with catdcd in command line (Fri Feb 20 2009 - 08:02:38 CST)
  • Re: "pbcwithin" keyword (Thu Feb 19 2009 - 11:00:48 CST)
  • Re: change cylinder surface properties (Mon Feb 16 2009 - 18:29:11 CST)
  • Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 12:26:19 CST)
  • Re: installation (Sun Feb 15 2009 - 12:46:34 CST)
  • Re: problem (Wed Feb 11 2009 - 09:01:42 CST)
  • Re: Flow Fields (Tue Feb 10 2009 - 16:53:19 CST)
  • Re: How to specify processors for running VMD on a cluster? (Tue Feb 10 2009 - 15:35:46 CST)
  • Re: How to specify processors for running VMD on a cluster? (Tue Feb 10 2009 - 12:24:58 CST)
  • Re: multiplot : integration of undrawing command (?) (Sun Feb 08 2009 - 23:48:49 CST)
  • Re: Progress Bar for the Elapsed Time: rendering problem (Thu Feb 05 2009 - 17:23:40 CST)
  • Re: trajectory path script (Thu Feb 05 2009 - 11:39:06 CST)
  • Re: property iterate over a range (representation / draw style) (Tue Feb 03 2009 - 12:10:49 CST)
  • Re: deleting specific residues or atoms (Tue Feb 03 2009 - 10:55:28 CST)
  • Re: scriptable way to add hydrogens (Sat Jan 31 2009 - 17:35:53 CST)
  • Re: how to set color parameters differently for different molecules (Thu Jan 29 2009 - 20:35:35 CST)
  • Re: VMD & NAMD atoms naming convention? (Tue Jan 27 2009 - 08:35:34 CST)
  • Re: get a PDB file from DCD file (Tue Jan 27 2009 - 08:42:18 CST)
  • Re: Re: How to change title of display window? (Mon Jan 26 2009 - 12:13:13 CST)
  • Re: Re: How to change title of display window? (Sun Jan 25 2009 - 21:08:18 CST)
  • Re: how to set color parameters differently for different molecules (Sun Jan 25 2009 - 13:18:10 CST)
  • Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Fri Jan 23 2009 - 16:20:30 CST)
  • Re: VMD not loading in Suse 11.1 (Fri Jan 23 2009 - 09:04:18 CST)
  • Re: Breaking Bonds in VMD (Tue Jan 20 2009 - 17:21:16 CST)
  • Re: Test builds of VMD 1.8.7 using Tcl/Tk 8.5.x... (Tue Jan 20 2009 - 17:31:19 CST)
  • Re: Problems with tcl/tk 8.5 (Tue Jan 20 2009 - 08:53:02 CST)
  • Re: VMD plugin for Desmond (Tue Jan 20 2009 - 08:58:24 CST)
  • Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 08:56:12 CST)
  • Re: Fwd: Tcl script (Tue Jan 20 2009 - 08:49:21 CST)
  • Re: Download the newest version of VMD (Mon Jan 19 2009 - 10:09:33 CST)
  • Re: XYZ trajectory with different atom types? (Fri Jan 16 2009 - 14:00:00 CST)
  • Re: Data fields in vmd (Thu Jan 15 2009 - 14:10:26 CST)
  • Re: Understanding topology files? (Thu Jan 15 2009 - 14:06:16 CST)
  • Re: Data fields in vmd (Wed Jan 14 2009 - 14:56:10 CST)
  • Re: updating DCD frames in python (Wed Jan 14 2009 - 11:11:45 CST)
  • Re: center of mass (Mon Jan 12 2009 - 14:37:05 CST)
  • Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 14:32:27 CST)
  • Re: VMD for Linux (Mon Jan 12 2009 - 09:11:00 CST)
  • Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 09:05:41 CST)
  • Re: : about complexing protein and ligand! (Mon Jan 12 2009 - 08:54:21 CST)
  • Re: odd render problems with Vista (Sun Jan 11 2009 - 14:37:10 CST)
  • Re: odd render problems with Vista (Sun Jan 11 2009 - 14:27:58 CST)
  • Re: putting a set of selections in a list or an array (Sun Jan 11 2009 - 13:53:41 CST)
  • Re: cube file question (Fri Jan 09 2009 - 08:23:16 CST)
  • Re: Functional Groups (Fri Jan 09 2009 - 08:16:12 CST)
  • Re: measure rmsf - command (step argument) (Wed Jan 07 2009 - 10:44:18 CST)
  • Re: Large dcd file (Tue Jan 06 2009 - 19:04:46 CST)
  • Re: Large dcd file (Tue Jan 06 2009 - 19:01:25 CST)
  • Re: eliminate atoms from psf and pdb files (Tue Jan 06 2009 - 12:33:37 CST)
  • Re: changing bond color (Tue Jan 06 2009 - 12:30:19 CST)
  • Re: tcl scripts in parallel in VMD? (Tue Jan 06 2009 - 10:06:25 CST)
  • Re: list of all the file type keywords for "mol load"? (Mon Jan 05 2009 - 10:44:03 CST)
  • Re: I need a bid trajectory please!!! (Fri Dec 26 2008 - 14:20:38 CST)
  • Re: Space distribution functions (Fri Dec 26 2008 - 14:15:58 CST)
  • Re: beta column format in PDB (Wed Dec 24 2008 - 15:53:27 CST)
  • Re: beta column format in PDB (Wed Dec 24 2008 - 14:33:53 CST)
  • Re: CHARMM to AMBER trajectory conversion (Fri Dec 19 2008 - 09:56:01 CST)
  • Re: QM Geometry optimization (Wed Dec 17 2008 - 13:53:09 CST)
  • Re: QM Geometry optimization (Wed Dec 17 2008 - 09:23:33 CST)
  • Re: the exact definition of the keyword "radius" of the atom selection (Sat Dec 13 2008 - 16:37:11 CST)
  • Re: To find the residues on each side of the protein (Wed Dec 03 2008 - 05:17:48 CST)
  • Re: memory leak found (Tue Dec 02 2008 - 12:58:25 CST)
  • Re: Rotation of molecules (Tue Dec 02 2008 - 11:29:25 CST)
  • Re: memory leak found (Tue Dec 02 2008 - 11:23:28 CST)
  • Re: transparent or translucent backgrond for images (Sun Nov 30 2008 - 05:37:01 CST)
  • Re: how to prevent view reset on data load (Sun Nov 30 2008 - 05:46:45 CST)
  • Re: tcl fscript or Removeing protein flucutation (Wed Nov 26 2008 - 10:24:18 CST)
  • Re: Other color scales than the predefined ones? (Wed Nov 26 2008 - 10:21:02 CST)
  • Re: Movie of a xyz trajectory (Wed Nov 26 2008 - 05:12:34 CST)
  • Re: view only parts of the loaded volumetric data (Fri Nov 21 2008 - 05:01:21 CST)
  • Re: Loading .vel file in VMD (Fri Nov 21 2008 - 03:45:39 CST)
  • Re: question (Thu Nov 20 2008 - 11:55:59 CST)
  • Re: running a script (Thu Nov 20 2008 - 11:54:38 CST)
  • Re: representation ColorID in Tcl (Wed Nov 19 2008 - 12:24:51 CST)
  • Re: General question about the memory usage of VMD (Mon Nov 17 2008 - 14:31:02 CST)
  • Re: how to run catdcd from within a proc (Mon Nov 17 2008 - 12:48:52 CST)
  • Re: wavefront and VMD (Mon Nov 17 2008 - 09:12:55 CST)
  • Re: movie (Sun Nov 09 2008 - 11:56:35 CST)
  • Re: Sequentially numbering atom names in pdb file (Wed Nov 05 2008 - 16:24:57 CST)
  • Re: [Fwd: problems with manipulating control switches on VMS main menu] (Fri Oct 31 2008 - 18:05:46 CDT)
  • Re: Per-frame 'graphics'? (Fri Oct 31 2008 - 16:59:44 CDT)
  • Re: reading multiples molecules. (Wed Oct 29 2008 - 11:07:55 CDT)
  • Re: reading multiples molecules. (Wed Oct 29 2008 - 10:14:50 CDT)
  • Re: Render surface colored by electrostatic potential (Tue Oct 28 2008 - 14:03:47 CDT)
  • Re: move matrix definition (Tue Oct 28 2008 - 12:14:13 CDT)
  • Re: using the beta and occupancy columns as state variables (Tue Oct 28 2008 - 09:17:03 CDT)
  • Re: reading multiples molecules. (Tue Oct 28 2008 - 09:20:54 CDT)
  • Re: A question about the namd energy plugin of VMD (Sun Oct 26 2008 - 13:12:06 CDT)
  • Re: PBCtools verison 2.3: how to obtain it? (Fri Oct 24 2008 - 10:32:16 CDT)
  • Re: advanced selections (or explicit pair list) for measure gofr ? (Fri Oct 24 2008 - 10:31:13 CDT)
  • Re: independent stereo display (Thu Oct 23 2008 - 14:15:13 CDT)
  • Re: dcd format (Wed Oct 22 2008 - 15:59:08 CDT)
  • Re: dcd format (Wed Oct 22 2008 - 14:17:22 CDT)
  • RE: dcd format (Wed Oct 22 2008 - 12:49:56 CDT)
  • Re: fitting structure to map generated by Volmap (Wed Oct 22 2008 - 10:38:15 CDT)
  • Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 15:53:07 CDT)
  • Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 14:53:57 CDT)
  • Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 09:01:22 CDT)
  • Re: feature request (Sun Oct 19 2008 - 13:26:42 CDT)
  • Re: Catdcd? (Thu Oct 16 2008 - 13:23:14 CDT)
  • RE: Problem in text mode (Thu Oct 16 2008 - 09:53:50 CDT)
  • Re: saving trajectories from the command line (Thu Oct 16 2008 - 09:11:17 CDT)
  • Re: velocity calculations (Wed Oct 15 2008 - 11:20:33 CDT)
  • Re: Deleting frames / molecules does not free up memory! (Tue Oct 14 2008 - 11:13:11 CDT)
  • Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? (Mon Oct 13 2008 - 18:23:35 CDT)
  • Re: How to specify color based on dihedral angle? (Mon Oct 13 2008 - 14:25:11 CDT)
  • Re: CHARMM TO AMBER FORMAT CONVERT (Sun Oct 12 2008 - 19:26:18 CDT)
  • Re: intersurf in vmd (Sat Oct 11 2008 - 18:44:10 CDT)
  • Re: STRIDE analysis of beta-sheets in VMD (Fri Oct 10 2008 - 16:50:59 CDT)
  • Re: Density distribution plots (Fri Oct 10 2008 - 16:26:20 CDT)
  • Re: Question about the Main Menu window display (Fri Oct 10 2008 - 14:47:28 CDT)
  • Re: loading python (Fri Oct 10 2008 - 11:37:28 CDT)
  • Re: loading python (Thu Oct 09 2008 - 16:31:13 CDT)
  • Re: Density distribution plots (Thu Oct 09 2008 - 14:14:57 CDT)
  • Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS (Wed Oct 08 2008 - 20:57:54 CDT)
  • Re: pbctools usage (Wed Oct 08 2008 - 10:23:44 CDT)
  • Re: lipid tail selection (Mon Oct 06 2008 - 09:18:15 CDT)
  • Re: atom type (Thu Oct 02 2008 - 13:16:47 CDT)
  • Re: volumetric maps (Thu Oct 02 2008 - 10:57:45 CDT)
  • Re: (Sun Sep 28 2008 - 13:15:18 CDT)
  • Re: visualisation problem with bonds and PBC (Fri Sep 26 2008 - 11:46:39 CDT)
  • Re: viewing an embryo (Tue Sep 23 2008 - 15:10:02 CDT)
  • Re: trouble with running vmd after installation , machine gets hung (Sun Sep 21 2008 - 03:13:41 CDT)
  • Re: trouble with running vmd after installation , machine gets hung (Fri Sep 19 2008 - 06:05:42 CDT)
  • Re: Alias histidine residue (Sat Sep 13 2008 - 09:09:31 CDT)
  • Re: Rendering problem (Fri Sep 12 2008 - 01:25:43 CDT)
  • Re: long bonds (Wed Sep 10 2008 - 10:23:18 CDT)
  • Re: saving charges (Mon Sep 08 2008 - 14:13:46 CDT)
  • Re: Superimposition: atomselect for reverse topology (Sun Sep 07 2008 - 14:09:44 CDT)
  • Re: generate psf structure (Sun Sep 07 2008 - 13:50:39 CDT)
  • Re: how to draw the bonds in VMD? (Sun Sep 07 2008 - 13:41:30 CDT)
  • Re: Running without interface (Thu Sep 04 2008 - 12:06:44 CDT)
  • Re: newbie issues (Tue Sep 02 2008 - 14:10:19 CDT)
  • Re: Merge psf and pdb (Tue Sep 02 2008 - 10:46:07 CDT)
  • Re: Merge psf and pdb (Tue Sep 02 2008 - 08:15:39 CDT)
  • Re: TXT program editor (Thu Aug 28 2008 - 17:51:39 CDT)
  • Re: TXT program editor (Thu Aug 28 2008 - 15:50:21 CDT)
  • Re: namd-l: diffusion coefficient from rmsd (Wed Aug 27 2008 - 22:39:52 CDT)
  • Re: resid of water that is hydrogen bonded (Mon Aug 25 2008 - 14:56:41 CDT)
  • Re: measure gofr - how is g(r) normalised? (Mon Aug 25 2008 - 15:14:35 CDT)
  • Re: Failure to open PDB files (Mon Aug 25 2008 - 14:52:38 CDT)
  • Re: Trouble updating frames in script (Tue Aug 19 2008 - 15:14:42 CDT)
  • Re: Trouble updating frames in script (Tue Aug 19 2008 - 13:06:44 CDT)
  • Re: how to call dssp in a script (Mon Aug 18 2008 - 10:42:14 CDT)
  • Re: Question about trace vmd_frame(molid) (Fri Aug 15 2008 - 13:55:54 CDT)
  • Re: Question about trace vmd_frame(molid) (Fri Aug 15 2008 - 12:12:03 CDT)
  • Re: LAMMPS Trajectory Bond Specification (Thu Aug 14 2008 - 16:24:13 CDT)
  • Re: protein-water hydrogen bonds (Tue Aug 12 2008 - 10:53:35 CDT)
  • Re: protein-water hydrogen bonds (Tue Aug 12 2008 - 10:37:45 CDT)
  • Re: rdf for big systems (Mon Aug 11 2008 - 13:35:11 CDT)
  • Re: save selected residues (Mon Aug 11 2008 - 11:01:48 CDT)
  • Re: problem controlling orientation of the simulation box drawn by pbctools (Sun Aug 10 2008 - 11:11:34 CDT)
  • Re: save selected residues (Sun Aug 10 2008 - 09:48:15 CDT)
  • Re: How to embed 3-D image into powerpoint (Mon Aug 04 2008 - 15:57:41 CDT)
  • Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 16:29:59 CDT)
  • Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 10:00:18 CDT)
  • Re: vmd-rmsd-color-tool (Fri Aug 01 2008 - 09:27:35 CDT)
  • Re: ionize with VMD a TOP file (Fri Aug 01 2008 - 09:28:58 CDT)
  • Re: Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 19:51:10 CDT)
  • Re: Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 19:11:11 CDT)
  • Re: VMD with amber rst7 and parm7 files (Thu Jul 31 2008 - 09:02:29 CDT)
  • Re: g(r) (Thu Jul 31 2008 - 08:57:34 CDT)
  • Re: Vmd on Fedora 9 (Wed Jul 30 2008 - 15:24:29 CDT)
  • Re: g(r) (Wed Jul 30 2008 - 14:31:55 CDT)
  • Re: Vmd on Fedora 9 (Wed Jul 30 2008 - 12:18:11 CDT)
  • Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" (Tue Jul 29 2008 - 20:40:30 CDT)
  • Re: Re: periodic boundary conditions (yes, i read the tutorials) (Mon Jul 28 2008 - 20:44:41 CDT)
  • Re: solvating protein, fixed residue (Mon Jul 28 2008 - 13:52:42 CDT)
  • Re: solvation and box size (Mon Jul 28 2008 - 06:30:07 CDT)
  • Re: Python for OS X (Sat Jul 26 2008 - 12:56:18 CDT)
  • Re: questions relating to VolMapTool (Wed Jul 23 2008 - 06:30:55 CDT)
  • Re: Selecting the sides of a benzene ring (Wed Jul 23 2008 - 06:36:25 CDT)
  • Re: rdf for big systems (Tue Jul 22 2008 - 19:09:09 CDT)
  • Re: rdf for big systems (Tue Jul 22 2008 - 17:06:30 CDT)
  • Re: Creating a VMD movie from a Tcl script (Tue Jul 22 2008 - 15:59:42 CDT)
  • Re: vecsub command (Tue Jul 22 2008 - 11:48:31 CDT)
  • Re: Selecting the sides of a benzene ring (Tue Jul 22 2008 - 11:45:54 CDT)
  • Re: Periodic image and transformation matrix (Mon Jul 21 2008 - 19:50:24 CDT)
  • Re: Missing angles and dihedrals (Mon Jul 21 2008 - 19:31:48 CDT)
  • Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 14:13:59 CDT)
  • Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 14:09:46 CDT)
  • Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 12:01:22 CDT)
  • Re: real coordinates (Fri Jul 18 2008 - 12:08:25 CDT)
  • Re: Tetrahedral representation (Wed Jul 16 2008 - 18:24:09 CDT)
  • Re: Problem writing trajectory to "crd" (Amber) format? (Wed Jul 16 2008 - 09:31:59 CDT)
  • Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:39:06 CDT)
  • Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:21:57 CDT)
  • Re: Fwd: PDB Bonds versus "distance" bonds (Tue Jul 15 2008 - 11:20:53 CDT)
  • Re: speed of movie (Sun Jul 13 2008 - 15:49:02 CDT)
  • Re: pick atom id script (Fri Jul 11 2008 - 09:37:49 CDT)
  • Re: trajectory to xyz file. (Mon Jul 07 2008 - 15:11:30 CDT)
  • Re: Dihedrale angles in VMD (Thu Jul 03 2008 - 12:24:16 CDT)
  • Re: Loading Problem (Thu Jul 03 2008 - 12:28:18 CDT)
  • Re: The maximal size which can be displayed by VMD? (Wed Jul 02 2008 - 16:36:57 CDT)
  • Re: VMDMODULATERIBBON or sausage representation (Tue Jul 01 2008 - 14:07:42 CDT)
  • Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd (Mon Jun 30 2008 - 13:17:20 CDT)
  • Re: Error using namdstat.tcl script (Mon Jun 30 2008 - 11:42:26 CDT)
  • Re: Problem of Movie Maker Plugin (Sat Jun 28 2008 - 11:19:02 CDT)
  • Re: how to make a movie of 2 or more trajectories (Fri Jun 27 2008 - 20:57:18 CDT)
  • Re: mutate by D-residues... (Fri Jun 27 2008 - 20:47:58 CDT)
  • Re: select cylindrical slab (Fri Jun 27 2008 - 12:51:26 CDT)
  • Re: Compiling from source on Mac OS X 10.5 (Fri Jun 27 2008 - 14:23:44 CDT)
  • Re: Compiling from source on Mac OS X 10.5 (Fri Jun 27 2008 - 13:54:36 CDT)
  • Re: vmd shuts itself down (Fri Jun 27 2008 - 09:23:12 CDT)
  • Re: How to delete anwanted waters in a special area ? (Wed Jun 25 2008 - 11:51:29 CDT)
  • Re: How to visualize iron and chlorine properly. (Mon Jun 23 2008 - 10:13:41 CDT)
  • Re: Re: Re: PSF works in NAMD but not in VMD (Mon Jun 23 2008 - 10:18:33 CDT)
  • Re: Inquiry concerning the plugin "Inorganic builder" (Mon Jun 23 2008 - 10:11:04 CDT)
  • Re: how to export into postscript with MultiPlot in tcl mode? (Mon Jun 23 2008 - 10:03:21 CDT)
  • Re: Re: PSF works in NAMD but not in VMD (Fri Jun 20 2008 - 09:57:37 CDT)
  • Re: displaying hydrogen bonds when hydrogens are not available (Thu Jun 19 2008 - 09:31:53 CDT)
  • Re: About occupancy volume maps (Thu Jun 19 2008 - 05:20:24 CDT)
  • Re: Labelling Coordinates (not Atoms) (Wed Jun 18 2008 - 18:43:57 CDT)
  • Re: render "color by volume" (Tue Jun 17 2008 - 18:34:28 CDT)
  • Re: specify a rtf file when generating a psf file. (Tue Jun 17 2008 - 14:50:55 CDT)
  • Re: render "color by volume" (Tue Jun 17 2008 - 14:51:28 CDT)
  • Re: opening gromacs .gro file gives warning messsage and does not display the molecule (Tue Jun 17 2008 - 09:11:03 CDT)
  • Re: Question: Too many arguments (Mon Jun 16 2008 - 09:45:36 CDT)
  • Re: User defined charges with PMEpot (Fri Jun 13 2008 - 07:34:42 CDT)
  • Re: User defined charges with PMEpot (Thu Jun 12 2008 - 22:24:15 CDT)
  • Re: problem loading trajectory in VMD under windows XP (Tue Jun 10 2008 - 20:21:24 CDT)
  • Re: IED on MacOSX 10.3.9 (Tue Jun 10 2008 - 07:03:30 CDT)
  • Re: Image rendering using pov-ray (Mon Jun 09 2008 - 21:34:57 CDT)
  • Re: Image rendering using pov-ray (Mon Jun 09 2008 - 21:30:35 CDT)
  • Re: Dipole moment? (Sat Jun 07 2008 - 12:47:19 CDT)
  • Re: Total list of Tcl features (Sat Jun 07 2008 - 09:41:05 CDT)
  • Re: Total list of Tcl features (Sat Jun 07 2008 - 10:21:27 CDT)
  • Re: Solvation (Fri Jun 06 2008 - 09:04:27 CDT)
  • Re: Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 16:17:25 CDT)
  • Re: Create atom selection from list of integers (Mon Jun 02 2008 - 11:08:16 CDT)
  • Re: silly rmsd script doesn' t work ... (Fri May 30 2008 - 07:49:45 CDT)
  • Re: Exceeded maximum number of bonds (Thu May 29 2008 - 13:54:24 CDT)
  • Re: [lammps-users] MDAnalysis (slightly OT) (Tue May 27 2008 - 12:54:41 CDT)
  • Re: IMD per TCL (Tue May 27 2008 - 04:39:51 CDT)
  • Re: Label on Movie (Mon May 26 2008 - 14:06:52 CDT)
  • Re: Label on Movie (Mon May 26 2008 - 12:02:08 CDT)
  • Re: mass weighted rms fit (Sun May 25 2008 - 11:20:56 CDT)
  • Re: How to discard certain atoms (Sun May 25 2008 - 07:59:23 CDT)
  • Re: Measure gofr with large DCD files (Possibly use bigdcd ???) (Fri May 23 2008 - 18:59:33 CDT)
  • Re: Movies using Cygwin's ImageMagick? (Thu May 22 2008 - 09:33:30 CDT)
  • Re: Crystal water (Thu May 22 2008 - 05:23:24 CDT)
  • Re: scale trajectory coords (Wed May 21 2008 - 22:58:01 CDT)
  • Re: your mail (Wed May 21 2008 - 09:17:12 CDT)
  • Re: Using NAMD Energy Plugin (Tue May 20 2008 - 07:42:39 CDT)
  • Re: plot residues without hydrogen atoms (Tue May 20 2008 - 07:40:19 CDT)
  • Re: Color of bond betwen atoms with different colors (Fri May 16 2008 - 16:35:50 CDT)
  • Re: Slow tcl/tk script for trajectory analysis (Fri May 16 2008 - 14:46:11 CDT)
  • Re: Draw in a new layer problems (Fri May 16 2008 - 10:48:12 CDT)
  • Re: membrane builder (Tue May 13 2008 - 17:31:47 CDT)
  • Re: Bond lengths from PDB and PSF (Mon May 12 2008 - 17:32:55 CDT)
  • Re: 'within' command in VMD (Sun May 11 2008 - 13:22:18 CDT)
  • Re: Recompile VMD with larger index types (Sun May 11 2008 - 11:18:17 CDT)
  • Re: 'within' command in VMD (Sun May 11 2008 - 03:35:53 CDT)
  • Re: Recompile VMD with larger index types (Sat May 10 2008 - 10:19:36 CDT)
  • bigdcd v2.0 testers needed... (Wed May 07 2008 - 15:21:47 CDT)
  • Re: Writepdb with Solvation Box (Tue May 06 2008 - 13:25:34 CDT)
  • Re: memorry problem (Fri May 02 2008 - 15:04:02 CDT)
  • Re: problem using pbc wrap (Tue Apr 29 2008 - 06:49:20 CDT)
  • Re: Can not enter text in VMD plugin window (Fri Apr 25 2008 - 21:52:12 CDT)
  • Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 17:29:10 CDT)
  • Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 14:45:02 CDT)
  • Re: problem with "within" command of VMD (Thu Apr 24 2008 - 08:43:19 CDT)
  • Re: resolution screen in Linux (Thu Apr 24 2008 - 08:15:59 CDT)
  • Re: measure distance (Wed Apr 23 2008 - 09:04:00 CDT)
  • Re: memorry problem (Wed Apr 23 2008 - 06:58:42 CDT)
  • Re: bug in the g(r) evaluation? (Tue Apr 22 2008 - 14:32:07 CDT)
  • Re: bug in the g(r) evaluation? (Tue Apr 22 2008 - 10:10:35 CDT)
  • Re: warnings during plugin build (Tue Apr 22 2008 - 05:39:59 CDT)
  • RE: warnings during plugin build (Mon Apr 21 2008 - 18:45:50 CDT)
  • RE: warnings during plugin build (Sun Apr 20 2008 - 13:33:29 CDT)
  • RE: warnings during plugin build (Sat Apr 19 2008 - 18:40:41 CDT)
  • Re: warnings during plugin build (Sat Apr 19 2008 - 09:21:04 CDT)
  • Re: RMSD between two structures without the same number of atoms (Fri Apr 18 2008 - 09:20:29 CDT)
  • Re: PPMTOMPEG Quality (Thu Apr 17 2008 - 16:23:34 CDT)
  • Re: atomselect (Thu Apr 17 2008 - 11:07:27 CDT)
  • Re: measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 04:52:29 CDT)
  • Re: Trajectory title (Wed Apr 16 2008 - 11:06:05 CDT)
  • Re: Timer in VMD (Tue Apr 15 2008 - 18:58:46 CDT)
  • Re: catDCD (Mon Apr 14 2008 - 12:08:34 CDT)
  • Re: compilation with python 2.5 and file permissions from the CVS repository (Mon Apr 14 2008 - 05:16:19 CDT)
  • RE: compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 15:00:12 CDT)
  • Re: compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 12:58:26 CDT)
  • Re: change residue name and write a trajectory file (Thu Apr 10 2008 - 18:19:12 CDT)
  • Re: some questions about the RDF plugin (Mon Apr 07 2008 - 16:01:54 CDT)
  • Re: some questions about the RDF plugin (Mon Apr 07 2008 - 15:32:29 CDT)
  • Re: Insall Problem VMD Linux 1.8.6 Part II! (Sun Apr 06 2008 - 23:50:58 CDT)
  • Re: Install problem VMD Linux 1.8.6 (Sun Apr 06 2008 - 20:21:11 CDT)
  • Re: About Tcl command (Sun Apr 06 2008 - 00:58:40 CDT)
  • Re: How to read specific DCD frames directly in Fortran? (Sat Apr 05 2008 - 18:08:23 CDT)
  • Re: Topology file (Fri Apr 04 2008 - 11:52:27 CDT)
  • Re: Compiling VMD under Windows XP (Tue Apr 01 2008 - 06:06:22 CDT)
  • Re: Compiling VMD under Windows XP (Mon Mar 31 2008 - 21:47:02 CDT)
  • Re: using cvs under Windows XP (Mon Mar 31 2008 - 09:37:54 CDT)
  • Re: porcupine plot (Mon Mar 31 2008 - 04:01:53 CDT)
  • Re: Problems with PDB file format in VMD (Thu Mar 27 2008 - 20:42:45 CDT)
  • Re: Tcl 8.5.x in upcoming versions of VMD... (Thu Mar 27 2008 - 18:14:23 CDT)
  • Re: Tcl 8.5.x in upcoming versions of VMD... (Thu Mar 27 2008 - 17:32:20 CDT)
  • Re: How to see the original Origin (0,0,0, coordinate) of a system (Thu Mar 27 2008 - 11:57:58 CDT)
  • Re: problem with pbc (Thu Mar 27 2008 - 07:26:05 CDT)
  • Re: Can VMD show the interactions between different structure part? (Thu Mar 27 2008 - 06:43:41 CDT)
  • Re: problem with pbc (Thu Mar 27 2008 - 06:06:17 CDT)
  • Re: Can VMD show the interactions between different structure part? (Wed Mar 26 2008 - 23:19:40 CDT)
  • Re: problem with pbc (Wed Mar 26 2008 - 16:38:07 CDT)
  • Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 06:15:42 CDT)
  • Re: time correlation function (Tue Mar 25 2008 - 22:56:27 CDT)
  • Re: VMD tutorial for working with solid crystals (Tue Mar 25 2008 - 13:38:06 CDT)
  • RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 20:07:35 CDT)
  • RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 19:53:36 CDT)
  • RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 19:22:30 CDT)
  • Re: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 17:43:28 CDT)
  • Re: atoms with changing colors (Thu Mar 20 2008 - 17:05:53 CDT)
  • Re: RMSD calc (Thu Mar 20 2008 - 05:37:31 CDT)
  • Re: Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 21:52:58 CDT)
  • Re: Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 21:07:06 CDT)
  • Re: Build a VMD forum? (Wed Mar 19 2008 - 16:08:27 CDT)
  • Re: Radial Density (Wed Mar 19 2008 - 11:48:49 CDT)
  • Re: dipole (Wed Mar 19 2008 - 07:32:17 CDT)
  • Re: Diffusion Constant (Wed Mar 19 2008 - 06:09:56 CDT)
  • Re: Diffusion Constant (Tue Mar 18 2008 - 22:59:53 CDT)
  • Re: Display bond breaking (Tue Mar 18 2008 - 22:25:27 CDT)
  • Re: DLPOLY HISTORY FILE in VMD (Tue Mar 18 2008 - 11:23:31 CDT)
  • RE: closewater.tcl (Mon Mar 17 2008 - 16:02:02 CDT)
  • Re: GLSL lost (Mon Mar 17 2008 - 13:59:35 CDT)
  • RE: different numbers of frames even though... (Fri Mar 14 2008 - 13:05:03 CDT)
  • Re: different numbers of frames even though... (Fri Mar 14 2008 - 09:49:00 CDT)
  • Re: ramaplot (Fri Mar 14 2008 - 09:37:41 CDT)
  • Re: Does VMD support to draw a velocity field diagram? (Thu Mar 13 2008 - 18:03:54 CDT)
  • Re: snapshot not compatible with -dispdev text? (Mon Mar 10 2008 - 17:35:52 CDT)
  • Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 13:50:50 CDT)
  • Re: pbc join (Sun Mar 09 2008 - 23:57:35 CDT)
  • Re: radial density over one frame (Sun Mar 09 2008 - 15:49:17 CDT)
  • Re: compile problem for VMD1.8.6: OpenGLRenderer.C (Sat Mar 08 2008 - 20:51:50 CST)
  • Re: calculate volume (Sat Mar 08 2008 - 12:29:19 CST)
  • Re: how to make smooth movies ? (Fri Mar 07 2008 - 10:40:59 CST)
  • Re: Using RMSDTT in a script and aligning volume data (Fri Mar 07 2008 - 10:23:46 CST)
  • Re: H2 bond distances calculation n displaying image (Fri Mar 07 2008 - 10:16:05 CST)
  • Re: RMSD trajectory Tool (Thu Mar 06 2008 - 07:48:05 CST)
  • Re: radial distribution function and number integrals (Wed Mar 05 2008 - 21:54:46 CST)
  • Re: radial distribution function and number integrals (Wed Mar 05 2008 - 16:34:14 CST)
  • Re: running vmd in parallel (Wed Mar 05 2008 - 12:37:02 CST)
  • Re: radial distribution function and number integrals (Wed Mar 05 2008 - 12:45:36 CST)
  • Re: VMD languaje information (Tue Mar 04 2008 - 11:57:08 CST)
  • Re: missing basic tutorials for VMD scripting? (Sat Mar 01 2008 - 06:49:32 CST)
  • Re: unusual bond between the cysteine and arginine residue during the simulation (Fri Feb 29 2008 - 13:47:55 CST)
  • Re: no convergence in align (Fri Feb 29 2008 - 09:25:23 CST)
  • Re: periodic images for trajectory (Wed Feb 27 2008 - 05:07:04 CST)
  • Re: Compute force between two atoms (Tue Feb 26 2008 - 21:42:48 CST)
  • Re: more on lammps and VMD coordinates (Tue Feb 26 2008 - 12:08:13 CST)
  • Re: control drawing method (Mon Feb 25 2008 - 14:51:57 CST)
  • Re: How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 11:21:09 CST)
  • Re: classify and compute the forces between two atoms (Mon Feb 25 2008 - 10:08:44 CST)
  • Re: How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 10:13:33 CST)
  • Re: Changing a structure of macromolecule with VMD (Sun Feb 24 2008 - 11:36:04 CST)
  • Re: visualizing disulphide bonds (Sun Feb 24 2008 - 06:21:41 CST)
  • Re: Ramachandran plot tcl script (Sat Feb 23 2008 - 17:17:38 CST)
  • Re: Residue replacement question] (Sat Feb 23 2008 - 17:29:35 CST)
  • Re: vmd snapshots without display (Fri Feb 22 2008 - 11:41:19 CST)
  • Re: movie generation without runtime frame show (Fri Feb 22 2008 - 06:54:42 CST)
  • Re: monitor helicity change (Thu Feb 21 2008 - 22:40:02 CST)
  • Re: VASP CHGCAR (Thu Feb 21 2008 - 17:18:50 CST)
  • Re: VASP CHGCAR (Thu Feb 21 2008 - 15:35:07 CST)
  • Re: couldn't fork child process: not enough memory (Thu Feb 21 2008 - 15:28:16 CST)
  • Re: defining bonds (Thu Feb 21 2008 - 15:17:50 CST)
  • Re: gromacs trajectory files (Thu Feb 21 2008 - 06:58:52 CST)
  • Re: Selection in VMD Graphical representation (Wed Feb 20 2008 - 12:05:29 CST)
  • Re: how to set molinfo from python (Tue Feb 19 2008 - 10:49:17 CST)
  • Re: tcl script memory problem - NOT in atomselect (Tue Feb 19 2008 - 07:35:20 CST)
  • Re: VMD limitation for loading large trajectory file (Fri Feb 15 2008 - 17:00:40 CST)
  • Re: Unable to see VDW , CPK representations (Fri Feb 15 2008 - 16:51:34 CST)
  • Re: display of periodic DCD information/PBCTOOL (Fri Feb 15 2008 - 12:22:40 CST)
  • Re: Volume data formats (Thu Feb 14 2008 - 12:23:56 CST)
  • Re: FieldLines (Tue Feb 12 2008 - 09:53:36 CST)
  • Re: installation problem vmd 1.8.6 on fedora 3 (Sat Feb 09 2008 - 07:57:27 CST)
  • Re: heuristic bond computation (Fri Feb 08 2008 - 08:03:31 CST)
  • Re: heuristic bond computation (Thu Feb 07 2008 - 22:16:18 CST)
  • Re: vmd maxAtom (Thu Feb 07 2008 - 05:58:14 CST)
  • Re: vmd maxAtom (Wed Feb 06 2008 - 10:47:56 CST)
  • Re: merge pdb (Wed Feb 06 2008 - 10:41:43 CST)
  • Re: namd help? (Tue Feb 05 2008 - 12:54:36 CST)
  • Re: Displaying Counter Alongside Animation (Tue Feb 05 2008 - 03:23:44 CST)
  • Re: Question about geometrical figures (Fri Feb 01 2008 - 11:28:35 CST)
  • Re: Rdf from a specific point (Fri Feb 01 2008 - 11:48:12 CST)
  • Re: question about 'measure bond' (Fri Feb 01 2008 - 09:46:30 CST)
  • Re: Rdf from a specific point (Fri Feb 01 2008 - 08:55:39 CST)
  • Re: animation of an atom diffusion inside a bulk crystal (Fri Feb 01 2008 - 05:01:33 CST)
  • Re: Percentage Helicity calculation in VMD (Thu Jan 31 2008 - 23:37:28 CST)
  • Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 10:24:55 CST)
  • Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 10:28:57 CST)
  • Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 09:01:21 CST)
  • Re: Sasa script in python returns "Runtime error" (Tue Jan 29 2008 - 11:19:17 CST)
  • Re: your mail (Mon Jan 28 2008 - 19:36:38 CST)
  • Re: where is the "move" procedure in the toturial (Mon Jan 28 2008 - 09:08:25 CST)
  • Re: VMD 1.8.6, XTC format on Mac OS X 10.5.1 (Sat Jan 26 2008 - 13:29:35 CST)
  • Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 22:42:47 CST)
  • Re: proximity of residues (Wed Jan 23 2008 - 04:56:19 CST)
  • Re: proximity of residues (Wed Jan 23 2008 - 03:49:49 CST)
  • Re: delatom "no segment..." (Tue Jan 22 2008 - 05:49:32 CST)
  • Re: SSE from the protein sequence (Mon Jan 21 2008 - 09:53:10 CST)
  • Re: visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 12:58:17 CST)
  • Re: visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 12:26:08 CST)
  • Re: replace molecule? (Wed Jan 16 2008 - 11:02:32 CST)
  • Re: how to load a molecule in pdb format and save in mol2 format in batch mode (Mon Jan 14 2008 - 03:39:58 CST)
  • Re: Export VMD graphics to POV-Ray (Fri Jan 11 2008 - 11:59:04 CST)
  • Re: Is there any way to diagonalize a 3x3 matrix in VMD,.......... (Wed Jan 09 2008 - 14:54:33 CST)
  • Re: connectivity problem (Wed Jan 09 2008 - 10:09:35 CST)
  • Re: How to choose part of the volume data for isosurface visualization? (Tue Jan 08 2008 - 11:37:29 CST)
  • Re: Question about Gromacs box size in VMD..... (Thu Jan 03 2008 - 08:24:07 CST)
  • Re: select atoms between molecules (Wed Jan 02 2008 - 11:46:13 CST)
  • Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). (Wed Dec 26 2007 - 14:12:05 CST)
  • Re: VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 21:50:14 CST)
  • Re: helical construction (Mon Dec 10 2007 - 15:26:30 CST)
  • Re: Finding the length of multiple small molecules (Sat Dec 08 2007 - 16:03:07 CST)
  • Re: Re: problem with the new cartoon representation mode (Sat Dec 08 2007 - 16:08:22 CST)
  • Re: problem with the new cartoon representation mode (Sat Dec 08 2007 - 14:37:00 CST)
  • Re: Finding the length of multiple small molecules (Fri Dec 07 2007 - 14:19:47 CST)
  • Re: drawing trajectory of a molecule (Fri Dec 07 2007 - 09:20:28 CST)
  • Re: Making movies in VMD (Wed Dec 05 2007 - 19:45:54 CST)
  • Re: Making movies in VMD (Wed Dec 05 2007 - 19:16:40 CST)
  • Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 20:34:21 CST)
  • Re: Timeline viewer (Sat Dec 01 2007 - 18:33:58 CST)
  • Re: Timeline viewer (Fri Nov 30 2007 - 15:31:56 CST)
  • Re: Command to change background to gradient (Fri Nov 30 2007 - 06:15:44 CST)
  • Re: Intersurf and interface residues (Thu Nov 29 2007 - 04:08:08 CST)
  • Re: Suspected SpamFR:RE: cave (Mon Nov 26 2007 - 04:28:18 CST)
  • RE: cave (Sun Nov 25 2007 - 12:58:47 CST)
  • Re: Hydrophobicity plots in VMD (Sun Nov 25 2007 - 12:49:29 CST)
  • Re: Delete overlapping residues (Sat Nov 24 2007 - 17:30:22 CST)
  • Re: Trying to get VMD to run locally while logged into a remote machine (Wed Nov 21 2007 - 16:35:50 CST)
  • Re: Calculate density (Wed Nov 21 2007 - 14:20:15 CST)
  • Re: gui RMSD vs text RMSD calcs differ b/c ddiff backbone atom definitions (Sat Nov 17 2007 - 00:11:54 CST)
  • Re: vmd 1.8.6 doesn't run on Fedora Core 7 EMT64 (Fri Nov 16 2007 - 23:56:37 CST)
  • Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 22:47:21 CST)
  • Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 03:33:31 CST)
  • RE: OpenGL Display (Wed Nov 14 2007 - 23:53:07 CST)
  • Re: combine.tcl membrane plugin (Wed Nov 14 2007 - 20:40:06 CST)
  • Re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found (Wed Nov 14 2007 - 20:34:06 CST)
  • Re: OpenGL Display (Wed Nov 14 2007 - 04:09:40 CST)
  • Re: Dynamic bonds and H2 molecules. (Wed Nov 14 2007 - 04:07:00 CST)
  • Re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found (Tue Nov 13 2007 - 23:50:04 CST)
  • Re: problem with colouring the surface with electroststic potential (Tue Nov 13 2007 - 02:15:54 CST)
  • Re: stride binaries for windows XP OS (Tue Nov 13 2007 - 02:27:33 CST)
  • Re: problems with atomselect: missing selection (Mon Nov 12 2007 - 06:38:01 CST)
  • Re: Generatin PSF for alkanes (Sun Nov 11 2007 - 00:54:50 CST)
  • Re: merging two pdb files (Thu Nov 08 2007 - 21:55:17 CST)
  • Re: merging two pdb files (Thu Nov 08 2007 - 21:50:10 CST)
  • Re: molfile reader plugin woes (Thu Nov 08 2007 - 06:44:28 CST)
  • Re: merging two pdb files (Thu Nov 08 2007 - 06:39:05 CST)
  • Re: cloning a molecule (Mon Nov 05 2007 - 00:35:27 CST)
  • Re: NAMD trajectories in VMD (Fri Oct 26 2007 - 12:22:32 CDT)
  • Re: Color by Volume on an Intel 945GM (Sat Oct 20 2007 - 15:44:39 CDT)
  • Re: how to remove chain id ? (Sat Oct 20 2007 - 14:00:02 CDT)
  • Re: how to remove chain id ? (Sat Oct 20 2007 - 08:33:05 CDT)
  • Re: Extracting IR spectra from trajectories (Fri Oct 19 2007 - 15:30:50 CDT)
  • Re: Is catdcd running on Windows? (Wed Oct 17 2007 - 06:34:45 CDT)
  • Re: Problems Opening Large .dx File (Mon Oct 15 2007 - 15:56:28 CDT)
  • Re: setting unit cell dimensions (Mon Oct 15 2007 - 03:54:49 CDT)
  • Re: VMD access using XWIN32 or X-Deep (Fri Oct 12 2007 - 14:08:30 CDT)
  • Re: Cube Files - proportion of the electron density (Tue Oct 09 2007 - 16:40:25 CDT)
  • Re: You are right. That's the problem. (Mon Oct 08 2007 - 12:10:07 CDT)
  • Re: Normal VMD crashed when pdb load but Debug mode works (Mon Oct 08 2007 - 11:41:09 CDT)
  • Re: the representation of within 10 angstrom of a specific point (Sun Oct 07 2007 - 23:48:36 CDT)
  • Re: Cube Files - proportion of the electron density (Sun Oct 07 2007 - 18:14:00 CDT)
  • Re: NAMDENERGY analysis (Thu Oct 04 2007 - 15:34:32 CDT)
  • Re: Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 12:42:25 CDT)
  • Re: hbonds (how to count) (Wed Oct 03 2007 - 06:29:53 CDT)
  • Re: Storing multiple values in the user field (Fri Sep 28 2007 - 16:17:09 CDT)
  • behavior of "mol addfile first/last" with non-integer frame numbers (Thu Sep 27 2007 - 19:35:40 CDT)
  • Re: atom index number (Thu Sep 27 2007 - 02:42:42 CDT)
  • Re: Time series for SASA calculation: (Wed Sep 26 2007 - 20:01:35 CDT)
  • Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 17:08:32 CDT)
  • Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 13:15:29 CDT)
  • Re: output of distances between atoms or coordinates (Thu Sep 20 2007 - 10:20:08 CDT)
  • Re: sidechain correlated motions (Thu Sep 20 2007 - 09:42:59 CDT)
  • Re: change the representation of certain atoms which pass a geometric criterion during a movie (Tue Sep 18 2007 - 08:34:29 CDT)
  • Re: VMD text mode version (Fri Sep 14 2007 - 10:09:50 CDT)
  • Re: Questions abt VMD plugins (Fri Sep 14 2007 - 10:06:06 CDT)
  • Re: secondary structure colors in timeline plugin (Fri Sep 14 2007 - 07:46:50 CDT)
  • Re: VMD on Playstation 3 (Fri Sep 14 2007 - 07:39:16 CDT)
  • Re: Problems with a multiple orbital cube file (Fri Sep 14 2007 - 07:32:14 CDT)
  • Re: VMD Images and Movies Tutorial: Working With Trajectories (Thu Sep 13 2007 - 09:04:08 CDT)
  • Re: GLSL rendering mode is NOT available (Mon Sep 10 2007 - 09:28:37 CDT)
  • Re: Further angle question (Sat Sep 08 2007 - 20:37:28 CDT)
  • Re: vmdbasename: Undefined variable (Sat Sep 08 2007 - 20:39:56 CDT)
  • Re: Computing angles (Fri Sep 07 2007 - 17:27:26 CDT)
  • Re: is it possible to skip frame when using bigdcd (Fri Sep 07 2007 - 07:56:23 CDT)
  • Re: the console window is automatically closed without any error messages (Thu Sep 06 2007 - 12:50:08 CDT)
  • Re: Solvate package (Wed Sep 05 2007 - 14:05:45 CDT)
  • Re: regular expression in Tcl (Tue Sep 04 2007 - 09:12:58 CDT)
  • Re: advanced python console (Tue Sep 04 2007 - 09:18:34 CDT)
  • Re: Problem with saving coordinate (Fri Aug 31 2007 - 00:17:25 CDT)
  • Re: numbonds (Tue Aug 28 2007 - 12:05:46 CDT)
  • Re: automating graphic representations (Fri Aug 24 2007 - 13:08:44 CDT)
  • Re: Selection within VMD (Wed Aug 22 2007 - 14:12:59 CDT)
  • Re: automating graphic representations (Wed Aug 22 2007 - 13:33:03 CDT)
  • Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 20:35:16 CDT)
  • Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 18:23:55 CDT)
  • Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 19:26:57 CDT)
  • Re: How to load packages from tcllib into VMD (Tue Aug 21 2007 - 08:13:00 CDT)
  • Re: How to load packages from tcllib into VMD (Mon Aug 20 2007 - 18:43:53 CDT)
  • Re: Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 12:51:30 CDT)
  • Re: Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) (Wed Aug 15 2007 - 10:47:46 CDT)
  • Re: Installing VMD to work with MSMS (Tue Aug 14 2007 - 11:31:49 CDT)
  • Re: Re: help with badwater script (Mon Aug 13 2007 - 19:08:30 CDT)
  • Re: Running a vmd tcl script in the background (Mon Aug 13 2007 - 19:11:53 CDT)
  • Re: problem regarding stride (Mon Aug 13 2007 - 11:06:48 CDT)
  • Re: VMD plugin error src/webpdbplugin.c (Sun Aug 12 2007 - 18:06:37 CDT)
  • Re: gmake invalid option --c install (Sat Aug 11 2007 - 13:46:01 CDT)
  • Re: problem regarding stride (Sat Aug 11 2007 - 12:51:55 CDT)
  • Re: gmake invalid option --c install (Sat Aug 11 2007 - 11:38:48 CDT)
  • RE: bilayer thickness in simulation of POPC membranes (Sat Aug 11 2007 - 11:33:51 CDT)
  • Re: how to make user input during runtime of a tcl program using TkConsole? (Fri Aug 10 2007 - 10:20:47 CDT)
  • Re: Corrupt cpmd-vmd.pdf File? (Thu Aug 09 2007 - 16:39:02 CDT)
  • Re: radial density (Thu Aug 09 2007 - 09:23:39 CDT)
  • Re: Writing MolFile plugin for CIF (Wed Aug 08 2007 - 09:40:14 CDT)
  • Re: within and exwithin macro (Tue Aug 07 2007 - 15:18:02 CDT)
  • Re: CNT Analysis (Tue Aug 07 2007 - 08:54:06 CDT)
  • Re: within and exwithin macro (Tue Aug 07 2007 - 08:46:49 CDT)
  • Re: within and exwithin macro (Tue Aug 07 2007 - 08:26:18 CDT)
  • Re: a problem with installation (to generate the Makefile ) (Tue Aug 07 2007 - 08:15:36 CDT)
  • Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 11:29:16 CDT)
  • Re: chloroform box (Sun Aug 05 2007 - 12:35:15 CDT)
  • Re: Loading files into already-running version of VMD from command prompt (Sat Aug 04 2007 - 16:04:31 CDT)
  • Re: chloroform box (Sat Aug 04 2007 - 11:38:10 CDT)
  • Re: save state fails (Thu Aug 02 2007 - 10:40:25 CDT)
  • Re: eigen values (Thu Aug 02 2007 - 11:51:00 CDT)
  • Re: coloring selected chains and residues (Mon Jul 30 2007 - 19:00:55 CDT)
  • Re: Tachyon doesn't take into account ColorID (Mon Jul 30 2007 - 14:17:13 CDT)
  • Re: PBC problem in gofr (Mon Jul 30 2007 - 08:57:10 CDT)
  • Re: can't add packages (Sat Jul 28 2007 - 17:32:46 CDT)
  • Re: orientation of hexahedrons parallelepipeds unit cells relative to x,y axes (Sat Jul 28 2007 - 17:24:08 CDT)
  • Re: frame number input in tcl and direct mol graph display update (II) (Fri Jul 27 2007 - 13:56:05 CDT)
  • Re: Wrap only whole molecules (Fri Jul 27 2007 - 13:26:06 CDT)
  • Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr (Thu Jul 26 2007 - 11:48:08 CDT)
  • Re: deposition simulation from lammps (Thu Jul 26 2007 - 12:53:39 CDT)
  • Re: Boundry Dimensions for Solvation (Thu Jul 26 2007 - 11:41:04 CDT)
  • Re: how to wrap trajectory into truncated octahedral box (Thu Jul 26 2007 - 11:50:43 CDT)
  • Re: ntermolecular atomselection (Thu Jul 26 2007 - 11:35:46 CDT)
  • Re: how to run VMD on IBM machines (Wed Jul 25 2007 - 11:04:02 CDT)
  • Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 00:02:24 CDT)
  • Re: Writing out .dcd for discontinous frames (Thu Jul 19 2007 - 06:14:19 CDT)
  • Re: Setting modstyle volumeslice options via tk console (Wed Jul 18 2007 - 16:27:47 CDT)
  • Re: Language definitions - \usepackage{listings} (Tue Jul 17 2007 - 07:11:54 CDT)
  • Re: Regarding APBS calculation in VMD (Tue Jul 17 2007 - 07:43:04 CDT)
  • Re: Re: missing cell length on DCD (Sat Jul 14 2007 - 11:42:08 CDT)
  • Re: RDF calculations (Fri Jul 13 2007 - 17:38:35 CDT)
  • Re: how to save a list in a file (Fri Jul 13 2007 - 13:04:16 CDT)
  • Re: exporting xyz file (Thu Jul 12 2007 - 10:37:40 CDT)
  • Re: frame number input in tcl and direct mol graph display update (Thu Jul 12 2007 - 10:03:43 CDT)
  • Re: exporting xyz file (Thu Jul 12 2007 - 09:58:32 CDT)
  • Re: shifting of the origin (Wed Jul 11 2007 - 10:49:47 CDT)
  • Re: shifting of the origin (Wed Jul 11 2007 - 09:22:41 CDT)
  • Re: displaying velocity from dlpoly history (Tue Jul 10 2007 - 15:07:16 CDT)
  • Re: atomselect (Tue Jul 10 2007 - 08:49:38 CDT)
  • Re: Using multiple CPUS (Mon Jul 09 2007 - 14:12:00 CDT)
  • Re: need help (Mon Jul 09 2007 - 09:25:03 CDT)
  • Re: vmd crashes on startup (Fri Jul 06 2007 - 12:51:55 CDT)
  • Re: command line dcd to trr? (Fri Jul 06 2007 - 08:26:37 CDT)
  • Re: Divide by Zero Error , but can't find the zero! (Thu Jul 05 2007 - 14:53:16 CDT)
  • Re: calculation limit of gofr? (Thu Jul 05 2007 - 09:47:43 CDT)
  • Re: Video card query (Thu Jul 05 2007 - 09:42:37 CDT)
  • Re: Broken tube drawing method? (Thu Jul 05 2007 - 09:24:39 CDT)
  • Re: vmd crashes on startup (Wed Jul 04 2007 - 15:55:33 CDT)
  • Re: How to display boundary crossing bonds? (Wed Jul 04 2007 - 11:51:57 CDT)
  • Re: developing plugins to vmd in python (Tue Jul 03 2007 - 09:25:33 CDT)
  • Re: how to calculate hydrogen bond? (Sun Jul 01 2007 - 21:34:56 CDT)
  • Re: vmd and amber (Thu Jun 28 2007 - 16:14:49 CDT)
  • Re: get charge (Thu Jun 28 2007 - 12:27:43 CDT)
  • Re: generate surface figure (Thu Jun 28 2007 - 12:25:30 CDT)
  • Re: parallel capabilities (Tue Jun 26 2007 - 16:24:22 CDT)
  • Re: parallel capabilities (Tue Jun 26 2007 - 14:14:27 CDT)
  • redefining macros vs. update of selections (Mon Jun 25 2007 - 19:28:53 CDT)
  • Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Sat Jun 23 2007 - 09:23:20 CDT)
  • Re: Text/Labels on ray tracing external renderer (Fri Jun 22 2007 - 14:26:00 CDT)
  • Re: VMD 1.8.6 Not Responding! (Thu Jun 21 2007 - 10:37:44 CDT)
  • Re: Script to rendering ANISOU records in VMD (Tue Jun 19 2007 - 22:08:55 CDT)
  • Re: VMD 1.8.6 Not Responding! (Mon Jun 18 2007 - 09:49:47 CDT)
  • Re: use animatepdbs.tcl to include APBS potential maps (Mon Jun 11 2007 - 11:22:01 CDT)
  • Re: use animatepdbs.tcl to include APBS potential maps (Sun Jun 10 2007 - 15:00:58 CDT)
  • Re: Python Module (Fri Jun 08 2007 - 08:35:04 CDT)
  • Re: release memory in TCL (Thu Jun 07 2007 - 18:59:10 CDT)
  • Re: Python Module (Thu Jun 07 2007 - 17:50:14 CDT)
  • Re: release memory in TCL (Thu Jun 07 2007 - 17:46:50 CDT)
  • Re: traj not visualized but pdb is visualized (Thu Jun 07 2007 - 08:29:33 CDT)
  • Re: .xyz file, namelist index too large error (Wed Jun 06 2007 - 19:00:56 CDT)
  • Re: release memory in TCL (Wed Jun 06 2007 - 16:35:17 CDT)
  • Re: Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 20:09:49 CDT)
  • Re: Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 19:41:24 CDT)
  • Re: Fwd: vmd installation Linux Debian i386 (Tue Jun 05 2007 - 17:43:49 CDT)
  • Re: Fwd: Linux installation issue (Tue Jun 05 2007 - 10:00:17 CDT)
  • Re: VMD-Main window doesn't load after change in .vmdrc (Mon Jun 04 2007 - 20:12:25 CDT)
  • Re: Distance measurement via measure bond (Mon Jun 04 2007 - 10:26:18 CDT)
  • Re: parameters file of POPC (Mon Jun 04 2007 - 09:17:02 CDT)
  • Re: Installing VMD 1.8.6 (Mon Jun 04 2007 - 08:03:30 CDT)
  • Re: Using regular expressions on tcl atomselection (Thu May 31 2007 - 17:17:25 CDT)
  • Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) (Wed May 30 2007 - 14:14:08 CDT)
  • Re: pqr files---- (Tue May 29 2007 - 18:49:38 CDT)
  • Re: Installation Error Involving TLC (Mon May 28 2007 - 15:36:40 CDT)
  • Re: Problem with bondsrecalc (Mon May 28 2007 - 13:17:22 CDT)
  • Re: How to use remote GLSL rendering capabilities? (Mon May 28 2007 - 10:51:07 CDT)
  • Re: help on trajectory density map (Mon May 28 2007 - 10:40:12 CDT)
  • Re: Fwd: Linux installation issue (Sat May 26 2007 - 15:41:24 CDT)
  • Re: Fwd: Linux installation issue (Sat May 26 2007 - 15:36:40 CDT)
  • Re: Linux installation issue (Sat May 26 2007 - 15:32:59 CDT)
  • Re: problem with installing VMD on a LINUX cluster (Fri May 25 2007 - 17:00:20 CDT)
  • Re: Installation Error Involving TLC (Fri May 25 2007 - 13:23:11 CDT)
  • Re: (Fri May 25 2007 - 11:00:48 CDT)
  • Re: fortran/tcl (Fri May 25 2007 - 10:55:50 CDT)
  • Re: How to use remote GLSL rendering capabilities? (Thu May 24 2007 - 17:38:36 CDT)
  • Re: VMD installation (Thu May 24 2007 - 16:13:53 CDT)
  • Re: Displaying the periodic box ... (Thu May 24 2007 - 09:19:44 CDT)
  • Re: questions about developing a plugin (Thu May 24 2007 - 08:19:04 CDT)
  • Re: questions about developing a plugin (Thu May 24 2007 - 08:02:33 CDT)
  • Re: questions about developing a plugin (Wed May 23 2007 - 16:19:17 CDT)
  • Re: Customized radii (Tue May 22 2007 - 12:56:58 CDT)
  • Re: show atom number in xyz file (Tue May 22 2007 - 07:33:34 CDT)
  • Re: vmd movies in powerpoint (Sun May 20 2007 - 12:23:32 CDT)
  • Re: help on writing a tcl script (Sat May 19 2007 - 12:28:29 CDT)
  • Re: help on writing a tcl script (Fri May 18 2007 - 11:22:27 CDT)
  • Re: Questions on VMD (Thu May 17 2007 - 16:32:05 CDT)
  • Re: how to make a movie using Principal Component Analysis (Wed May 16 2007 - 20:16:00 CDT)
  • Re: question about making movies (Wed May 16 2007 - 13:39:13 CDT)
  • Re: a gas box (Tue May 15 2007 - 08:22:16 CDT)
  • Re: GLSL rendering problems (??) (Mon May 14 2007 - 13:03:49 CDT)
  • Re: GLSL rendering problems (??) (Mon May 14 2007 - 11:04:34 CDT)
  • Re: how to caculate the hydrogen bonds occupancy? (Sun May 13 2007 - 14:46:04 CDT)
  • Re: files for air (Fri May 11 2007 - 07:46:23 CDT)
  • Re: Fwd: vmd first installation (Fri May 11 2007 - 07:21:43 CDT)
  • Re: Consider fluctuating volume for density (Thu May 10 2007 - 09:45:04 CDT)
  • Re: a air box (Thu May 10 2007 - 09:22:45 CDT)
  • Re: Problem loading pdb file on VMD (Wed May 09 2007 - 19:21:40 CDT)
  • Re: Problem loading pdb file on VMD (Wed May 09 2007 - 17:43:45 CDT)
  • Re: Fwd: vmd first installation (Wed May 09 2007 - 16:41:10 CDT)
  • Re: pbcunwrap, DL_POLY v 3 (Wed May 09 2007 - 07:42:23 CDT)
  • Re: Problem loading pdb file on VMD (Wed May 09 2007 - 07:38:54 CDT)
  • Re: Problem loading pdb file on VMD (Wed May 09 2007 - 07:37:56 CDT)
  • Re: color by frame? (Mon May 07 2007 - 08:47:16 CDT)
  • Re: problem using bigdcd.tcl script does not run beyond the first frame no error reported (Mon May 07 2007 - 08:36:50 CDT)
  • Re: How to align a protein normal to lipid bilayer (Fri May 04 2007 - 08:53:30 CDT)
  • Re: (Thu May 03 2007 - 17:00:48 CDT)
  • Re: vmd-1:how to merge two proteins (receptor & ligand) (Thu May 03 2007 - 16:01:46 CDT)
  • Re: dumb movie maker question (Thu May 03 2007 - 10:16:10 CDT)
  • Re: a water box containing only the absorbent heads of (Thu May 03 2007 - 07:44:05 CDT)
  • Re: Problem with periodic condition (Mon Apr 30 2007 - 15:47:12 CDT)
  • Re: Visualization and reading problems (Sun Apr 29 2007 - 13:41:54 CDT)
  • Re: increase light under depth cueing (Sun Apr 29 2007 - 12:43:19 CDT)
  • Re: increase light under depth cueing (Sat Apr 28 2007 - 17:45:36 CDT)
  • Re: Problem with periodic condition (Sat Apr 28 2007 - 16:15:06 CDT)
  • Re: Problem with periodic condition (Fri Apr 27 2007 - 14:42:33 CDT)
  • Re: Dynamic 'Determine file type' list in main menu !?! (Fri Apr 27 2007 - 09:02:09 CDT)
  • Re: H-bonds (Tue Apr 24 2007 - 11:28:31 CDT)
  • Re: Variable number of atoms in xyz file (Tue Apr 24 2007 - 09:21:45 CDT)
  • Re: About openning a file to write in callback function (Mon Apr 23 2007 - 14:00:35 CDT)
  • Re: Misunderstanding about SASA (Sat Apr 21 2007 - 17:31:53 CDT)
  • Announcement: QM/MM Workshop (Thu Apr 19 2007 - 09:14:50 CDT)
  • Re: tcl variable withing variable name (Thu Apr 19 2007 - 08:30:34 CDT)
  • Re: vmd can't start up after being installed in linux (Tue Apr 17 2007 - 22:01:27 CDT)
  • Re: RE: "which files to make a spatial grid?" => Bug for list command? (Tue Apr 17 2007 - 07:25:11 CDT)
  • Re: .xyz to .dcd using catdcd (Mon Apr 16 2007 - 19:51:35 CDT)
  • Re: which files to make a spatial grid? (Mon Apr 16 2007 - 19:46:08 CDT)
  • Re: writing coordinates of a selection only (Mon Apr 16 2007 - 18:42:26 CDT)
  • Re: winvmd error during calculation (Sat Apr 14 2007 - 09:10:39 CDT)
  • Re: VMD installation (Fri Apr 13 2007 - 09:40:07 CDT)
  • Re: problem using NAMD trajectory in charmm 32-bit, 64-bit etc. (yes, I posted this on charmm lists too) (Tue Apr 03 2007 - 09:20:25 CDT)
  • Re: doubts in movie making using vmd. (Wed Mar 28 2007 - 21:47:12 CDT)
  • Re: rdf using gui (Tue Mar 27 2007 - 16:44:09 CDT)
  • Re: dynamic bonding (Tue Mar 27 2007 - 15:48:22 CDT)
  • Re: mol load and mol addfile (Mon Mar 26 2007 - 16:33:51 CDT)
  • Re: Re: windows version of VMD (Sun Mar 25 2007 - 16:46:41 CDT)
  • Re: Re: Scripting problem with h-bond listing (Sun Mar 18 2007 - 15:03:09 CDT)
  • Re: question about gofr (Sat Mar 17 2007 - 15:48:44 CDT)
  • Re: read the pdb file using VMD (Tue Mar 06 2007 - 01:30:16 CST)
  • Re: reading charmm files (Mon Mar 05 2007 - 11:56:34 CST)
  • Re: reading charmm files (Mon Mar 05 2007 - 08:27:12 CST)
  • Re: New Molecule (or Load Data) resets viewpoint of Display. Why? (Mon Mar 05 2007 - 05:24:25 CST)
  • Re: vmd/gaussian cubes (Fri Mar 02 2007 - 11:48:20 CST)
  • Re: Atomselection in NAMDENERGY (Fri Mar 02 2007 - 08:31:54 CST)
  • Re: Updating atomselection from frame to frame (Fri Mar 02 2007 - 08:27:07 CST)
  • Re: Calculating dipole moment of protein (Fri Mar 02 2007 - 07:41:25 CST)
  • Re: Updating atomselection from frame to frame (Fri Mar 02 2007 - 07:32:00 CST)
  • Re: Colouring Atoms according to the centro-symmetric parameter (Thu Mar 01 2007 - 13:45:36 CST)
  • Re: calculation of free energy between lipid membrane and protein (Thu Mar 01 2007 - 11:40:00 CST)
  • Re: multiple dx frames (Wed Feb 28 2007 - 14:42:34 CST)
  • Re: Calculate VolMap for every frame by a script (Tue Feb 27 2007 - 17:25:16 CST)
  • Re: VMD open GL Display problem (Tue Feb 27 2007 - 11:43:12 CST)
  • Re: Re: bug report in VMD 1.8.5 (Mon Feb 26 2007 - 17:26:38 CST)
  • Re: Question about RDF of VMD (Sat Feb 24 2007 - 21:25:14 CST)
  • Re: "get {x y z}" returns single value (Fri Feb 23 2007 - 11:10:04 CST)
  • Re: transparent background in vmd (Fri Feb 23 2007 - 10:49:56 CST)
  • Re: Number of Frames in VMD (Fri Feb 23 2007 - 09:05:15 CST)
  • Re: cube file: coordinates rotated (Thu Feb 22 2007 - 09:07:28 CST)
  • Re: Re: namd-l: Nanopore simulation (Wed Feb 21 2007 - 12:06:08 CST)
  • Re: Isosurface rendering (Wed Feb 21 2007 - 11:54:12 CST)
  • Re: Isosurface rendering (Wed Feb 21 2007 - 09:44:21 CST)
  • Re: generating (Tue Feb 20 2007 - 14:45:27 CST)
  • Re: generating (Tue Feb 20 2007 - 09:05:44 CST)
  • Re: TCl question: preventing STDOUT (Thu Feb 15 2007 - 06:37:36 CST)
  • Re: atomselection: number of residues (Sun Feb 11 2007 - 13:41:08 CST)
  • Re: hot keys & save state (Sun Feb 11 2007 - 13:06:08 CST)
  • Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem (Sun Feb 11 2007 - 12:51:06 CST)
  • Re: load in multiple files once (Fri Feb 09 2007 - 16:30:00 CST)
  • Re: Saving work in VMD--this seems ridiculously difficult! (Fri Feb 09 2007 - 10:52:01 CST)
  • Re: file "top_all22_prot.inp" (Wed Feb 07 2007 - 09:49:39 CST)
  • Re: Regarding com file error (Mon Feb 05 2007 - 12:20:12 CST)
  • Re: Saving mutli-molecule structures in VMD (e.g., for building membranes) (Mon Feb 05 2007 - 12:09:15 CST)
  • Re: Units for Measure Dipole (Mon Feb 05 2007 - 12:04:12 CST)
  • Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Sat Feb 03 2007 - 06:31:49 CST)
  • Re: Units for Measure Dipole (Fri Feb 02 2007 - 18:28:15 CST)
  • Re: Atomselect on several molecules (Fri Feb 02 2007 - 13:36:13 CST)
  • Re: Atomselect on several molecules (Fri Feb 02 2007 - 11:19:06 CST)
  • Re: sending arguments to tcl (Thu Feb 01 2007 - 15:55:30 CST)
  • Re: Compute the angle between a vector and the largest inertia axis (Tue Jan 30 2007 - 11:16:32 CST)
  • RE: Delete frames in a script (Tue Jan 30 2007 - 11:13:14 CST)
  • Re: Re: Add transparent plane to molecular structure (Tue Jan 30 2007 - 11:04:27 CST)
  • Re: Add transparent plane to molecular structure (Mon Jan 29 2007 - 21:31:50 CST)
  • Re: an old...old..old..question (Mon Jan 29 2007 - 18:33:14 CST)
  • Re: history in tcl/tk script (Mon Jan 29 2007 - 09:12:13 CST)
  • Re: history in tcl/tk script (Fri Jan 26 2007 - 10:39:02 CST)
  • Re: wildcards in atomselect command (Fri Jan 26 2007 - 10:03:14 CST)
  • Re: Installing VMD on a PC (Wed Jan 24 2007 - 19:49:17 CST)
  • Re: question on spin density (Wed Jan 24 2007 - 17:14:53 CST)
  • RE: measure XYZ dimensions of a system (Wed Jan 24 2007 - 13:52:43 CST)
  • Re: measure XYZ dimensions of a system (Wed Jan 24 2007 - 12:13:42 CST)
  • Re: vector (Wed Jan 24 2007 - 10:26:55 CST)
  • Re: hingefind (Tue Jan 23 2007 - 11:23:17 CST)
  • Re: hingefind (Mon Jan 22 2007 - 19:27:05 CST)
  • Re: renumbering residues after deletion of atoms (Thu Jan 18 2007 - 11:51:48 CST)
  • Re: scripts in windows version (Wed Jan 17 2007 - 14:47:48 CST)
  • Re: [Fwd: Re: create new topology file for new molecule] (Wed Jan 10 2007 - 08:39:17 CST)
  • Re: Why does lipid move out of water box (Tue Jan 09 2007 - 14:13:08 CST)
  • Re: Unaligned access to ... (Mon Jan 08 2007 - 19:10:39 CST)
  • Re: Anyone have catdcd-4.0 for BlueGene? (Mon Jan 08 2007 - 16:36:38 CST)
  • Re: error message using gofr (Fri Jan 05 2007 - 18:09:22 CST)
  • Re: Save coordinates from MD simulation (Thu Jan 04 2007 - 11:46:39 CST)
  • Re: Install and Configure Problems (Wed Jan 03 2007 - 09:43:38 CST)
  • Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Tue Dec 19 2006 - 14:15:00 CST)
  • Re: electrostatic potential (Wed Dec 13 2006 - 15:11:27 CST)
  • Re: Getting coordinates (Tue Dec 05 2006 - 16:37:00 CST)
  • Re: duration of video mpeg (Sun Dec 03 2006 - 16:31:58 CST)
  • Re: duration of video mpeg (Sun Dec 03 2006 - 09:39:28 CST)
  • RE: radius of the curvature (Wed Nov 29 2006 - 12:31:59 CST)
  • Re: radius of the curvature (Tue Nov 28 2006 - 16:08:29 CST)
  • Re: CAve Question (Mon Nov 27 2006 - 18:47:22 CST)
  • Re: movie making (Thu Nov 23 2006 - 15:36:32 CST)
  • Re: Installing VMD Windows version on 64-bit Windows Environment (Wed Nov 22 2006 - 09:19:03 CST)
  • Re: vector summation (Wed Nov 22 2006 - 09:13:45 CST)
  • Re: Running a script using text mode (Tue Nov 21 2006 - 12:18:02 CST)
  • Re: changing the representation of a vector (Fri Nov 17 2006 - 11:02:42 CST)
  • Re: Change properties of representations - batch mode (Fri Nov 17 2006 - 10:47:02 CST)
  • Re: how to extract atom information? (Thu Nov 16 2006 - 21:32:41 CST)
  • Re: how to extract atom information? (Thu Nov 16 2006 - 20:08:01 CST)
  • Re: Plotting Number of Hbonds and % Helicity with Time (Sat Nov 11 2006 - 18:57:25 CST)
  • Re: Command line troubles (Sat Nov 11 2006 - 17:48:00 CST)
  • Re: VMD installation problem (Fri Nov 10 2006 - 11:19:24 CST)
  • Re: VMD - unable to create OpenGL (Tue Nov 07 2006 - 08:37:37 CST)
  • Re: How to delete selected atoms from a molecule (Mon Nov 06 2006 - 09:30:58 CST)
  • Re: installation problem (Tue Oct 31 2006 - 18:32:13 CST)
  • Re: VMD - ATI video card (Tue Oct 31 2006 - 13:47:10 CST)
  • Re: Reading box info. from PQR file (Mon Oct 30 2006 - 10:54:13 CST)
  • Re: problem about "mol load psf md.pdf pdb md.pdb" (Wed Oct 25 2006 - 06:19:41 CDT)
  • Re: adding selections (Fri Oct 20 2006 - 14:03:56 CDT)
  • Re: CPK Graphical Representation (Fri Oct 20 2006 - 11:48:23 CDT)
  • Re: How to use vector calculation ??? (Fri Oct 20 2006 - 10:45:11 CDT)
  • Re: CPK Graphical Representation (Fri Oct 20 2006 - 10:40:46 CDT)
  • Re: Using VMDPLUGIN_register_tcl (Wed Oct 18 2006 - 11:49:55 CDT)
  • Re: update of atom selection at each step for trajectories (Wed Oct 18 2006 - 12:09:04 CDT)
  • Re: electrostatic map render problem (Wed Oct 18 2006 - 11:56:21 CDT)
  • Re: Using VMDPLUGIN_register_tcl (Wed Oct 18 2006 - 11:52:36 CDT)
  • Re: Re: Volumetric data: Periodic expansion does not work; why? (Tue Oct 17 2006 - 11:08:49 CDT)
  • Re: RPM spec file (Tue Oct 17 2006 - 11:04:37 CDT)
  • Re: Volumetric data: Periodic expansion does not work; why? (Fri Oct 13 2006 - 11:15:36 CDT)
  • Re: gofr (Wed Oct 11 2006 - 14:46:15 CDT)
  • Re: Missing main menu (Mon Oct 09 2006 - 13:56:52 CDT)
  • Re: Access to bond information inside a VMD plugin... (Mon Oct 09 2006 - 12:14:55 CDT)
  • Re: Question about measure gofr (Fri Oct 06 2006 - 12:54:58 CDT)
  • Re: problem viewing cube files (Thu Oct 05 2006 - 10:51:17 CDT)
  • Re: problem viewing cube files (Wed Oct 04 2006 - 08:26:45 CDT)
  • Re: problem running pgn script file (Tue Oct 03 2006 - 11:11:45 CDT)
  • Re: Connectivity lost when loading second pdb (Tue Oct 03 2006 - 08:07:39 CDT)
  • Re: sequential multiple structures (Fri Sep 29 2006 - 07:25:23 CDT)
  • Re: problem using saltbr plugin in text mode (Wed Sep 27 2006 - 14:00:28 CDT)
  • Re: VMD Prompt (Wed Sep 27 2006 - 13:20:46 CDT)
  • Re: 1.8.5: VASP plugin not correct (Tue Sep 26 2006 - 09:33:45 CDT)
  • Re: What unit system does VMD use? (Mon Sep 25 2006 - 12:00:07 CDT)
  • Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 11:44:23 CDT)
  • Re: visualizing charges (Mon Sep 25 2006 - 10:01:46 CDT)
  • Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 08:45:26 CDT)
  • Re: measure angle between three points in space (Sun Sep 24 2006 - 10:40:06 CDT)
  • Re: What unit system does VMD use? (Sat Sep 23 2006 - 21:03:01 CDT)
  • Re: What unit system does VMD use? (Fri Sep 22 2006 - 18:29:23 CDT)
  • Re: visualizing charges (Fri Sep 22 2006 - 14:18:16 CDT)
  • Re: What unit system does VMD use? (Thu Sep 21 2006 - 19:41:58 CDT)
  • Re: Paratool Problem (Thu Sep 21 2006 - 14:42:15 CDT)
  • Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 15:12:13 CDT)
  • Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 14:00:56 CDT)
  • Re: measure bond length? (Tue Sep 19 2006 - 12:03:23 CDT)
  • Re: rmsf (Tue Sep 19 2006 - 11:07:26 CDT)
  • Re: problem with -args in text mode (Mon Sep 18 2006 - 14:19:28 CDT)
  • Re: problem with -args in text mode (Fri Sep 15 2006 - 23:34:41 CDT)
  • Re: DPPC Bilayer Size (Thu Sep 14 2006 - 18:26:45 CDT)
  • Re: manually defining bonds, setting atom colors (Thu Sep 14 2006 - 16:39:36 CDT)
  • Re: Finding residues involved in Hbonds. (Thu Sep 14 2006 - 13:12:56 CDT)
  • Re: drawing of direction vectors for conformational transition (Thu Sep 14 2006 - 11:25:47 CDT)
  • Re: puts format (Wed Sep 13 2006 - 16:43:31 CDT)
  • Re: rdf plugin in vmd 1.85 (Wed Sep 13 2006 - 14:24:10 CDT)
  • Re: drawing of direction vectors for conformational transition (Wed Sep 13 2006 - 14:18:03 CDT)
  • Re: antialiasing (Wed Sep 13 2006 - 14:10:30 CDT)
  • Re: antialiasing (Wed Sep 13 2006 - 13:56:38 CDT)
  • Re: saving charges in the B column (Fri Sep 08 2006 - 19:27:52 CDT)
  • Re: protein in membrane (Fri Sep 08 2006 - 18:12:02 CDT)
  • Re: Min. Image Convention after Translation & Rotation (Fri Sep 08 2006 - 14:00:58 CDT)
  • Re: dipole moment (Fri Sep 08 2006 - 12:13:29 CDT)
  • Re: dipole moment (Fri Sep 08 2006 - 12:10:54 CDT)
  • Re: How to use bigdcd in vmd batch mode? (Fri Sep 08 2006 - 12:04:35 CDT)
  • Re: Min. Image Convention after Translation & Rotation (Thu Sep 07 2006 - 20:08:45 CDT)
  • Re: pass variables from the shell to VMD (Thu Sep 07 2006 - 11:51:01 CDT)
  • Re: slicing (Wed Sep 06 2006 - 11:46:23 CDT)
  • Re: dynamical list of atoms (Wed Sep 06 2006 - 10:54:30 CDT)
  • Re: imposing period boundary conditions in a simulation with a crystal (Wed Sep 06 2006 - 09:23:39 CDT)
  • Re: Matrix inverse (Tue Sep 05 2006 - 18:39:22 CDT)
  • Re: Matrix inverse (Tue Sep 05 2006 - 18:18:10 CDT)
  • Re: imposing period boundary conditions in a simulation with a crystal (Tue Sep 05 2006 - 12:00:19 CDT)
  • Re: Warning: poorly guessed coordinates using PsfGen (Tue Sep 05 2006 - 10:53:35 CDT)
  • Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 14:00:38 CDT)
  • Re: radial pair distribution function: molecule/water? (Mon Sep 04 2006 - 12:14:28 CDT)
  • Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 11:18:05 CDT)
  • Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 16:52:51 CDT)
  • looking for VMD draw scripts. (Fri Sep 01 2006 - 15:34:59 CDT)
  • Re: output file format (Fri Sep 01 2006 - 15:01:50 CDT)
  • Re: Where did I put those angles? (Thu Aug 31 2006 - 17:51:43 CDT)
  • Re: problem with vecsub, help with Tcl Script (Thu Aug 31 2006 - 12:59:32 CDT)
  • Re: output file format (Thu Aug 31 2006 - 10:52:13 CDT)
  • Re: Counting H-bonds from a dcd file (Tue Aug 29 2006 - 19:16:19 CDT)
  • Re: Counting H-bonds from a dcd file (Tue Aug 29 2006 - 17:42:56 CDT)
  • Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 11:55:49 CDT)
  • Re: loading gzipped trajectories into vmd (Tue Aug 29 2006 - 11:09:10 CDT)
  • Re: Problem with vmdsphere.frag shader (Mon Aug 28 2006 - 12:32:16 CDT)
  • Re: water numbering (Mon Aug 28 2006 - 11:41:53 CDT)
  • Re: gyration radius for a trajectory (Fri Aug 25 2006 - 09:40:54 CDT)
  • Re: animated gif option in VMD for Windows. (Thu Aug 24 2006 - 14:45:53 CDT)
  • Re: Unexpected End-of-file? (Wed Aug 23 2006 - 23:59:52 CDT)
  • Re: PRODRG generated .gro file (Tue Aug 22 2006 - 21:51:42 CDT)
  • Re: problems with autoionize (Tue Aug 22 2006 - 18:10:54 CDT)
  • Re: (Tue Aug 22 2006 - 07:46:27 CDT)
  • Re: Load (Thu Aug 17 2006 - 14:12:56 CDT)
  • Re: Question About Tcl variables (Wed Aug 16 2006 - 19:36:28 CDT)
  • Re: visualization code (Thu Aug 10 2006 - 00:00:11 CDT)
  • Re: Which VMD executible to use? (Tue Aug 08 2006 - 10:54:22 CDT)
  • Re: water model used for the waterbox in VMD (Tue Aug 08 2006 - 09:22:13 CDT)
  • Re: To display only certain regions of the .dx map in VMD (Mon Aug 07 2006 - 13:35:43 CDT)
  • Re: Atom selection based on arbitrary columns in the pdb file (Sat Aug 05 2006 - 12:05:51 CDT)
  • Re: select only border of the water box (Fri Aug 04 2006 - 07:01:53 CDT)
  • Re: Cannot run IED! :( (Thu Aug 03 2006 - 10:37:14 CDT)
  • Re: VASP plugins (Thu Aug 03 2006 - 09:42:01 CDT)
  • Re: Altering Definition of Molecular Coloring Method (Tue Aug 01 2006 - 07:29:44 CDT)
  • Re: rendering..... (Mon Jul 31 2006 - 17:58:57 CDT)
  • Re: Re: RDF.tcl (Fri Jul 28 2006 - 17:28:49 CDT)
  • Re: where is option "Image Smoothing"? (Wed Jul 26 2006 - 06:31:32 CDT)
  • Re: Rendering surfaces from PLT files (Mon Jul 24 2006 - 11:43:42 CDT)
  • Re: Rendering surfaces from PLT files (Sun Jul 23 2006 - 00:30:08 CDT)
  • Re: some parameters for TIP3P (Fri Jul 21 2006 - 18:25:19 CDT)
  • Re: some parameters for TIP3P (Fri Jul 21 2006 - 16:38:07 CDT)
  • Re: Mesa rendering (Thu Jul 20 2006 - 08:27:31 CDT)
  • Re: "Unable to create OpenGL window" (Tue Jul 18 2006 - 15:41:35 CDT)
  • Re: residue no. greater than 9999 in pdb files created with VMD (Wed Jul 12 2006 - 11:42:42 CDT)
  • Re: please, give me a tip (Tue Jul 11 2006 - 11:24:20 CDT)
  • Re: lammps and vmd (Tue Jul 11 2006 - 11:21:19 CDT)
  • Re: movies on a mac (Mon Jul 03 2006 - 11:30:24 CDT)
  • Re: Volume slices of Gaussian Cube Files: Color scale (Thu Jun 29 2006 - 17:50:24 CDT)
  • Re: Correlated motion (Wed Jun 28 2006 - 14:51:52 CDT)
  • Re: How to color the atoms based on the stress (Wed Jun 28 2006 - 05:46:21 CDT)
  • Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 22:17:01 CDT)
  • Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 19:53:00 CDT)
  • Re: Tcl commands on Mac (Mon Jun 26 2006 - 18:32:57 CDT)
  • Re: GLSL Compile Error (VMD 1.8.4, Nvidia Driver 8762) (Mon Jun 26 2006 - 06:28:22 CDT)
  • Re: bond information in psf file (Sat Jun 24 2006 - 22:51:13 CDT)
  • Re: animate with varying atom numbers (Sat Jun 10 2006 - 04:55:47 CDT)
  • Re: color protein based on an event during a trajectory (Wed Jun 07 2006 - 23:24:40 CDT)
  • Re: how to make movies from HISTORY file (Wed Jun 07 2006 - 07:01:03 CDT)
  • Re: Compilation (Thu May 25 2006 - 05:20:42 CDT)
  • RE: change default drawing and coloring method (Thu May 25 2006 - 05:06:12 CDT)
  • Re: color by charge (can colors be changed?) (Thu May 25 2006 - 05:02:29 CDT)
  • RE: Gaussian Cube file with VMD (Tue May 23 2006 - 15:34:04 CDT)
  • Re: change default drawing and coloring method (Mon May 22 2006 - 23:29:51 CDT)
  • Re: Gaussian Cube file with VMD (Mon May 22 2006 - 23:25:18 CDT)
  • Re: bug in membrane plugin (Mon May 15 2006 - 13:44:00 CDT)
  • Re: Plugin compilation (Mon May 15 2006 - 13:07:50 CDT)
  • Re: secondary structure assignment (Mon May 15 2006 - 04:52:05 CDT)
  • Re: How to select water near a certain residue if it is outside of the water box? (Sat May 13 2006 - 18:11:27 CDT)
  • Re: high resolution images (Thu May 11 2006 - 18:18:10 CDT)
  • Re: renderman output? (Wed May 10 2006 - 19:37:19 CDT)
  • Re: Fwd: How to pick up the lost periodic information? (Mon May 08 2006 - 11:46:49 CDT)
  • Re: plotting x y z data (Thu May 04 2006 - 07:01:39 CDT)
  • Re: search path and naming conventions for custom TCL scripts (Wed May 03 2006 - 10:29:29 CDT)
  • Re: coordinates of an atom (Tue May 02 2006 - 11:22:22 CDT)
  • Re: hiding and renaming of graphical objects (Fri Apr 28 2006 - 12:32:59 CDT)
  • Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 11:33:38 CDT)
  • Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 10:50:38 CDT)
  • Re: VMD-L: how to select water molecules between two residues in a trajectory. (Sat Apr 15 2006 - 20:31:11 CDT)
  • Re: distances (Tue Apr 11 2006 - 14:11:13 CDT)
  • Re: WARNING: Coordinates will be rotated to comply ... (Tue Apr 04 2006 - 14:26:01 CDT)
  • Re: extracting values from a dx file (Thu Mar 23 2006 - 20:22:21 CST)
  • Re: Strange GLSL rendering (Tue Mar 14 2006 - 09:12:33 CST)
  • Re: VMD script (Tue Mar 14 2006 - 08:20:53 CST)
  • Re: VMD script (Mon Mar 13 2006 - 18:40:14 CST)
  • Re: Convert an ascii matrix to an image (Sat Mar 11 2006 - 16:25:18 CST)
  • Re: pbc and vmd (Tue Mar 07 2006 - 09:55:27 CST)
  • Re: pbc and vmd (Mon Mar 06 2006 - 01:01:20 CST)
  • Re: color scale data range (Mon Feb 27 2006 - 08:20:34 CST)
  • Re: Mapping electronic potential to surface (Thu Feb 23 2006 - 22:47:20 CST)
  • Re: Mapping electronic potential to surface (Thu Feb 23 2006 - 00:55:53 CST)
  • Re: Problem installation on RedHat (Tue Feb 21 2006 - 01:10:52 CST)
  • Re: Problem with Hg, H (Mon Feb 20 2006 - 19:13:49 CST)
  • Re: vmd 1.8.b does not start up (Thu Feb 16 2006 - 22:11:29 CST)
  • fortran bindings for molfile library (Wed Feb 15 2006 - 09:31:54 CST)
  • Re: Problem with VMD 'animate' command (Sun Feb 12 2006 - 20:00:46 CST)
  • Re: uncompress files in tcl script (Thu Feb 09 2006 - 12:20:44 CST)
  • Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 06:16:54 CST)
  • Re: analysis script causes vmd to crash (Thu Feb 02 2006 - 22:03:15 CST)
  • Re: Can't load a large dcd? (Thu Jan 26 2006 - 07:09:22 CST)
  • Re: Can't load a large dcd? (Wed Jan 25 2006 - 10:52:41 CST)
  • Re: Changing Graphical Representations (Wed Jan 25 2006 - 06:53:15 CST)
  • Re: Changing Default Settings for VMD Main Window (Thu Jan 19 2006 - 08:02:47 CST)
  • Re: [vmd] max number of molecules on mac (Tue Jan 17 2006 - 06:32:23 CST)
  • Re: Trouble installing VMD (Tue Jan 10 2006 - 23:37:14 CST)
  • Re: loading a new molecule without changing the view (Fri Jan 06 2006 - 14:05:40 CST)
  • Re: animate transparency (Fri Jan 06 2006 - 07:07:43 CST)
  • Re: Building a sphere of atoms around a chosen atom (Tue Jan 03 2006 - 05:03:53 CST)
  • Re: changing default sec struct colors (Mon Jan 02 2006 - 16:12:46 CST)
  • Re: installation problem on solaris 9 (Sat Dec 31 2005 - 09:42:53 CST)
  • Re: breaking a big dcd file (Tue Dec 20 2005 - 18:58:28 CST)
  • Re: message in the console (Mon Dec 19 2005 - 14:59:27 CST)
  • Re: hbonds count (Wed Nov 30 2005 - 09:22:16 CST)
  • Re: How to efficiently update a surface (Tue Nov 29 2005 - 13:11:17 CST)
  • Re: Changing colors (Mon Nov 28 2005 - 14:56:54 CST)
  • Re: s-s bond in vmd not visualized (Wed Nov 23 2005 - 11:31:57 CST)
  • Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 08:54:02 CST)
  • Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 06:20:35 CST)
  • Re: load two or more molecuoles at one time (Wed Nov 16 2005 - 16:21:35 CST)
  • illegal mouse mode (Fri Nov 11 2005 - 13:33:13 CST)
  • Re: psfgen vs. x-plor (Wed Nov 09 2005 - 02:12:36 CST)
  • Re: IRIX6 build from CVS (Tue Nov 08 2005 - 07:01:51 CST)
  • Re: saving macros (Wed Nov 02 2005 - 08:43:58 CST)
  • Re: Cannot load Gromos96 trajectory file (attached) (Mon Oct 17 2005 - 19:37:14 CDT)
  • Re: making a movie (Thu Oct 13 2005 - 10:49:25 CDT)
  • Re: binning data for each frame and coordinate (Wed Oct 12 2005 - 13:34:37 CDT)
  • Re: Import gromos output file into VMD without format conversion? (Thu Sep 22 2005 - 07:32:55 CDT)
  • Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 14:17:54 CDT)
  • Re: counting selected atoms---selection time series (Thu Sep 01 2005 - 01:16:43 CDT)
  • Re: Problems with AMBER trajectories (MOVIE!) and crd-files (Tue Aug 30 2005 - 13:43:29 CDT)
  • Re: VMD fails to run (Sun Aug 21 2005 - 06:05:53 CDT)
  • Re: residue numbering TCL versus PDB (Fri Jul 29 2005 - 02:13:59 CDT)
  • Re: tcl syntax problem (Wed Jul 27 2005 - 15:09:23 CDT)
  • Re: residue numbering TCL versus PDB (Wed Jul 27 2005 - 07:36:48 CDT)
  • Re: VMD running slow (Mon Jul 25 2005 - 15:18:27 CDT)
  • Re: Coloring by BETA not updating per frame (Sun Jul 24 2005 - 02:29:44 CDT)
  • Re: exclude residues (Thu Jun 30 2005 - 15:54:32 CDT)
  • Re: do not compute/draw bonds? (Thu Jun 23 2005 - 12:26:44 CDT)
  • Re: phi and psi information (Thu Jun 23 2005 - 04:09:59 CDT)
  • Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Thu Jun 23 2005 - 02:34:26 CDT)
  • Re: Script for automated selection (Mon Jun 20 2005 - 12:58:41 CDT)
  • Re: namd-l: Re: multiple automated calls to NAMD (Fri Jun 10 2005 - 02:17:32 CDT)
  • Re: multiple automated calls to NAMD (Thu Jun 09 2005 - 02:38:35 CDT)
  • Re: Change representation default from lines to points (Thu Jun 02 2005 - 10:08:24 CDT)
  • Re: loading amber file (Wed Jun 01 2005 - 01:32:33 CDT)
  • Re: Open diff pdbs with diff # of atoms? (Sat May 14 2005 - 02:04:23 CDT)
  • RE: Rama plot (Tue May 10 2005 - 01:53:57 CDT)
  • Re: writing DCD files (Fri May 06 2005 - 07:00:05 CDT)
  • RE: color the surface with electrostatic potential value (Thu Apr 28 2005 - 01:12:24 CDT)
  • Re: Re:Re:missing bond problem (Wed Apr 27 2005 - 10:01:50 CDT)
  • Re: bond missimg (Mon Apr 25 2005 - 08:47:20 CDT)
  • Re: Sphere size (Sat Apr 23 2005 - 06:22:25 CDT)
  • Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:53:25 CDT)
  • Re: compressed trajectory support (Mon Apr 18 2005 - 12:47:01 CDT)
  • Re: compressed trajectory support (Mon Apr 18 2005 - 10:38:14 CDT)
  • Re: "Draw" different things in different frames (Sun Apr 17 2005 - 03:07:11 CDT)
  • Re: a question about get the coordinates in vector form (Fri Apr 15 2005 - 16:19:25 CDT)
  • Re: CA-CA distances in a trayectory (Thu Apr 14 2005 - 09:07:57 CDT)
  • Re: Customizing VMD Sessions (Thu Apr 14 2005 - 08:45:00 CDT)
  • Re: Customizing VMD Sessions (Thu Apr 14 2005 - 05:39:38 CDT)
  • Re: only vmd console (Wed Apr 13 2005 - 04:43:07 CDT)
  • Re: mpg image speed (Mon Apr 11 2005 - 17:08:05 CDT)
  • Re: vmd movie maker (Sun Apr 03 2005 - 03:11:22 CDT)
  • Re: about adding ions to an ion channel pore (Fri Apr 01 2005 - 01:46:50 CST)
  • Re: Maximum numbers of atoms (Wed Mar 30 2005 - 05:06:49 CST)
  • Re: GRD file format (Wed Mar 23 2005 - 01:33:31 CST)
  • Re: GRD file format (Tue Mar 22 2005 - 13:15:35 CST)
  • Re: vmd installation in rehdat7.3 (Tue Mar 22 2005 - 02:01:52 CST)
  • Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Mon Mar 21 2005 - 12:22:52 CST)
  • Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 15:45:06 CST)
  • Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Wed Feb 23 2005 - 14:29:22 CST)
  • Re: Catching error info before it shuts down ... (Fri Feb 18 2005 - 03:39:48 CST)
  • Re: determining vdw, elec, and others (Thu Feb 17 2005 - 03:43:21 CST)
  • Re: Defining Bonds in .xyz file format (Wed Feb 16 2005 - 06:09:46 CST)
  • Re: How to image molecules back into a PBC box? (Wed Feb 16 2005 - 06:02:17 CST)
  • Re: slowing the movie animation (Mon Feb 14 2005 - 03:45:59 CST)
  • Re: Distance calculation in TkConsole (Thu Feb 10 2005 - 07:44:33 CST)
  • Re: volume shading in 1.8.3b1 ? (Mon Feb 07 2005 - 14:27:53 CST)
  • Re: using gimp for converting jpg, tga ... images to high quality eps files (Mon Feb 07 2005 - 06:31:44 CST)
  • Re: using gimp for converting jpg, tga ... images to high quality eps files (Sat Feb 05 2005 - 04:58:35 CST)
  • Re: variable atom count in XYZ multiframe trajectory (Tue Feb 01 2005 - 13:59:08 CST)
  • Re: Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Tue Jan 11 2005 - 10:50:57 CST)
  • Re: Periodic box display feature suggestion (Mon Jan 10 2005 - 15:00:47 CST)
  • Re: Cluster Analysis given a dcd trajectory (Sat Jan 08 2005 - 13:28:55 CST)
  • Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 07:20:17 CST)
  • Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 06:37:21 CST)
  • Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 05:40:13 CST)
  • Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Thu Jan 06 2005 - 09:42:26 CST)
  • Re: pdb files (Wed Jan 05 2005 - 02:39:13 CST)
  • Re: how to represent H-bonds between chain A and chain B using VMD (Wed Jan 05 2005 - 02:29:52 CST)
  • Re: pdb files (Tue Jan 04 2005 - 14:02:50 CST)
  • Re: pdb files (Tue Jan 04 2005 - 01:33:53 CST)
  • Re: Re: your mail (Tue Jan 04 2005 - 01:25:10 CST)
  • Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 10:14:27 CST)
  • Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 08:37:37 CST)
  • Re: DynamicBonds representation (Thu Dec 16 2004 - 13:04:27 CST)
  • Re: getbonds for H-bonds request (Mon Nov 08 2004 - 13:31:35 CST)
  • Re: Selection of atoms and bond specific to MD snapshot (Sat Nov 06 2004 - 15:12:35 CST)
  • Re: VMD scripting questions (Fri Oct 29 2004 - 08:26:48 CDT)
  • Re: vmd customization (Thu Oct 28 2004 - 07:30:57 CDT)
  • Re: save states with relative directory structure (Wed Oct 20 2004 - 11:15:27 CDT)
  • Re: Changing color of a given atom (Wed Oct 13 2004 - 00:52:36 CDT)
  • Re: Specifying distances for bond cutoffs? (Wed Oct 13 2004 - 00:46:39 CDT)
  • Re: Basic VMD questions... (Sun Oct 10 2004 - 03:20:16 CDT)
  • Re: Basic VMD questions... (Fri Oct 08 2004 - 02:17:34 CDT)
  • Re: measuring h-bonds (Fri Sep 17 2004 - 01:16:45 CDT)
  • Re: measuring h-bond distances (Sun Sep 12 2004 - 06:18:27 CDT)
  • Re: torsion angle (Mon Sep 06 2004 - 09:28:52 CDT)
  • Re: Periodic display problem (Wed Aug 25 2004 - 01:52:26 CDT)
  • Re: Periodic display problem (Tue Aug 24 2004 - 09:56:02 CDT)
  • Re: Trajectory Files (Sun Aug 08 2004 - 13:36:35 CDT)
  • Re: reading structure *.xyz (Tue Jul 20 2004 - 17:39:02 CDT)
  • Re: loading .gz trajectory files (Tue Jul 20 2004 - 17:12:47 CDT)
  • Re: Unit cell coordinates and radial distribution functions (Tue Jul 20 2004 - 01:29:03 CDT)
  • visualization of electroly solvation shells (Mon Jul 19 2004 - 04:09:34 CDT)
  • Re: Box of non-polar solvent (Fri Jul 16 2004 - 11:59:45 CDT)
  • Re: Updated Bonding Connectivity each frame (Tue Jul 13 2004 - 15:28:17 CDT)
  • Re: element Si (Fri Jul 09 2004 - 12:11:46 CDT)
  • Re: width for triangle (Wed Jul 07 2004 - 09:06:32 CDT)
  • Re: periodic display and space group and VMD (Tue Jul 06 2004 - 14:18:34 CDT)
  • Re: your mail (Wed Jun 30 2004 - 16:39:38 CDT)
  • Re: Average coordinates (Thu Jun 24 2004 - 23:48:36 CDT)
  • Re: mpeg doesn't run on media player (Thu Jun 24 2004 - 23:27:22 CDT)
  • Re: visualizing trr files (Fri Jun 18 2004 - 13:46:13 CDT)
  • Re: Need a few testers for Linux version of VMD 1.8.3... (Fri Jun 11 2004 - 15:17:13 CDT)
  • Re: CUBIC box of system (Thu Jun 03 2004 - 12:44:37 CDT)
  • Re: display of electron density maps (Thu Jun 03 2004 - 11:50:29 CDT)
  • Re: CUBIC box of system (Thu Jun 03 2004 - 07:22:09 CDT)
  • Re: animating an iso-surface (Wed May 26 2004 - 15:48:49 CDT)
  • Re: draw lines (Wed May 26 2004 - 01:01:05 CDT)
  • Re: Iso-surfaces, VolumeSlices and tracing with VMD 1.8.2 (Mon May 24 2004 - 12:44:03 CDT)
  • Re: Non-protein Multiple-Frame File (Mon May 24 2004 - 08:59:05 CDT)
  • Re: changing the representation of all loaded molecules (Thu May 20 2004 - 13:35:08 CDT)
  • Re: changing the representation of all loaded molecules (Thu May 20 2004 - 02:34:14 CDT)
  • Re: Dynamic selection of residues in a trajectory (Wed May 19 2004 - 08:45:05 CDT)
  • Re: some visualization challenges (Mon May 17 2004 - 15:07:43 CDT)
  • some visualization challenges (Sun May 16 2004 - 14:03:11 CDT)
  • Re: Surface rendering crashes PC (Tue May 11 2004 - 10:05:08 CDT)
  • Re: variable atom number and dynamic bonds (Wed May 05 2004 - 13:22:24 CDT)
  • Re: Coloring with an XYZ file (Wed May 05 2004 - 01:28:00 CDT)
  • Re: error with top2psf (Wed Apr 21 2004 - 15:47:17 CDT)
  • Re: xyz plugin (Tue Apr 20 2004 - 01:55:15 CDT)
  • Re: xyz aluminium connectivity questions (Tue Apr 13 2004 - 11:27:30 CDT)
  • Re: Centering of the view on one atom (Wed Mar 31 2004 - 14:12:51 CST)
  • Re: Copying a selection (Mon Mar 22 2004 - 12:56:30 CST)
  • Re: gziped files (Tue Mar 09 2004 - 06:19:39 CST)
  • Re: waters within hydrophobic pore of protein (Mon Mar 01 2004 - 02:20:19 CST)
  • Re: Hydrogen Bond Energy (Thu Feb 26 2004 - 03:46:52 CST)
  • Re: tcl question (Sat Feb 07 2004 - 08:13:33 CST)
  • Re: Spatial Distributionb Functions (Thu Feb 05 2004 - 04:12:31 CST)
  • Re: PBC (Tue Jan 06 2004 - 16:49:44 CST)
  • Re: PBC (Tue Jan 06 2004 - 12:19:50 CST)
  • Announce: CPMD VMD visualization tutorial (Thu Dec 18 2003 - 13:25:56 CST)
  • Re: DCD unit cell data (Thu Oct 16 2003 - 04:59:29 CDT)
  • Re: saving bond-length information (Thu Sep 11 2003 - 06:36:48 CDT)
  • Re: Graphics workstation and Xenon problems with VMD? (Wed Aug 27 2003 - 10:19:44 CDT)
  • Re: Reg: No. of Frames (Mon Jul 28 2003 - 13:33:51 CDT)
  • Re: Reg: No. of Frames (Mon Jul 28 2003 - 02:13:51 CDT)
• AYTUG TUNCEL
  • NAMD to Amber (Thu Apr 06 2006 - 08:46:10 CDT)
• AyÅŸe Özlem Aykut
  • glycerol (Tue Oct 20 2009 - 03:13:57 CDT)
  • B factor calculation (Tue Nov 04 2008 - 10:51:24 CST)
• Ayþe Özlem Sezerman
  • VMD open GL Display problem (Tue Feb 27 2007 - 06:52:19 CST)
• Aziz, John
  • Generating a PSF for a Non-protien (Mon Mar 01 2010 - 08:27:10 CST)
• B
  • Re: Merge Structure changes coordinates to 0 (Wed Nov 11 2020 - 19:40:09 CST)
• B $B6Q
  • (no subject) (Mon Feb 16 2004 - 19:44:43 CST)
• B. Bennion
  • Re: centering seection on screen (Thu Apr 17 2003 - 09:50:32 CDT)
  • getting heavy atom contacts (Thu Mar 20 2003 - 12:40:59 CST)
  • atomselect (Tue Mar 18 2003 - 16:03:05 CST)
  • Re: Pls help me to render files with only traces of proteins! (Thu Feb 06 2003 - 13:23:01 CST)
  • Re: Pls help me to render files with only traces of proteins! (Wed Feb 05 2003 - 21:13:34 CST)
  • Re: compiling vmd... (Tue Jan 28 2003 - 10:09:33 CST)
  • Re: rendering from VMD (Tue Dec 17 2002 - 15:56:45 CST)
  • Re: rendering from VMD (Tue Dec 17 2002 - 14:36:07 CST)
  • Building VMD on windows 2000 (Mon Dec 16 2002 - 15:35:51 CST)
  • Re: CRD problems and CRD to DCD conversion (Wed Nov 13 2002 - 15:48:57 CST)
  • helices in coil (Tue Oct 29 2002 - 18:24:13 CST)
  • Re: core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 20:30:05 CDT)
  • Re: question on prmtop & prmcrd from leap (amber) (Fri Oct 18 2002 - 18:13:43 CDT)
  • Re: molden xyz movie (Fri Oct 11 2002 - 00:40:52 CDT)
  • Re: molden xyz movie (Thu Oct 10 2002 - 18:22:59 CDT)
  • residue rotation within single pdb file (Sun Jul 07 2002 - 02:27:32 CDT)
  • Plugin testing (Thu Jun 06 2002 - 12:07:05 CDT)
  • Re: opengl libraries (Tue Nov 27 2001 - 15:18:45 CST)
  • opengl libraries (Mon Nov 26 2001 - 12:23:49 CST)
  • compiling problems (Mon Nov 26 2001 - 11:35:50 CST)
  • Making UIobjects (Thu Oct 25 2001 - 11:13:27 CDT)
  • Re: new user animation question (Thu Oct 04 2001 - 10:37:32 CDT)
  • Re: new user animation question (Thu Oct 04 2001 - 00:47:08 CDT)
  • Coloring Sections of Peptides (Wed May 16 2001 - 15:26:01 CDT)
  • Re: Some newbie questions (Fri Apr 20 2001 - 10:40:20 CDT)
  • animation and reps (Sat Mar 31 2001 - 01:40:43 CST)
  • Molecule rotation (Thu Mar 08 2001 - 12:16:46 CST)
  • removing unwanted residues (Thu Aug 31 2000 - 11:57:00 CDT)
  • Re: animation (Wed Aug 30 2000 - 11:47:25 CDT)
  • hbond calculations (Tue Aug 29 2000 - 10:49:16 CDT)
  • PDB file output (Tue Jul 25 2000 - 11:59:40 CDT)
• B.D Allen
  • Re: CoordinateTransformation (Sun Sep 03 2006 - 20:38:38 CDT)
  • Re: VMD & FC 4.0 (Wed Jul 13 2005 - 16:30:12 CDT)
  • Iso-surfaces, VolumeSlices and tracing with VMD 1.8.2 (Mon May 24 2004 - 10:09:22 CDT)
• B.M.B. Vanschouwen
  • Reconstruction of XST data from DCD data (Sun May 01 2011 - 19:29:03 CDT)
  • Displaying an overlay of multiple structures with VMD (Tue Feb 08 2011 - 09:19:45 CST)
  • How to use VMD script "PorcupinePlot.tcl" (Mon Jan 31 2011 - 10:46:55 CST)
• Babban Mia
  • Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 21:39:41 CDT)
  • Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 21:15:32 CDT)
  • Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 08:42:09 CDT)
  • Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 07:10:18 CDT)
  • .COOR TO PDB FILE (Sat Aug 13 2011 - 01:11:48 CDT)
  • Solvation in VMD using Non Standard Solvent System (Wed Aug 10 2011 - 07:35:32 CDT)
  • Solvate a Protein for Explicit Solvent MD (Tue Aug 09 2011 - 04:16:03 CDT)
• Bachir Aoun
  • Re: export trajectory all frames coordinates to numpy array (Fri Jul 25 2014 - 10:34:43 CDT)
  • Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:13:27 CDT)
  • Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 16:33:06 CDT)
  • export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 13:58:49 CDT)
• Badmos, Sakiru
  • Viewing Isosurface from g_spatial on VMD (Mon Jan 23 2017 - 13:04:44 CST)
• Bahaa Mostafa
  • namdenergy plugin, selection field (Wed Jan 14 2015 - 23:56:13 CST)
  • Re: non-bonded interactions (Sun Dec 28 2014 - 00:39:47 CST)
  • Re: non-bonded interactions (Wed Dec 24 2014 - 23:42:56 CST)
  • non-bonded interactions (Wed Dec 24 2014 - 02:54:43 CST)
• Bailey, Steven
  • VTF (Thu Jul 18 2013 - 08:35:28 CDT)
• Bakary N'tji Diallo
  • running TCL script (Tue Sep 14 2021 - 04:19:12 CDT)
  • Transform structure to (Tue Oct 08 2019 - 01:20:35 CDT)
• Baker, Joseph
  • reading chain labels from amber prmtop (Fri Sep 08 2023 - 07:15:42 CDT)
• Bala subramanian
  • Re: viewing pca output (Fri May 02 2008 - 06:16:00 CDT)
  • viewing pca output (Thu Apr 24 2008 - 08:09:43 CDT)
• balas002_at_bama.ua.edu
  • Re: Making movies (Wed Jun 30 2004 - 12:26:26 CDT)
  • Re: Making movies (Tue Jun 29 2004 - 14:21:22 CDT)
  • Re: Making movies (Tue Jun 29 2004 - 10:37:40 CDT)
  • Re: Making movies (Mon Jun 28 2004 - 15:48:17 CDT)
  • Re: Making movies (Mon Jun 28 2004 - 14:40:14 CDT)
  • Re: Making movies (Wed Jun 23 2004 - 10:54:32 CDT)
  • Making movies (Tue Jun 22 2004 - 16:15:27 CDT)
• Balazs Jojart
  • Re: How to read pdbqt file? (Sun Sep 04 2011 - 01:41:08 CDT)
  • Re: Orienting a Protein (Fri Aug 12 2011 - 18:57:22 CDT)
  • Re: setenv: Too many arguments (Sat Oct 16 2010 - 00:53:21 CDT)
  • setenv: Too many arguments (Fri Oct 15 2010 - 16:34:52 CDT)
  • Re: Selecting AMBER ions Cl- and Na+ using VMD (Wed Mar 17 2010 - 13:29:27 CDT)
  • Re: masure distance trajectory - delete variable (Sun Jan 17 2010 - 13:20:20 CST)
  • masure distance trajectory - delete variable (Sun Jan 17 2010 - 05:11:07 CST)
  • Re: pbc wrap center on protein (Sat Dec 19 2009 - 14:56:22 CST)
  • pbc wrap center on protein (Sat Dec 19 2009 - 12:16:22 CST)
  • Re: helix axes (Tue Mar 31 2009 - 14:28:40 CDT)
  • Re: Re: periodic boundary conditions (yes, i read the tutorials) (Tue Jul 29 2008 - 01:21:17 CDT)
• BALCZIAK, LOUIS
  • Merging multiple PDB files (Mon Jun 15 2015 - 13:24:49 CDT)
• Balu, Radhakrishnan (Cont, ARL/WMRD)
  • RE: Making movies in VMD (UNCLASSIFIED) (Thu Dec 06 2007 - 15:28:03 CST)
  • (UNCLASSIFIED) (Tue Nov 27 2007 - 09:18:18 CST)
• Bamidele Adisa
  • removing surrounding water molecules (Fri Feb 13 2004 - 16:03:15 CST)
• Ban Arn
  • Volarea command line options (Wed Mar 22 2017 - 14:33:37 CDT)
  • Re: porcupine plot (Wed Feb 05 2014 - 10:19:39 CST)
  • Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 08:19:48 CST)
  • Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 04:19:09 CST)
  • Hole program for vmd hole tcl script (Tue Nov 20 2012 - 08:59:20 CST)
  • 3rd party tools- vmd (Tue Nov 06 2012 - 11:46:59 CST)
  • adding 3rdparty plugins in VMD-1.9.1 (Fri Oct 05 2012 - 07:00:11 CDT)
  • Re: Running ProcupinePlot script (Mon Jun 25 2012 - 04:16:28 CDT)
  • Re: Running ProcupinePlot script (Fri Jun 22 2012 - 12:30:56 CDT)
  • Re: Running ProcupinePlot script (Fri Jun 22 2012 - 12:04:04 CDT)
  • Re: Running ProcupinePlot script (Fri Jun 22 2012 - 11:54:15 CDT)
  • Re: Running ProcupinePlot script (Fri Jun 22 2012 - 11:53:33 CDT)
  • Running ProcupinePlot script (Fri Jun 22 2012 - 10:01:38 CDT)
  • VMD NMWiz plugin (Thu Jun 21 2012 - 11:16:08 CDT)
  • Re: helical content script (Tue May 01 2012 - 09:23:52 CDT)
  • helical content script (Tue May 01 2012 - 05:55:51 CDT)
  • Re: Hydrophobic mismatch script (Mon Apr 23 2012 - 05:29:34 CDT)
  • Hydrophobic mismatch script (Mon Apr 23 2012 - 04:08:28 CDT)
  • Re: Re: Thickness of bilayer script (Fri Apr 20 2012 - 05:30:38 CDT)
  • lipid order parameter (Mon Apr 16 2012 - 05:16:31 CDT)
  • Lipid order paramaeter script (Thu Apr 05 2012 - 04:35:52 CDT)
  • Re: secondary structure calculation (Thu Mar 29 2012 - 05:05:38 CDT)
  • Re: secondary structure calculation (Wed Mar 28 2012 - 04:47:27 CDT)
  • secondary structure calculation (Tue Mar 27 2012 - 11:55:24 CDT)
  • Input selection as xyz co-ordinates (Wed Feb 22 2012 - 09:09:33 CST)
  • SASA -tcl script (Tue Feb 21 2012 - 12:36:07 CST)
  • Re: Tcl script error (Thu Feb 09 2012 - 16:17:48 CST)
  • Re: Tcl script error (Wed Feb 08 2012 - 15:59:22 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 11:57:57 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 12:05:49 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 11:28:12 CST)
  • Re: Tcl script error (Mon Feb 06 2012 - 11:12:12 CST)
  • Tcl script error (Mon Feb 06 2012 - 10:50:14 CST)
  • floating error - tcl script (Fri Feb 03 2012 - 04:51:11 CST)
  • Re: Error while running steered MD script (Fri Feb 03 2012 - 03:07:34 CST)
  • Re: Error while running steered MD script (Thu Feb 02 2012 - 17:29:02 CST)
  • Error while running steered MD script (Thu Feb 02 2012 - 10:24:18 CST)
  • Calculation of ligand displacement Vs time (Mon Jan 30 2012 - 03:53:27 CST)
  • vmd ligand fluctuation analysis (Fri Dec 16 2011 - 09:28:41 CST)
  • Binding site similarity (Mon Dec 05 2011 - 09:51:55 CST)
  • tcl script (Fri Nov 25 2011 - 12:16:47 CST)
  • Re: radius of gyration (Wed Nov 02 2011 - 16:02:45 CDT)
  • radius of gyration (Wed Nov 02 2011 - 14:41:09 CDT)
  • Re: VMD display residues (Wed Aug 31 2011 - 04:28:35 CDT)
  • VMD display residues (Tue Aug 30 2011 - 12:14:35 CDT)
  • Re: VMD movie (Tue Aug 30 2011 - 12:10:26 CDT)
  • VMD movie (Tue Aug 30 2011 - 10:31:58 CDT)
  • Water in binding site (Mon Aug 29 2011 - 04:47:53 CDT)
  • Re: Aligning two proteins of varying atom numbers (Sun May 22 2011 - 16:25:11 CDT)
  • Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 09:04:53 CDT)
  • Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 06:37:47 CDT)
  • Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 04:23:12 CDT)
  • Re: Aligning two proteins of varying atom numbers (Thu May 19 2011 - 11:37:40 CDT)
  • Aligning two proteins of varying atom numbers (Thu May 19 2011 - 10:43:10 CDT)
  • X & Y co-ordinate data (Sun May 01 2011 - 11:27:39 CDT)
  • 2D Contour plot (Wed Apr 06 2011 - 05:06:09 CDT)
  • Re: script for projection of c-alpha atom cordinates on xy plane (Tue Mar 22 2011 - 05:00:42 CDT)
  • Re: script for projection of c-alpha atom cordinates on xy plane (Mon Mar 21 2011 - 10:37:03 CDT)
  • script for projection of c-alpha atom cordinates on xy plane (Fri Mar 18 2011 - 12:58:19 CDT)
  • Re: tcl script (Fri Mar 11 2011 - 11:15:51 CST)
  • tcl script (Fri Mar 11 2011 - 09:06:00 CST)
  • Re: Helix motions (Wed Feb 09 2011 - 10:50:45 CST)
  • Helix motions (Mon Feb 07 2011 - 05:29:31 CST)
  • CA distance command (Thu Feb 03 2011 - 08:16:14 CST)
  • Re: water molecule count (Tue Feb 01 2011 - 10:25:52 CST)
  • water molecule count (Tue Feb 01 2011 - 08:56:55 CST)
  • Side-chain Dihedrals (Tue Feb 01 2011 - 05:07:19 CST)
  • Water mediated hydrogen bond - VMD script (Tue Oct 26 2010 - 13:31:42 CDT)
  • Water-mediated hydrogen bonds (Tue Sep 28 2010 - 04:19:30 CDT)
  • Hydrogen bonds (Tue Sep 21 2010 - 11:17:10 CDT)
  • 2D RMSD matrix plot (Fri Jul 30 2010 - 05:52:02 CDT)
  • Dihedrals Angle (Wed Jul 28 2010 - 11:43:47 CDT)
  • Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 07:55:33 CDT)
  • Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 08:01:54 CDT)
  • Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 07:45:52 CDT)
  • 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 05:50:21 CDT)
  • 2D rmsd plot for C-alpha atoms (Tue Jul 27 2010 - 10:55:48 CDT)
  • Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:18:23 CDT)
  • Hydrophobic interaction (Fri Jun 18 2010 - 07:30:45 CDT)
  • Hydrophobic interaction (Fri Jun 18 2010 - 06:53:37 CDT)
  • Hydrophobic interaction (Fri Jun 18 2010 - 05:59:43 CDT)
  • Re: Interaction Energy (Wed Jun 02 2010 - 16:17:14 CDT)
  • Re: Interaction Energy (Wed Jun 02 2010 - 11:35:57 CDT)
  • Interaction Energy (Wed Jun 02 2010 - 07:29:38 CDT)
• BAN,YOUNG MIN
  • Bond representation of coarse grained molecules (Wed Sep 02 2009 - 16:52:23 CDT)
• Bankf of the West
  • eTimeBanker Bill Pay Service (Wed Aug 24 2005 - 11:02:50 CDT)
• Baofu Qiao
  • Re: Bond representation of coarse grained molecules (Wed Oct 07 2009 - 02:21:14 CDT)
• baogen duan
  • load two or more molecuoles at one time (Tue Nov 15 2005 - 21:42:53 CST)
  • add a new file to vmd1.8.3 on linux(FC4) (Sun Oct 30 2005 - 21:50:22 CST)
  • add a new file type to VMD on linux(FC4) (Thu Oct 27 2005 - 22:32:59 CDT)
  • Hello! (Sat Oct 08 2005 - 05:54:54 CDT)
  • Hello! (Mon Sep 26 2005 - 08:52:05 CDT)
• Baoqiang Cao
  • write pdb and psf with missing segments in original pdb file (Tue Sep 27 2005 - 21:10:07 CDT)
  • an inconsistance between psf file and coor file after equilibration (Sun May 22 2005 - 22:28:16 CDT)
• Barbault Florent
  • inorganic builder (Wed Jun 07 2017 - 03:31:16 CDT)
  • problem with 1.8.7 installation (Tue Aug 25 2009 - 04:50:41 CDT)
  • Re: problem (Fri Feb 13 2009 - 05:24:39 CST)
  • problem (Wed Feb 11 2009 - 02:41:52 CST)
• barrett
  • Apple VMD not showing gro file properly (Tue Feb 10 2004 - 07:56:50 CST)
  • RE: movie making in batch mode (Fri Feb 06 2004 - 04:57:01 CST)
  • movie making in batch mode (Tue Dec 16 2003 - 10:07:33 CST)
  • RE: python: packages not found also... (Mon Sep 08 2003 - 05:44:12 CDT)
  • RE: python: cannot find library (Thu Aug 07 2003 - 03:28:12 CDT)
  • python: cannot find library (Wed Aug 06 2003 - 04:53:06 CDT)
• Barry Bickmore
  • trajectory analysis (Wed Sep 23 2009 - 11:39:08 CDT)
  • bonds across periodic boundaries (Tue Oct 16 2007 - 08:53:09 CDT)
• Barry Isralewitz
  • Re: unable to animate alanine.dcd (Sat Dec 06 1997 - 07:30:28 CST)
  • Re: alter crosshair appearance (Fri Jun 22 2018 - 13:18:31 CDT)
  • Re: Obtaining VMD view matrices for tcl script (Wed Feb 21 2018 - 13:55:31 CST)
  • Re: VMD interface and TkConsole font (Fri Dec 08 2017 - 15:36:09 CST)
  • Re: Accessing Mapped Drive Files on iMac (Fri May 12 2017 - 14:11:13 CDT)
  • Re: Accessing Mapped Drive Files on iMac (Fri May 12 2017 - 12:01:17 CDT)
  • Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:29:54 CDT)
  • Re: Heat mapper (Mon Oct 08 2012 - 13:09:39 CDT)
  • Re: Support for Retina displays? (Sun Sep 30 2012 - 12:08:42 CDT)
  • Re: what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? (Mon May 07 2012 - 12:32:42 CDT)
  • Re: Plotting of Co-ordinates on VMD (Fri Mar 30 2012 - 14:25:06 CDT)
  • Re: secondary structure calculation (Tue Mar 27 2012 - 12:44:38 CDT)
  • Re: VMD Contact map through time (Wed Feb 08 2012 - 16:47:22 CST)
  • Re: Visualizing Timeline (tml) data w/o having to load trajectories (Thu Oct 27 2011 - 13:25:08 CDT)
  • Re: time line (Wed Mar 16 2011 - 15:03:45 CDT)
  • Re: contact map for Protein-DNA interaction (Mon Jul 12 2010 - 13:50:25 CDT)
  • Re: your mail (Tue Jan 02 2007 - 12:21:16 CST)
  • Re: [jrodgers78@gmail.com: outputing secondary structure from timeline] (Mon Jan 23 2006 - 15:16:42 CST)
  • Re: aligntool (Thu Feb 13 2003 - 19:33:38 CST)
  • Re: Animating Trajectories/NAMD Output files (Wed May 08 2002 - 11:37:05 CDT)
  • Re: Animating Trajectories/NAMD Output files (Wed May 08 2002 - 11:01:26 CDT)
  • Re: Animating Trajectories/NAMD Output files (Tue May 07 2002 - 22:15:21 CDT)
  • Re: secondary structure (Tue Dec 11 2001 - 11:46:33 CST)
  • Re: making a movie of trajectory file animation (Thu Nov 08 2001 - 15:51:55 CST)
  • Re: fixing a molecule (Wed Aug 01 2001 - 17:40:06 CDT)
  • Announce: ZoomSeq -- sequence browser for VMD (Thu Dec 28 2000 - 14:54:20 CST)
  • Re: povray images allways perspective? (Thu Dec 14 2000 - 11:02:29 CST)
  • Re: CCL:program for viewing MD (Mon Oct 23 2000 - 11:55:02 CDT)
  • Re: Using VMD to edit dynamics output (Mon Oct 02 2000 - 01:07:39 CDT)
  • Re: Prachi Singh's mail (Mon Jun 05 2000 - 16:19:59 CDT)
• Bart Bruininks
  • Custom selection variable (Tue Aug 08 2023 - 09:12:23 CDT)
  • Coloring/material of ply files (Tue Nov 15 2022 - 09:29:59 CST)
  • Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Tue Jun 16 2020 - 07:29:14 CDT)
  • Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 11:07:58 CDT)
  • Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 08:37:09 CDT)
  • Re: Black screen OPTIX interactive rendering (Wed Jun 10 2020 - 08:20:49 CDT)
  • VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 08:05:10 CDT)
  • Black screen OPTIX interactive rendering (Wed Jun 10 2020 - 05:22:39 CDT)
  • Re: resname X and pbwithin resname X excluding intramolecular (Sat Jun 06 2020 - 14:47:30 CDT)
  • resname X and pbwithin resname X excluding intramolecular (Fri Jun 05 2020 - 08:14:43 CDT)
  • Re: Files not written during OptiX ray tracing (Fri Dec 13 2019 - 05:01:18 CST)
  • Re: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 17:06:26 CST)
  • Re: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 11:00:50 CST)
  • Files not written during OptiX ray tracing (Thu Dec 05 2019 - 10:56:54 CST)
  • Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 05:54:10 CST)
  • Adaptive real time selection and coloring in default display (Thu Jun 27 2019 - 10:05:11 CDT)
  • Some bugs and questions about the 1.9.4a29 version (Mon Apr 29 2019 - 03:57:59 CDT)
  • Rasterized default display rendering vs ray-tracing (interactive) (Wed Apr 17 2019 - 06:02:46 CDT)
• Bartek Dobrzelecki
  • Labels (atom type, partial charge) (Thu Jul 17 2003 - 06:00:22 CDT)
• Basak Isin
  • Reference to SASA calculation in VMD (Tue Oct 18 2005 - 10:12:24 CDT)
• Basanta Acharya
  • Re: Vmd uninstallation and reinstallation (Tue Oct 06 2020 - 21:43:56 CDT)
  • shifting of ions from +z to -z in a single frame(1ps) (Tue Oct 06 2020 - 21:39:01 CDT)
  • TCL force script (Thu Oct 01 2020 - 02:29:01 CDT)
  • Regarding arsorite files (Tue Sep 15 2020 - 06:59:12 CDT)
• Basheer Subei
  • Re: Oculus Rift (Sun Nov 02 2014 - 15:26:31 CST)
  • Re: Autoi::sod2pot problem in "Modeling Nanopores for Sequencing DNA" tutorial (Fri Aug 15 2014 - 14:07:12 CDT)
  • Autoi::sod2pot problem in "Modeling Nanopores for Sequencing DNA" tutorial (Fri Aug 15 2014 - 13:45:20 CDT)
• Bashir
  • XYZ (Thu Dec 01 2016 - 10:52:03 CST)
  • Psf format (Sat Aug 16 2014 - 12:28:49 CDT)
• Bashir Fotouhi
  • Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 02:23:59 CDT)
  • Graphene (Sat Jul 12 2014 - 04:55:12 CDT)
• Bassam Haddad
  • FFTK Parameterization of Halogenated Molecule (Thu May 05 2022 - 11:24:24 CDT)
  • Re: FFTK segmentation fault when guessing charge groups (Fri Dec 03 2021 - 07:09:39 CST)
  • FFTK segmentation fault when guessing charge groups (Fri Dec 03 2021 - 02:35:30 CST)
  • Re: FFTK - ORCA (Thu Sep 30 2021 - 11:07:34 CDT)
  • Re: FFTK - ORCA (Tue Sep 28 2021 - 15:21:28 CDT)
  • Re: FFTK - ORCA (Tue Sep 21 2021 - 10:34:26 CDT)
  • Re: FFTK - ORCA (Sat Sep 18 2021 - 11:02:25 CDT)
  • FFTK - ORCA (Mon Sep 13 2021 - 04:41:40 CDT)
  • Re: Manipulating volumes in VMD (Fri Dec 18 2020 - 13:21:00 CST)
  • Manipulating volumes in VMD (Thu Dec 10 2020 - 16:18:23 CST)
  • Re: VMD Align command (Mon Oct 19 2020 - 17:07:54 CDT)
  • Re: Error in PSFGEN (Mon Oct 19 2020 - 15:45:28 CDT)
  • Re: Error in PSFGEN (Mon Oct 19 2020 - 12:38:16 CDT)
  • Re: Error in PSFGEN (Wed Oct 14 2020 - 20:22:12 CDT)
  • Error in PSFGEN (Wed Oct 14 2020 - 18:15:45 CDT)
  • Re: Unusual coordinates in PDB files exracted from dcd file (Sun Sep 20 2020 - 17:21:56 CDT)
  • Re: Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 13:31:24 CDT)
  • Re: Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 12:58:36 CDT)
  • Re: analyzing amino acids forming pore constrictions in a channel protein (Tue Jun 02 2020 - 12:33:03 CDT)
  • Re: analyzing amino acids forming pore constrictions in a channel protein (Tue Jun 02 2020 - 11:44:55 CDT)
  • Re: Minmax command (Sun Mar 01 2020 - 12:09:38 CST)
  • Re: voltool mask usage (Sat Feb 08 2020 - 03:10:55 CST)
  • Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 11:18:32 CDT)
  • Re: Scripting with volumes (Fri Jul 26 2019 - 15:19:02 CDT)
  • Scripting with volumes (Thu Jul 25 2019 - 16:45:32 CDT)
  • Re: Merging two proteins (Mon Jun 17 2019 - 15:50:19 CDT)
  • Re: User-defined coloring (Thu Jun 06 2019 - 15:41:21 CDT)
  • Re: Issues with Tcl script for MD Prep (Tue May 28 2019 - 14:29:05 CDT)
  • Re: Centering an atom over the length of a trajectory (Tue Feb 26 2019 - 16:25:15 CST)
  • Re: Centering an atom over the length of a trajectory (Tue Feb 26 2019 - 16:30:29 CST)
  • Re: extracting 1-D data from a volumetric file (Thu Feb 21 2019 - 16:02:08 CST)
  • extracting 1-D data from a volumetric file (Thu Feb 21 2019 - 12:47:04 CST)
• Baumert, Uwe Dr.rer.nat.
  • VMD 1.8.7 beta5 probs with NVIDIA Quadro FX3450/4000 graphic card (Mon Jun 22 2009 - 04:18:54 CDT)
• baxy
  • inserting protein into membrane (Thu May 17 2007 - 08:39:58 CDT)
  • Sequences and BLAST searching (Wed Nov 15 2006 - 06:51:22 CST)
  • Sequences and BLAST searching (Wed Nov 15 2006 - 06:47:08 CST)
• bbickmore_at_comcast.net
  • setting unit cell dimensions (Sun Oct 14 2007 - 23:07:50 CDT)
• Beat Meier
  • vmd freezes for certain files on MacOs 10.10.4 (Thu Aug 13 2015 - 02:17:10 CDT)
  • custom color on surface plot (Thu Apr 10 2014 - 09:09:05 CDT)
  • manually change secondary structure (Fri Feb 21 2014 - 07:46:02 CST)
• Behnam Ghalami
  • Re: VMD does not display bonds (Fri Nov 09 2018 - 13:27:27 CST)
  • VMD does not display bonds (Wed Nov 07 2018 - 02:26:03 CST)
• Behrmann, Elmar
  • Dowser-plugin with RNA (Wed Oct 16 2013 - 07:36:12 CDT)
• Ben Chern
  • Re: Using namdenergy in batch mode to compute dihedral energies (Sun Apr 13 2008 - 20:49:26 CDT)
  • Re: Compiling VMD under Windows XP (Thu Apr 03 2008 - 07:14:22 CDT)
  • Re: Compiling VMD under Windows XP (Tue Apr 01 2008 - 20:26:36 CDT)
  • Re: Compiling VMD under Windows XP (Tue Apr 01 2008 - 01:33:34 CDT)
  • Re: Compiling VMD under Windows XP (Mon Mar 31 2008 - 21:39:41 CDT)
  • Re: using cvs under Windows XP (Mon Mar 31 2008 - 10:21:11 CDT)
  • using cvs under Windows XP (Mon Mar 31 2008 - 08:31:31 CDT)
  • Compiling VMD under Windows XP (Mon Mar 31 2008 - 04:13:38 CDT)
  • Re: Can VMD show the interactions between different structure part? (Thu Mar 27 2008 - 20:26:13 CDT)
  • Re: Can VMD show the interactions between different structure part? (Thu Mar 27 2008 - 06:35:56 CDT)
  • Can VMD show the interactions between different structure part? (Wed Mar 26 2008 - 22:20:57 CDT)
  • Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 22:12:12 CDT)
  • Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 20:44:00 CDT)
  • Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 04:02:04 CDT)
• Ben Cornett
  • 1.6.1 hotkey problem (Wed May 02 2001 - 13:05:47 CDT)
  • Re: SGI O2 stereo problems (Thu Mar 09 2000 - 12:13:20 CST)
• Ben Cossins
  • Re: Install of VMD on amazon linux2 NICE DCV server (Sun Nov 14 2021 - 13:29:37 CST)
  • Install of VMD on amazon linux2 NICE DCV server (Sat Nov 06 2021 - 10:56:34 CDT)
• Ben Eisenbraun
  • Re: Mac and cmd line (Mon Aug 24 2009 - 15:50:58 CDT)
• Ben Hall
  • Unusual visualisations (Wed Feb 01 2012 - 09:54:01 CST)
  • Quantitative meaning of volmap isosurface (Tue Jan 31 2012 - 06:01:20 CST)
• Ben Hanson
  • RE: topo guessatom (Tue Feb 10 2015 - 09:25:05 CST)
  • RE: topo guessatom (Tue Feb 10 2015 - 08:22:02 CST)
  • topo guessatom (Mon Feb 09 2015 - 12:03:14 CST)
• Ben Lowe
  • Re: Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Tue Nov 15 2016 - 12:44:53 CST)
  • Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Fri Nov 11 2016 - 11:32:47 CST)
• Ben Roberts
  • Re: TCL strangeness (Thu Dec 08 2011 - 21:17:45 CST)
  • Re: TCL strangeness (Thu Dec 08 2011 - 20:07:16 CST)
  • Re: Error encountered when quitting VMD on the Mac (Wed Oct 13 2010 - 12:39:07 CDT)
  • Re: Error encountered when quitting VMD on the Mac (Mon Sep 13 2010 - 21:12:37 CDT)
  • Error encountered when quitting VMD on the Mac (Mon Sep 13 2010 - 16:55:53 CDT)
  • Closing filehandles in vmd tcl script (Thu Jan 20 2005 - 21:05:51 CST)
  • Re: Unit cell coordinates and radial distribution functions (Thu Jul 22 2004 - 20:27:18 CDT)
  • Unit cell coordinates and radial distribution functions (Mon Jul 19 2004 - 21:12:38 CDT)
• Ben Rodriguez
  • Saving coordinates that meet selection criteria for each frame (Tue Apr 17 2012 - 18:28:43 CDT)
  • VMD 1.8.7 and NVIDIA 256.35 driver problems (CUDA issue?) (Thu Jun 24 2010 - 14:29:18 CDT)
  • Is nvidia 3D Vision + quadro working in linux (Tue Apr 27 2010 - 17:16:48 CDT)
  • Displaying local water molecules throughout trajectory (Thu Feb 26 2009 - 14:47:26 CST)
  • Unrecognized Chains in VMD for tetrameric protein (Thu Feb 19 2009 - 18:14:55 CST)
  • Calculating pocket volume (Thu Aug 28 2008 - 16:37:55 CDT)
• Ben Rousseau
  • Loading .vel files into vmd (Wed Dec 02 2015 - 11:42:00 CST)
• Benedetta Sampoli Benitez
  • PBC wrap with an octahedral water box (Wed Jan 27 2021 - 11:44:46 CST)
• Beniamino Sciacca
  • problem with vmd (Tue Mar 28 2006 - 13:44:37 CST)
• Benj FitzPatrick
  • Re: VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Wed Feb 27 2013 - 17:32:20 CST)
  • VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Thu Jan 17 2013 - 14:47:11 CST)
• Benjamin Bouvier
  • Binary VMD buid for Linux, text mode only (Wed Mar 03 2010 - 09:26:20 CST)
  • Re: Principle Component Analysis of Protein PDB Structures (Mon Feb 22 2010 - 14:43:40 CST)
  • Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 (Wed Feb 17 2010 - 10:50:33 CST)
  • HOOMD plugin (Tue Jan 12 2010 - 11:04:08 CST)
  • Re: vmd mailing list (Fri Oct 16 2009 - 03:46:43 CDT)
  • Re: model protein chain not displayed properly (Mon Sep 28 2009 - 14:54:09 CDT)
  • Re: namd-l: how to write a command to close vmd in shell script? (Mon Aug 10 2009 - 03:07:38 CDT)
  • Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 11:33:47 CDT)
  • Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 10:45:37 CDT)
  • Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 10:28:17 CDT)
  • VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 09:48:29 CDT)
  • Re: get a PDB file from DCD file (Tue Jan 27 2009 - 09:49:51 CST)
  • Re: odd render problems with Vista (Sun Jan 11 2009 - 14:20:04 CST)
  • Re: script that reacts on movement of frameslider in vmd main (Mon Dec 01 2008 - 09:28:55 CST)
  • Re: Per-frame 'graphics'? (Fri Oct 31 2008 - 13:36:24 CDT)
  • Per-frame 'graphics'? (Fri Oct 31 2008 - 10:46:03 CDT)
  • Re: reading multiples molecules. (Tue Oct 28 2008 - 06:15:45 CDT)
  • Re: Improving VMD performance on Linux? (Mon Oct 20 2008 - 06:05:26 CDT)
  • Re: Deleting frames / molecules does not free up memory! (Tue Oct 14 2008 - 11:34:44 CDT)
  • Deleting frames / molecules does not free up memory! (Tue Oct 14 2008 - 10:26:55 CDT)
  • Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X (Wed Jul 30 2008 - 10:36:17 CDT)
  • 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X (Wed Jul 30 2008 - 09:37:32 CDT)
• Benjamin Cowen
  • Writing Lammps data file (Sat Apr 04 2015 - 21:46:30 CDT)
  • Re: Bond error (Sun Aug 04 2013 - 18:07:39 CDT)
  • Re: Bond error (Sat Aug 03 2013 - 16:07:17 CDT)
  • Bond error (Fri Aug 02 2013 - 15:25:37 CDT)
  • Macromolecule? (Tue Jul 02 2013 - 18:38:55 CDT)
• Benjamin Goldsteen
  • Re: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 11:15:44 CDT)
  • Re: Choice of a Linux machine for VMD and high-end computing (Wed Apr 06 2005 - 16:58:07 CDT)
  • Re: stereo for XP and Linux (Wed Jan 12 2005 - 18:04:44 CST)
  • Re: msms and vmd on amd athlon64. (Mon Mar 15 2004 - 14:18:16 CST)
  • Re: color problem with Ati Fire GL E1 (Wed Mar 03 2004 - 22:23:31 CST)
  • Re: vmd crashes after startup... (Wed Dec 03 2003 - 22:46:17 CST)
  • Fwd: Re: graphics card (Sun Nov 30 2003 - 19:02:23 CST)
  • Re: VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Sun Nov 09 2003 - 20:49:02 CST)
• Benjamin Hall
  • Re: Quantitative meaning of volmap isosurface (Tue Jan 31 2012 - 07:32:50 CST)
  • Re: For loops decelerate (Mon Jun 06 2011 - 16:28:31 CDT)
  • Re: For loops decelerate (Fri Jun 03 2011 - 11:23:25 CDT)
  • For loops decelerate (Thu Jun 02 2011 - 03:39:02 CDT)
  • Re: Batch mode on Mac OS 10.5.3 (Wed Jun 04 2008 - 08:26:23 CDT)
  • Batch mode on Mac OS 10.5.3 (Tue Jun 03 2008 - 05:16:52 CDT)
  • Measuring fit exclusively in 1 plane (Thu May 01 2008 - 04:59:04 CDT)
  • Re: Re: porcupine plot (Thu Apr 03 2008 - 12:00:11 CDT)
  • Re: porcupine plot (Wed Apr 02 2008 - 17:30:49 CDT)
• Benjamin Hill
  • changing molid number (Mon Jul 04 2016 - 16:02:27 CDT)
• Benjamin Joseph Coscia
  • .gro files written with python script not displayed until strange modification (Thu Feb 02 2017 - 14:51:44 CST)
• Benjamin Kaduk
  • Re: Out of memory when loading 700 MB trajectory file (Fri Sep 11 2015 - 11:59:13 CDT)
  • Re: Drawing circles and tooltips. (Fri Feb 28 2014 - 23:22:48 CST)
  • Re: Drawing circles and tooltips. (Fri Feb 28 2014 - 21:57:36 CST)
  • Re: vmd in Debian (Thu Sep 12 2013 - 18:19:33 CDT)
  • Re: Coloring lots of Groups (Thu Dec 06 2012 - 13:48:37 CST)
  • Re: Q-chem MD output with VMD? (Wed Sep 19 2012 - 09:07:18 CDT)
  • lib/stride/README (Mon Mar 19 2012 - 21:57:22 CDT)
  • plugins/hesstrans/Makefile recurses on CXXFLAGS (Mon Mar 19 2012 - 21:42:36 CDT)
• Benjamin SCHWARZ
  • loading a new molecule without changing the view (Fri Jan 06 2006 - 08:01:05 CST)
• Benjamin Stauch
  • parallel VMD (Tue Sep 16 2008 - 07:47:16 CDT)
• Benjamin.Haberl_at_physik.uni-muenchen.de
  • MDFF with two symmetry groups (Tue May 17 2016 - 14:48:19 CDT)
• Bennion, Brian
  • Re: Trajectory Smoothing and length of hydrogen bonds (Thu May 11 2023 - 16:52:32 CDT)
  • Re: ChatGPT knows basic VMD scripting... (Mon Feb 13 2023 - 11:28:20 CST)
  • Re: QMMM Update (Fri Oct 21 2022 - 14:44:12 CDT)
  • support for gromacs topology files (Wed Nov 24 2021 - 14:20:11 CST)
  • Re: Switching from MP2 in FFTK? (Fri Mar 26 2021 - 13:19:52 CDT)
  • Re: PDB Format (Thu Dec 17 2020 - 22:44:26 CST)
  • adding modified residue into psf file from pdb (Mon Jan 13 2020 - 17:20:32 CST)
  • Re: How to calculate water density. (Mon Jun 17 2019 - 14:38:04 CDT)
  • Re: How to calculate water density. (Mon Jun 17 2019 - 10:44:55 CDT)
  • RE: VMD Text Mode (Thu Mar 07 2019 - 19:07:49 CST)
  • Re: tcl script to pull pdb file from tgz (Fri Jun 22 2018 - 11:19:24 CDT)
  • Vmd tcl versions (Mon Jun 18 2018 - 11:04:01 CDT)
  • tcl script to pull pdb file from tgz (Fri Jun 15 2018 - 10:08:50 CDT)
  • Re: PDB Question (Mon Apr 23 2018 - 12:34:18 CDT)
  • RE: VMD Segfault Fedora 27 (Tue Mar 06 2018 - 15:01:16 CST)
  • Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 10:45:35 CST)
  • RE: rlwrap: Command not found. (Tue Sep 05 2017 - 10:31:58 CDT)
  • RE: Study the hydrogen bond in VMD (Tue Sep 05 2017 - 10:31:57 CDT)
  • Re: VMD and latest XQuartz update (Tue Apr 11 2017 - 09:56:53 CDT)
  • RE: zoom and focus on on a selection (Tue Mar 14 2017 - 10:31:59 CDT)
  • RE: Usage of the Orient package (Tue Mar 07 2017 - 12:07:27 CST)
  • RE: pdb reader plugin error checking (Thu Sep 22 2016 - 13:28:07 CDT)
  • pdb reader plugin error checking (Tue Sep 20 2016 - 13:47:26 CDT)
  • list structure in measure cluster output (Fri Jul 22 2016 - 11:25:50 CDT)
  • strange output from measure cluster (Thu Jul 21 2016 - 17:31:46 CDT)
  • RE: how to explore the frame number in clustering analysis by the clustering plugin (Thu Jul 07 2016 - 16:05:37 CDT)
  • RE: (Wed Jun 15 2016 - 18:11:37 CDT)
  • RE: (Wed Jun 15 2016 - 16:40:08 CDT)
  • RE: Running a source script from a C shell (Thu Jun 02 2016 - 12:53:41 CDT)
  • RE: Finding waters near a protein (Tue Apr 26 2016 - 17:26:05 CDT)
  • RE: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Dec 02 2015 - 17:41:25 CST)
  • RE: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Nov 25 2015 - 08:54:10 CST)
  • RE: Plugin to read DCD files (Fri Sep 18 2015 - 10:05:38 CDT)
  • RE: Plot of distance between two atoms vs frame number (Tue Aug 18 2015 - 14:24:08 CDT)
  • RE: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 12:15:13 CDT)
  • RE: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 11:36:17 CDT)
  • 3dconnexion spacemouse pro and vmd on fedora 21 (Wed Aug 05 2015 - 15:02:54 CDT)
  • RE: Questions regarding fftk and Gaussian (Fri Jun 26 2015 - 20:32:01 CDT)
  • RE: differentiate between nitroso and oxime atomselections (Thu Jun 18 2015 - 11:03:48 CDT)
  • differentiate between nitroso and oxime atomselections (Wed Jun 17 2015 - 18:55:27 CDT)
  • RE: (Fri May 29 2015 - 10:48:54 CDT)
  • RE: Questions regarding fftk and Gaussian (Tue May 19 2015 - 10:51:51 CDT)
  • RE: fftk water interaction questions (Tue Apr 21 2015 - 16:09:46 CDT)
  • fftk water interaction questions (Mon Apr 20 2015 - 14:18:45 CDT)
  • within command (Fri Jan 23 2015 - 14:31:44 CST)
  • RE: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 12:23:11 CST)
  • RE: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 10:04:52 CST)
  • FW: atomselection by wildcard and distance exclusion (Mon Jan 12 2015 - 23:12:58 CST)
  • atomselection by wildcard and distance exclusion (Mon Jan 12 2015 - 18:57:52 CST)
  • RE: a script to count the frames in which some water molecules interact with selected protein atoms (Tue Dec 30 2014 - 10:25:41 CST)
  • RE: Error while calculating rotational angle (Thu Oct 09 2014 - 15:09:58 CDT)
  • using vmd to apply symmetry operators part 2 (Thu Sep 18 2014 - 17:21:43 CDT)
  • building amino acid modification (Wed Aug 27 2014 - 18:00:26 CDT)
  • RE: vmd hangs at creating CUDA pool (Tue Aug 19 2014 - 11:41:12 CDT)
  • vmd hangs at creating CUDA pool (Tue Aug 19 2014 - 11:11:17 CDT)
  • autoionize with polyatomic ions (Mon Aug 18 2014 - 16:06:29 CDT)
  • ammonium sulfate ions in system (Fri Aug 15 2014 - 15:51:52 CDT)
  • RE: 3-d printing of vmd scenes (Wed May 28 2014 - 11:53:36 CDT)
  • 3-d printing of vmd scenes (Fri May 16 2014 - 12:49:05 CDT)
  • RE: default representations for multiple molecules (Thu May 15 2014 - 17:48:54 CDT)
  • RE: VMD can't read 1OXY (Tue Feb 11 2014 - 12:31:35 CST)
  • RE: VMD can't read 1OXY (Tue Feb 11 2014 - 12:17:16 CST)
  • RE: VMD can't read 1OXY (Tue Feb 11 2014 - 11:03:32 CST)
  • wrapper for VMD to read compressed .xz files (Fri Jan 31 2014 - 16:33:18 CST)
  • RE: AMD vs. nvidia support (Wed Dec 11 2013 - 12:50:36 CST)
  • RE: writing PDB (Thu Oct 24 2013 - 17:23:25 CDT)
  • RE: Finding particles that are close (Tue Oct 08 2013 - 10:24:22 CDT)
  • RE: manipulation of atomselections (Fri Jul 05 2013 - 17:27:28 CDT)
  • manipulation of atomselections (Fri Jul 05 2013 - 15:54:16 CDT)
  • RE: fftk Opt. Charges (Thu Jun 27 2013 - 15:56:52 CDT)
  • RE: fftk Opt. Charges (Thu Jun 27 2013 - 14:53:35 CDT)
  • RE: fftk Opt. Charges (Tue Jun 18 2013 - 17:47:56 CDT)
  • RE: error in merging two structures (Thu Jun 13 2013 - 12:25:34 CDT)
  • RE: error in merging two structures (Thu Jun 13 2013 - 10:32:34 CDT)
  • RE: regarding FFTK (Tue May 28 2013 - 11:09:20 CDT)
  • starting vmd in current working directory (Wed May 22 2013 - 11:59:28 CDT)
  • RE: Suggestions on parameterizing a ligand to simulate in NAMD (Mon May 20 2013 - 14:15:26 CDT)
  • RE: how to convert dcd AND ALIGN molecules then to pdbs in command line (Thu Apr 11 2013 - 10:08:08 CDT)
  • RE: parameters for PE100 chain? (Wed Apr 10 2013 - 11:56:31 CDT)
  • RE: how to convert dcd AND ALIGN molecules then to pdbs in command line (Wed Apr 10 2013 - 11:52:03 CDT)
  • RE: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 12:44:59 CDT)
  • RE: definition of single word "protein" selection (Wed Feb 27 2013 - 10:22:55 CST)
  • definition of single word "protein" selection (Tue Feb 26 2013 - 17:00:39 CST)
  • RE: visualizing multiframe trajectory simultaneously with multimolecule (Mon Dec 17 2012 - 10:19:02 CST)
  • RE: visualizing multiframe trajectory simultaneously with multimolecule (Fri Dec 14 2012 - 17:06:03 CST)
  • visualizing multiframe trajectory simultaneously with multimolecule (Thu Dec 13 2012 - 11:46:18 CST)
  • RE: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 10:20:21 CST)
  • RE: Hole program for vmd hole tcl script (Tue Nov 20 2012 - 12:14:30 CST)
  • [Solved]RE: molfile_plugins makefile errors (Mon Nov 19 2012 - 18:09:11 CST)
  • RE: VMD can't display new PDB secondary structure properly (pyMol, jMol can) (Mon Nov 19 2012 - 17:30:19 CST)
  • molfile_plugins makefile errors (Mon Nov 19 2012 - 15:24:33 CST)
  • building plugins fails on tcl based plugins (Mon Nov 19 2012 - 14:59:18 CST)
  • RE: VMD QMTool (Mon Nov 19 2012 - 14:51:36 CST)
  • RE: acylated and amidated parameters. (Wed Nov 14 2012 - 11:52:05 CST)
  • tc.h error while compiling vmd (Tue Nov 13 2012 - 16:00:27 CST)
  • RE: Secondary structure analysis (Wed Oct 24 2012 - 14:32:32 CDT)
  • RE: secondary structure calculations (Sat Oct 13 2012 - 23:03:19 CDT)
  • RE: secondary structure calculations (Fri Oct 12 2012 - 11:27:25 CDT)
  • secondary structure calculations (Thu Oct 11 2012 - 18:16:25 CDT)
  • RE: Big DCD file help (Tue Sep 25 2012 - 11:43:52 CDT)
  • RE: possible problem with graphics rep gui under with large numbers of molecules (Fri Jul 27 2012 - 12:41:51 CDT)
  • RE: Loop for (Thu May 10 2012 - 21:17:27 CDT)
  • RE: Re:Problem with generating psf using CGENFF (Mon Apr 30 2012 - 13:26:00 CDT)
  • RE: Problem with generating psf using CGENFF (Fri Apr 27 2012 - 11:57:18 CDT)
  • RE: Problem with generating psf using CGENFF (Fri Apr 27 2012 - 09:23:34 CDT)
  • RE: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 13:27:45 CDT)
  • RE: Problem with hydration script (Thu Apr 19 2012 - 14:32:53 CDT)
  • adding patches via autopsf (Wed Mar 21 2012 - 11:34:47 CDT)
  • RE: pdb reader/writer appears to corrupt pdb output (Thu Feb 16 2012 - 16:04:27 CST)
  • pdb reader/writer appears to corrupt pdb output (Thu Feb 16 2012 - 14:49:06 CST)
  • testing vmd1.9.1 (Mon Feb 06 2012 - 18:19:19 CST)
  • RE: using vmd to apply symmetry transformations (Fri Jan 13 2012 - 11:06:27 CST)
  • using vmd to apply symmetry transformations (Fri Jan 13 2012 - 09:21:39 CST)
  • RE: linux issues (Mon Sep 12 2011 - 12:25:34 CDT)
  • RE: can not import Hessian/charge from single point calculation (Wed Jun 22 2011 - 12:55:36 CDT)
  • RE: can not import Hessian/charge from single point calculation (Tue Jun 21 2011 - 12:04:46 CDT)
  • RE: parameterization tool (Thu Jun 09 2011 - 11:52:29 CDT)
  • parameterization tool (Wed Jun 08 2011 - 16:14:31 CDT)
  • RE: vmd1.9beta1 namdEnergyPlugin (Mon Feb 28 2011 - 16:06:28 CST)
  • RE: vmd1.9beta1 namdEnergyPlugin (Fri Feb 25 2011 - 10:45:04 CST)
  • RE: vmd1.9beta1 namdEnergyPlugin (Thu Feb 24 2011 - 12:42:02 CST)
  • vmd1.9beta1 (Wed Feb 23 2011 - 14:21:51 CST)
  • RE: VMD XRequest errors (Wed Jul 28 2010 - 17:24:33 CDT)
  • intersurf plugin missing in VMD 1.8.7 ? (Wed Mar 03 2010 - 11:11:49 CST)
  • X_ChangeProperty error (Fri Feb 12 2010 - 14:50:27 CST)
• BERGY
  • how to identify DNA-protein interaction interface (Thu Apr 24 2008 - 05:42:53 CDT)
• Berit Hinnemann
  • Re: Graphics card for VMD (Wed Dec 16 2009 - 07:16:14 CST)
  • Graphics card for VMD (Tue Dec 15 2009 - 11:25:25 CST)
  • Re: Other color scales than the predefined ones? (Thu Nov 27 2008 - 03:38:46 CST)
  • Other color scales than the predefined ones (Wed Nov 26 2008 - 09:52:23 CST)
  • Re: Movie of a xyz trajectory (Wed Nov 26 2008 - 07:03:06 CST)
  • Other color scales than the predefined ones? (Wed Nov 26 2008 - 07:00:17 CST)
  • Nvidia graphics card with VMD (Fri Oct 20 2006 - 07:13:42 CDT)
  • Computer for 3D visualization (Wed Sep 20 2006 - 04:45:58 CDT)
  • Volume slices of Gaussian Cube Files: Color scale (Thu Jun 29 2006 - 13:42:05 CDT)
  • RE: Gaussian Cube file with VMD (Tue May 23 2006 - 11:00:36 CDT)
  • Gaussian Cube file with VMD (Mon May 22 2006 - 18:29:12 CDT)
• Bernandie Jean
  • ParseFEP plugin error (Tue Feb 26 2013 - 12:11:13 CST)
• Bernardo Sosa Padilla Araujo
  • Re: writepdb using selection form different molecules (Mon Mar 22 2010 - 13:25:35 CDT)
  • writepdb using selection form different molecules (Fri Mar 19 2010 - 23:29:56 CDT)
  • Re: measure command problem (Tue Mar 02 2010 - 14:15:42 CST)
  • Re: measure command problem (Tue Mar 02 2010 - 12:33:57 CST)
  • measure command problem (Mon Mar 01 2010 - 21:44:09 CST)
  • Re: Counting number of water molecules (Thu Dec 10 2009 - 18:48:20 CST)
  • Counting number of water molecules (Wed Dec 09 2009 - 16:30:13 CST)
  • radius of gyration units (Tue Nov 03 2009 - 15:08:36 CST)
• Bernd Doser
  • Problems with tcl/tk 8.5 (Tue Jan 20 2009 - 02:08:05 CST)
• Bernhard Knapp
  • sasa function (Thu Jan 21 2010 - 02:32:31 CST)
  • H-bonds (Thu Apr 02 2009 - 06:27:25 CDT)
  • defintion of alpha helix in vmd? (Tue Dec 16 2008 - 03:30:03 CST)
  • vmd-rmsd-color-tool (Fri Aug 01 2008 - 02:27:48 CDT)
• Bertie Earl
  • Spring quality watches offer (Tue Apr 29 2008 - 19:30:10 CDT)
• Bertrand P. S. Russell
  • Re: installation problem vmd 1.8.6 on fedora 3 (Sat Feb 09 2008 - 05:22:24 CST)
• bertrand russell
  • superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 11:52:03 CST)
  • Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 03:58:53 CST)
  • How to save the snapshot of my protein? (Fri Feb 09 2007 - 01:24:54 CST)
  • How to make movie with .crd files? (Wed Dec 13 2006 - 02:36:23 CST)
  • VMD - unable to create OpenGL (Tue Nov 07 2006 - 03:31:29 CST)
  • differentiating solvent molecules...... (Tue Oct 17 2006 - 12:44:28 CDT)
  • VMD Installation Help (Tue Sep 26 2006 - 12:05:26 CDT)
  • Installing VMFD in kubuntu.............. (Wed Aug 30 2006 - 10:59:37 CDT)
• Beth Ashbridge
  • superimposing (Tue Nov 01 2005 - 08:03:15 CST)
• BETTLER Emmanuel
  • cartoon representation of 1crn (Fri Apr 23 2004 - 11:25:46 CDT)
  • is VMD compatible with NVIDIA 3D stereo drivers ? (Fri Mar 12 2004 - 08:47:12 CST)
  • several questions, (Tue Sep 26 2000 - 07:01:11 CDT)
• beyza bilgic
  • sharing atoms (Mon May 16 2011 - 08:52:33 CDT)
  • changing the color of Sn atom (Wed May 11 2011 - 06:12:50 CDT)
• Beyza Bilgiç
  • changing the color of Sn atom (Wed May 11 2011 - 05:24:31 CDT)
  • to change color of Sn atom (Wed May 11 2011 - 04:33:51 CDT)
  • to change color of Sn atom (Wed May 11 2011 - 04:28:07 CDT)
• Bhanita Sharma
  • RDF COM (Thu Aug 23 2012 - 00:28:56 CDT)
• bharat gupta
  • Re: Re: Hydrogen bond occupancy (Wed Jun 04 2014 - 18:37:26 CDT)
  • Re: Re: Hydrogen bond occupancy (Fri May 30 2014 - 18:33:20 CDT)
  • Re: Re: Hydrogen bond occupancy (Thu May 29 2014 - 21:23:18 CDT)
  • Re: Hydrogen bond occupancy (Thu May 29 2014 - 20:55:55 CDT)
  • Re: H-bond occupancy (Wed May 28 2014 - 03:18:16 CDT)
  • Re: Depicting hydrogen bonds between water and residues (Mon Nov 11 2013 - 20:24:59 CST)
  • Fwd: Re: Volmap (Mon Nov 04 2013 - 07:47:29 CST)
  • Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 07:23:35 CST)
  • Re: Volmap (Mon Nov 04 2013 - 06:41:42 CST)
  • Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 06:07:47 CST)
  • Fwd: Re: Volmap (Mon Nov 04 2013 - 05:42:17 CST)
  • Re: Volmap (Mon Nov 04 2013 - 04:49:34 CST)
  • Re: simulation (Wed Nov 30 2011 - 05:50:56 CST)
  • Re: using vmd to view gromacs trajectory (Thu Apr 14 2011 - 10:20:29 CDT)
  • Re: USING IED for essential dynamics in VMD (Tue Feb 01 2011 - 18:38:39 CST)
  • Re: using IED interface in VMD 1.8.7 windows (Tue Feb 01 2011 - 02:51:45 CST)
  • RE : pbc tools in vmd for simulation (Sat Apr 17 2010 - 08:40:16 CDT)
• Bharat Kumar
  • Re: MOE and NAMD (Thu Dec 30 2010 - 18:31:21 CST)
  • MOE and NAMD (Wed Dec 29 2010 - 09:55:21 CST)
  • RMSD and PSF generation (Mon Dec 20 2010 - 21:29:48 CST)
  • Re: Membrane Protein Tutorial (Sun Dec 05 2010 - 22:40:28 CST)
  • Membrane Protein Tutorial (Sat Dec 04 2010 - 01:42:49 CST)
• Bharat Sharma
  • Re: Ignore all the errors and load severely wrong structure in XYZ format (Sat Jun 10 2017 - 16:07:40 CDT)
  • Ignore all the errors and load severely wrong structure in XYZ format (Sat Jun 10 2017 - 09:48:06 CDT)
  • Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 13:41:25 CDT)
  • Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 11:45:18 CDT)
  • Re: VMD text mode on MAC OS (Fri Apr 10 2015 - 11:10:50 CDT)
  • Re: XYZ to psf file (Thu Apr 09 2015 - 20:01:46 CDT)
  • XYZ to psf file (Thu Apr 09 2015 - 09:43:10 CDT)
  • VMD text mode on MAC OS (Wed Apr 08 2015 - 18:14:17 CDT)
  • Re: MSD calculation - Memory saving. (Fri Mar 27 2015 - 11:10:26 CDT)
  • MSD calculation - Memory saving. (Fri Mar 27 2015 - 07:33:56 CDT)
  • How to run VMD text mode on Windows 7 (Tue Mar 24 2015 - 19:33:47 CDT)
  • VMD Tcl Getting first index from residue number (Wed Feb 11 2015 - 12:14:21 CST)
  • Hbond calculation - periodic atoms (Mon Jan 26 2015 - 18:59:58 CST)
  • Re: How to calculate MSD on VMD (Wed Nov 12 2014 - 13:52:55 CST)
  • How to calculate MSD on VMD (Wed Nov 12 2014 - 12:38:19 CST)
• Bharath K. Srikanth
  • Radial pair distribution function (Fri Mar 01 2013 - 03:05:58 CST)
• Bhargava
  • Re: center of unit cell (Thu Apr 08 2010 - 11:10:51 CDT)
  • Re: On solvate plugin (Mon Jun 23 2008 - 09:14:05 CDT)
• Bhaskar Jyoti Borah
  • Re: exporting xyz file (Thu Jul 12 2007 - 11:19:25 CDT)
  • Re: shifting of the origin (Thu Jul 12 2007 - 01:07:36 CDT)
  • exporting xyz file (Thu Jul 12 2007 - 01:38:58 CDT)
  • Re: shifting of the origin (Wed Jul 11 2007 - 23:33:22 CDT)
  • Re: shifting of the origin (Wed Jul 11 2007 - 11:24:15 CDT)
  • shifting of the origin (Tue Jul 10 2007 - 23:49:15 CDT)
  • Re: need help (Tue Jul 10 2007 - 01:19:58 CDT)
  • need help (Mon Jul 09 2007 - 05:25:50 CDT)
• Bian Li
  • problem with bigdcd rmsd calculaton output (Mon May 30 2011 - 22:22:48 CDT)
• bibhab majumdar
  • Font size of the colorbar legends and rotation of the colorscale bar (Sun Feb 26 2023 - 22:44:56 CST)
  • Rotation of the color scale bar in VMD (Sun Feb 26 2023 - 22:21:11 CST)
• Biff Forbush
  • Re: Headtracking software (Tue Nov 16 2010 - 12:37:21 CST)
  • Re: Headtracking software (Tue Nov 16 2010 - 11:01:00 CST)
  • CUDA-NAMD hangs -- check the Northbridge temp! (Tue Jan 05 2010 - 21:51:51 CST)
  • joystick, win32 simple interface (Tue Jun 23 2009 - 18:32:57 CDT)
• Bikan Tan
  • How to cionize DNA? example needed! (Mon Aug 08 2011 - 18:59:19 CDT)
• Bill McIntyre
  • Listing solvent accessible surface area per residue (Sat Nov 19 2022 - 13:55:14 CST)
  • Re: Obtaining a list of surface exposed residues (Fri Oct 28 2022 - 02:36:24 CDT)
• Bin Liu
  • draw geometrical objects on specific frames (Mon Sep 22 2014 - 11:44:59 CDT)
• Bin Sun
  • atom selection in cv module of VMD (Sun Jan 15 2017 - 18:36:22 CST)
• BIN ZHANG
  • Re: clip plane and cpk / VdW (Wed Nov 23 2011 - 11:25:22 CST)
  • Re: namd-l: how to generate transparent figures? (Sun Jul 24 2011 - 11:31:04 CDT)
  • Re: CG_MD temperature (Thu Feb 03 2011 - 01:30:15 CST)
  • gradient background not rendered (Fri Feb 19 2010 - 16:50:59 CST)
  • Re: Restraints on coarse grained model (Wed Dec 09 2009 - 13:01:58 CST)
  • Re: Restraints on coarse grained model (Wed Dec 09 2009 - 12:07:37 CST)
  • Re: CG lipid bilayer vmd 1.8.7 (Wed Dec 02 2009 - 15:17:05 CST)
  • Re: CG lipid bilayer vmd 1.8.7 (Wed Dec 02 2009 - 14:03:58 CST)
  • error in rbcg-2007.par file (Fri Nov 27 2009 - 13:15:01 CST)
  • Re: drawing waterbox (Thu Aug 27 2009 - 11:02:46 CDT)
  • Re: Moving Molecule (Mon Aug 24 2009 - 11:21:41 CDT)
  • algorithm for command *within* (Thu Jul 16 2009 - 11:29:43 CDT)
  • running vmd on computer node (Mon Jun 29 2009 - 12:55:08 CDT)
  • Re: main window missing? (Wed May 27 2009 - 16:36:07 CDT)
  • Re: main window missing? (Wed May 27 2009 - 15:49:40 CDT)
  • main window missing? (Wed May 27 2009 - 15:17:40 CDT)
  • Re: namdenergy (Mon May 11 2009 - 12:29:37 CDT)
  • namdenergy (Thu May 07 2009 - 17:26:23 CDT)
  • Re: setbonds (Wed Apr 22 2009 - 14:53:11 CDT)
  • Re: density profiles (Wed Apr 22 2009 - 12:25:59 CDT)
  • setbonds (Tue Apr 21 2009 - 23:01:35 CDT)
  • draw command with different material (Thu Feb 26 2009 - 23:31:08 CST)
  • Re: multiple colors for a single atom (Mon Feb 23 2009 - 11:55:48 CST)
  • multiple colors for a single atom (Mon Feb 23 2009 - 00:05:50 CST)
  • Re: helicity score? (Thu Feb 19 2009 - 15:14:45 CST)
  • Re: Cannot read MSMS facet file (Mon Feb 16 2009 - 17:05:31 CST)
  • Cannot read MSMS facet file (Sun Feb 15 2009 - 23:54:52 CST)
  • pictures with frame (Tue Feb 03 2009 - 01:40:32 CST)
  • helicity score? (Thu Jan 15 2009 - 23:39:21 CST)
  • Re: beta column format in PDB (Wed Dec 24 2008 - 14:57:47 CST)
  • beta column format in PDB (Wed Dec 24 2008 - 13:41:23 CST)
  • How to get all the angle combinations? (Wed Dec 17 2008 - 23:07:16 CST)
  • How to get number of electrons of an atom in VMD? (Mon Dec 08 2008 - 15:31:42 CST)
  • Re: CG bead definition (Mon Nov 24 2008 - 18:24:35 CST)
  • CG bead definition (Sun Nov 23 2008 - 23:56:12 CST)
  • Re: how to run catdcd from within a proc (Mon Nov 17 2008 - 11:25:32 CST)
  • intersurf in vmd (Sat Oct 11 2008 - 14:58:14 CDT)
  • lipid tail selection (Sun Oct 05 2008 - 01:16:45 CDT)
  • TAB key in vmd terminal (Thu Oct 02 2008 - 23:32:00 CDT)
• bio lab
  • Re: superimposing groups of three atoms (Fri Oct 21 2011 - 12:10:51 CDT)
  • superimposing groups of three atoms (Thu Oct 20 2011 - 06:25:46 CDT)
• BIO MED
  • tutorial 2 (Thu Sep 13 2012 - 03:12:30 CDT)
  • tutorial (Tue Sep 11 2012 - 03:53:07 CDT)
• biocore_at_ks.uiuc.edu
  • ANN: BioCoRE now includes remote job submission (Fri Mar 30 2001 - 13:26:32 CST)
• Biomolecular Simulations Congress 2005
  • Biomolecular Simulations Meeting Bordeaux, 2&3 Sept. 2005 (Tue Mar 22 2005 - 08:19:24 CST)
• BIPLAB NANDI
  • PSF Generation (Mon Feb 15 2010 - 23:10:53 CST)
• Birgitte Maria Elisabeth Brydsoe
  • Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:47:39 CDT)
  • Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:28:13 CDT)
  • IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 08:33:00 CDT)
  • IED/Tkinter problems (Fri Sep 24 2010 - 09:13:43 CDT)
• Bishop, Thomas C
  • VMD on Suse 11.1 w/ NVIDIA dies. (Fri Sep 04 2009 - 17:52:35 CDT)
  • RE: Periodic Bonding (Thu Aug 13 2009 - 14:46:24 CDT)
  • RE: Load multiple files (Thu Feb 12 2009 - 11:18:57 CST)
  • Re: Re: namd-l: Truncated Octahedron for VMD and NAMDsimulation (Fri May 16 2008 - 13:39:16 CDT)
• Biswa Ranjan Meher
  • H-atoms placed at the end in PDB file (Thu Nov 14 2013 - 17:15:15 CST)
• bizoniusz_at_o2.pl
  • trajectory2 (Mon Feb 06 2006 - 14:55:20 CST)
  • trajectory (Mon Feb 06 2006 - 12:02:27 CST)
  • rdf.tcl one more time (Mon Oct 17 2005 - 10:19:28 CDT)
  • RDF.tcl (Fri Oct 14 2005 - 07:02:26 CDT)
• Bjoern Olausson
  • Re: VMD 1.9.1 beta 1 posted for download... (Tue Jan 03 2012 - 01:32:26 CST)
  • Re: Povray renders labels always centered (Tue Dec 13 2011 - 09:31:52 CST)
  • Povray renders labels always centered (Mon Dec 12 2011 - 01:37:04 CST)
  • Re: Rendering long and high-quality movies from VMD (Wed Dec 07 2011 - 10:58:01 CST)
  • Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Wed Nov 30 2011 - 10:11:53 CST)
  • Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Mon Nov 28 2011 - 02:54:17 CST)
  • Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 05:36:26 CST)
  • VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 00:51:07 CST)
  • Re: RMSD Tool failes with MOL ID > 999 (Tue Nov 15 2011 - 02:38:34 CST)
  • Re: Re: Save "Visulaization State" from within Tk Console (Mon Nov 14 2011 - 01:17:02 CST)
  • Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 07:48:03 CST)
  • Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 07:41:18 CST)
  • RMSD Tool failes with MOL ID > 999 (Fri Nov 11 2011 - 05:52:11 CST)
  • Re: Suppress "Info)" messages (Mon Nov 07 2011 - 18:26:50 CST)
  • Re: Suppress "Info)" messages (Mon Nov 07 2011 - 13:15:59 CST)
  • Suppress "Info)" messages (Mon Nov 07 2011 - 11:56:06 CST)
  • Re: average pdb from dcd file (Thu Oct 27 2011 - 09:54:06 CDT)
  • Re: convert pdb format to normal pdb format (Wed Aug 24 2011 - 06:10:45 CDT)
  • Re: Understand a script (Thu Jul 28 2011 - 03:28:41 CDT)
  • Re: Understand a script (Mon Jul 25 2011 - 10:05:59 CDT)
  • Re: File as video (Tue Jul 05 2011 - 03:33:13 CDT)
  • Re: saving dcd with less frames (Tue Jun 07 2011 - 05:27:58 CDT)
  • Re: size for render (Tue May 24 2011 - 06:34:49 CDT)
  • Re: hi to all (Thu May 19 2011 - 04:15:26 CDT)
  • Re: PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 13:23:05 CDT)
  • VMD Movie Generator problem with "Image smoothing" set (Mon May 02 2011 - 06:26:54 CDT)
  • Re: Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 05:37:48 CST)
  • Re: Draw a box cell for a crystal (Wed Sep 15 2010 - 08:19:32 CDT)
  • Re: color charmm dcd by kinetic energy (Tue Jul 06 2010 - 02:51:24 CDT)
  • Re: Visualize intersection of overlapping spheres? (Thu Jun 03 2010 - 02:24:02 CDT)
  • Visualize intersection of overlapping spheres? (Wed Jun 02 2010 - 06:51:56 CDT)
  • Re: Modelling program that does hydrogen adjust (Fri May 28 2010 - 06:14:24 CDT)
  • Re: Creating AVI movies (Mon May 10 2010 - 08:37:58 CDT)
  • Re: How to remove hydrogens from a pdb file? (Fri May 07 2010 - 02:41:51 CDT)
  • Re: Coloring atoms based on timeframe range? (Fri Apr 23 2010 - 04:01:19 CDT)
  • Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:41:46 CDT)
  • Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 08:51:34 CDT)
  • Re: High quality movies, bmp frames and videomach=poor quality (Wed Apr 21 2010 - 08:34:00 CDT)
  • Re: question about vmd use (Mon Apr 12 2010 - 06:16:42 CDT)
  • Re: Way to change ColorScale Method to single color gradient? (Thu Apr 08 2010 - 02:18:05 CDT)
  • Re: Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 08:05:07 CDT)
  • Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 03:33:18 CDT)
  • Wrapping membrane to center of PBC-Box (Tue Mar 23 2010 - 12:06:31 CDT)
  • Re: Curious about analytical capabilities of VMD (Mon Jul 06 2009 - 07:10:37 CDT)
  • Re: Curious about analytical capabilities of VMD (Wed Jul 01 2009 - 07:19:39 CDT)
  • Re: Curious about analytical capabilities of VMD (Mon Jun 29 2009 - 05:29:33 CDT)
  • Curious about analytical capabilities of VMD (Fri Jun 26 2009 - 03:48:05 CDT)
  • Re: Transparency settings (Thu Jun 11 2009 - 06:09:15 CDT)
  • Re: Transparency settings (Wed Jun 10 2009 - 10:29:08 CDT)
  • Transparency settings (Wed Jun 10 2009 - 09:13:13 CDT)
• Bjoern Windshuegel
  • viewing insight trajectories with vmd (Tue Jun 25 2002 - 01:29:15 CDT)
• Björn Forsberg
  • VMD plugins not available without gui (Wed Oct 08 2014 - 03:37:23 CDT)
• Bjørnar Jensen
  • Re: displaying charge distribution (Mon Jan 14 2013 - 01:53:38 CST)
  • Re: how to measure the distance of two atoms in 1000 conformations? (Mon Nov 19 2012 - 07:05:21 CST)
• Björn Forsberg
  • Re: How to remove particular residues and then view "ramachandran plot" in VMD (Thu Oct 09 2014 - 07:50:41 CDT)
• Björn Windshügel
  • Re: GRID maps visualization problems (Tue Nov 24 2009 - 12:22:47 CST)
  • Rotation of molecules (Tue Dec 02 2008 - 08:20:30 CST)
  • Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 09:54:59 CDT)
• Bjørnar Jensen
  • Re: Problem related to the save trajectory (Mon Feb 18 2013 - 04:27:33 CST)
  • Re: Problem related to the save trajectory (Mon Feb 18 2013 - 02:04:47 CST)
  • Re: Dynamic bonds for amorphous silicon carbide? (Fri Feb 15 2013 - 04:09:18 CST)
  • Re: How to display a selection from the Tk console (Tue Feb 12 2013 - 09:59:56 CST)
  • Re: Selecting waters between two given distances from a particular point (Sat Oct 20 2012 - 04:34:26 CDT)
  • Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 08:39:04 CDT)
  • Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 05:35:53 CDT)
  • Re: VolMap Tool coulombmsm - with periodic boundary conditions (Wed Aug 22 2012 - 07:40:24 CDT)
  • VolMap Tool coulombmsm - with periodic boundary conditions (Wed Aug 22 2012 - 06:19:08 CDT)
• Blake Charlebois
  • RE: overlaying more than 2 molecules (Wed Aug 17 2005 - 12:57:30 CDT)
  • RE: measuring rotation of protein about an axis (Tue Jul 19 2005 - 11:28:59 CDT)
  • RE: (Mon Jul 18 2005 - 16:26:56 CDT)
  • RE: Script for automated selection (Mon Jun 20 2005 - 12:28:39 CDT)
  • RE: namd-l: tcl question (Thu Jun 16 2005 - 22:32:39 CDT)
  • RE: how to write out the coordinates of center of mass of a particularresidue (Wed Jun 01 2005 - 21:39:49 CDT)
  • RE: Any way for comparing two structures?? (Tue May 31 2005 - 10:50:32 CDT)
  • RE: Total charge query? (Fri May 13 2005 - 17:28:41 CDT)
  • RE: Autoionize / SODIUM (Mon Jan 24 2005 - 17:04:58 CST)
  • Autoionize / SODIUM (Sun Jan 16 2005 - 12:14:04 CST)
• bo baker
  • Re: vmd crashes (Mon Mar 09 2009 - 19:09:59 CDT)
  • vmd crashes (Mon Mar 09 2009 - 04:49:42 CDT)
  • Re: select atoms (Mon Mar 02 2009 - 18:30:29 CST)
  • select atoms (Sun Mar 01 2009 - 22:18:42 CST)
  • Re: delete residues from trajectory (Sat Feb 28 2009 - 23:06:17 CST)
  • delete residues from trajectory (Sat Feb 28 2009 - 03:44:06 CST)
  • delete residues from trajectory (Sat Feb 28 2009 - 03:46:20 CST)
  • Re: Atom distances from trajotory (Sat Feb 14 2009 - 17:16:27 CST)
  • Atom distances from trajotory (Thu Feb 12 2009 - 23:50:21 CST)
  • Atom distances from trajotory (Thu Feb 12 2009 - 03:27:20 CST)
  • Load multiple files (Wed Feb 11 2009 - 22:43:35 CST)
  • Re: Atomselect in NAMD GUI (Wed Feb 11 2009 - 16:01:37 CST)
  • Re: Atomselect in NAMD GUI (Sun Feb 08 2009 - 16:17:15 CST)
  • Atomselect in NAMD GUI (Thu Feb 05 2009 - 05:02:45 CST)
  • Problem with Install (Fri Jan 16 2009 - 05:12:34 CST)
  • VMD for Linux (Mon Jan 12 2009 - 05:14:50 CST)
  • Re: QM Geometry optimization (Wed Dec 17 2008 - 12:30:08 CST)
  • QM Geometry optimization (Tue Dec 16 2008 - 23:59:49 CST)
  • convert THR and SER to the phosphorylated forms (Tue Oct 21 2008 - 19:06:11 CDT)
  • Interface Propensity (Wed Sep 17 2008 - 05:56:20 CDT)
  • Re: save selected residues (Mon Aug 11 2008 - 06:31:12 CDT)
  • save selected residues (Sun Aug 10 2008 - 06:04:37 CDT)
  • Re: Problem with saving coordinate (Sun Sep 02 2007 - 20:18:13 CDT)
  • Re: Problem with saving coordinate (Sat Sep 01 2007 - 18:49:57 CDT)
  • Re: Problem with saving coordinate (Fri Aug 31 2007 - 01:55:26 CDT)
  • Problem with saving coordinate (Thu Aug 30 2007 - 22:44:57 CDT)
• Bo Højen Justesen
  • Hi all, (Mon Oct 31 2011 - 05:47:22 CDT)
• Bo Højen Justensen
  • SV: average area per lipid (Tue Mar 04 2008 - 02:33:11 CST)
  • VS: average area per lipid (Mon Mar 03 2008 - 15:10:09 CST)
• Bo Liu
  • Re: fit.tcl (Mon Nov 08 2010 - 09:23:24 CST)
  • Re: Autoionize plugin (Wed Nov 19 2008 - 08:42:58 CST)
  • Re: Catdcd? (Fri Oct 17 2008 - 00:01:59 CDT)
  • Re: Windows version: Loading/writing files (Mon Oct 13 2008 - 09:50:41 CDT)
  • Re: atom type (Fri Oct 03 2008 - 06:51:22 CDT)
  • Re: Projection of a vector on to another. (Sat Sep 20 2008 - 06:09:46 CDT)
  • Re: Projection of a vector on to another. (Fri Sep 19 2008 - 23:03:42 CDT)
  • Re: namd-l: Re: counting gas molecules inside the nanotube (Fri Sep 19 2008 - 11:38:19 CDT)
  • Re: Merge psf and pdb (Wed Sep 03 2008 - 00:17:13 CDT)
  • Re: Merge psf and pdb (Tue Sep 02 2008 - 10:02:26 CDT)
  • Re: TXT program editor (Fri Aug 29 2008 - 03:17:57 CDT)
  • Re: namd-l: diffusion coefficient from rmsd (Thu Aug 28 2008 - 01:38:38 CDT)
  • questions relating to VolMapTool (Wed Jul 23 2008 - 02:35:18 CDT)
  • Fwd: memory overflow problem of Tcl scripting when dealing with trajectories(sorry for cross mailing...) (Wed Jul 16 2008 - 03:18:43 CDT)
  • Re: namd-l: Energy plot script (Thu May 15 2008 - 13:00:23 CDT)
• Boaz Shaanan
  • Re: Stereo in linux/oxygen gvx1/xig driver (Thu Jan 24 2002 - 03:30:25 CST)
  • Stereo in linux/oxygen gvx1/xig driver (Sat Jan 19 2002 - 06:35:50 CST)
• Bob Johnson
  • Deleting/modifying specific molecule representations (Tue Jun 01 2010 - 11:23:58 CDT)
  • Re: Problems with licorice representation when rendering 3D PDF for Power Point (Fri Apr 23 2010 - 09:59:08 CDT)
  • Problems with licorice representation when rendering 3D PDF for Power Point (Thu Apr 22 2010 - 14:56:52 CDT)
  • Matrix: Warning: no convergence (0.00000000<390.26229858 after 1000 iterations). (Tue Nov 03 2009 - 14:49:29 CST)
  • Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:42:06 CDT)
  • Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:22:03 CDT)
  • Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:47:55 CDT)
  • Storing multiple values in the user field (Fri Sep 28 2007 - 16:15:05 CDT)
  • Amber patches for Auto PSF generator (Wed Jun 27 2007 - 11:55:44 CDT)
  • Using VolMap tool for charge density visualization (Fri Jun 01 2007 - 09:59:47 CDT)
  • RMSD fitting for molecules adsorbed to surfaces (Thu May 10 2007 - 16:12:09 CDT)
  • Re: Scripts to unwrap PBC from REMD trajectory (Fri Mar 16 2007 - 09:05:18 CDT)
  • Scripts to unwrap PBC from REMD trajectory (Thu Mar 15 2007 - 16:08:50 CDT)
  • Delete Volume Maps via Script (Wed Feb 28 2007 - 18:36:43 CST)
  • Calculate VolMap for every frame by a script (Tue Feb 27 2007 - 16:21:12 CST)
  • Reading box info. from PQR file (Mon Oct 30 2006 - 10:02:43 CST)
  • Error in visualizing the 5 prime end of DNA strand (Mon Aug 29 2005 - 10:56:06 CDT)
  • VMD fails to run (Sat Aug 20 2005 - 21:43:55 CDT)
  • Periodic boundary conditions (Thu Aug 18 2005 - 12:00:19 CDT)
  • Problem with DNA bonds (Mon Aug 15 2005 - 13:54:28 CDT)
  • Visualizing an infinite carbon nanotube (Mon Aug 15 2005 - 13:23:44 CDT)
  • Draw Bonds (Mon Aug 08 2005 - 10:42:13 CDT)
  • Video card driver (Thu Aug 04 2005 - 13:56:44 CDT)
• Bob Milius
  • Re: vmd, linux & dri (fwd) (Fri Jan 12 2001 - 19:39:34 CST)
  • Re: vmd, linux & dri (fwd) (Fri Jan 12 2001 - 19:29:20 CST)
• Bob Wohlhueter
  • upgrading vmd's nvidia component (Thu Aug 05 2010 - 16:04:53 CDT)
• Bobbie Horton
  • Play at the world's leading online casino..... (Thu Apr 10 2008 - 01:28:24 CDT)
• Bogdan Costescu
  • Re: AMD vs. nvidia support (Thu Dec 12 2013 - 04:16:48 CST)
  • Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Mon Apr 15 2013 - 05:51:10 CDT)
  • Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Mon Mar 18 2013 - 07:19:09 CDT)
  • Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Fri Mar 08 2013 - 11:56:12 CST)
  • Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Tue Mar 05 2013 - 14:01:21 CST)
  • Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Tue Dec 11 2012 - 07:50:23 CST)
  • Re: vmd crashes during gromacs trr loading (Wed Nov 07 2012 - 04:51:37 CST)
  • Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 11:39:55 CDT)
  • Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 11:42:02 CDT)
  • Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 08:19:48 CDT)
  • Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 07:11:04 CDT)
  • Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 04:02:59 CDT)
  • Re: Another thought related to drawing dipole moment vectors (Sun May 27 2012 - 07:10:12 CDT)
  • Re: using xtc file to generate pdb's (Wed Dec 28 2011 - 07:01:39 CST)
  • Re: How to parse very large trajectories? (Thu Nov 10 2011 - 08:20:41 CST)
  • Re: Dynamic lines (Wed Nov 02 2011 - 13:42:01 CDT)
  • Dynamic lines (Mon Oct 31 2011 - 13:21:59 CDT)
  • Re: Plot a time line in the movie made with VMD (Wed Dec 01 2010 - 15:44:56 CST)
  • Re: VMD and named pipes (Sat Sep 04 2010 - 05:26:52 CDT)
  • Re: Matrix based intermediate rotations (Sat Sep 04 2010 - 05:35:41 CDT)
  • Matrix based intermediate rotations (Fri Sep 03 2010 - 05:50:40 CDT)
  • Re: VMD and named pipes (Thu Sep 02 2010 - 23:51:23 CDT)
  • Re: Is it possible to load a part of a big xtc file faster... (Wed Aug 18 2010 - 10:50:43 CDT)
  • Re: Focal blur with Tachyon (Fri Jul 30 2010 - 04:49:55 CDT)
  • Re: Re: LANG setting needs to be solved in next release.... (Thu May 20 2010 - 08:47:06 CDT)
  • Re: LANG setting needs to be solved in next release.... (Wed May 19 2010 - 09:14:27 CDT)
  • Re: LANG setting needs to be solved in next release.... (Wed May 19 2010 - 08:34:38 CDT)
  • Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Mon Dec 14 2009 - 06:21:14 CST)
  • Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" (Thu Dec 10 2009 - 06:14:34 CST)
  • Re: charmm binary ele. pot. (Mon Mar 09 2009 - 13:16:00 CDT)
  • Re: duration of video mpeg (Mon Dec 04 2006 - 05:18:53 CST)
  • Re: loading gzipped trajectories into vmd (Tue Aug 29 2006 - 09:38:42 CDT)
  • Re: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 06:27:49 CDT)
  • Re: libcprts.so.6 not found by VMD on RedHat EL3 (ia64). (Mon Apr 10 2006 - 11:23:46 CDT)
  • Re: shutter glasses with VMD (Thu Mar 02 2006 - 07:05:36 CST)
  • Re: Tachyon and text rendering (Thu Feb 23 2006 - 14:37:56 CST)
  • Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Fri Feb 10 2006 - 12:05:03 CST)
  • Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 11:43:52 CST)
  • Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 10:51:55 CST)
  • Re: compilation from source: make error message (Mon Dec 12 2005 - 06:04:24 CST)
  • Re: compilation from source: first attempt failed (Fri Dec 09 2005 - 10:30:07 CST)
  • Re: babel compilation error (Fri Dec 09 2005 - 10:04:22 CST)
  • Re: MSMS problem (Wed Dec 07 2005 - 06:56:06 CST)
  • Re: MSMS problem (Tue Dec 06 2005 - 11:31:53 CST)
  • Re: MSMS problem (Mon Dec 05 2005 - 13:21:19 CST)
  • Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:08:13 CDT)
  • Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 08:09:11 CDT)
  • Re: compressed trajectory support (Mon Apr 18 2005 - 09:57:14 CDT)
  • Re: compressed trajectory support (Mon Apr 18 2005 - 09:20:00 CDT)
  • Re: 3D/stereo hardware recommendations wanted!!! (Fri Jan 14 2005 - 04:51:45 CST)
  • Re: Fwd: linux FC3 VMD vs insightII conflict (Wed Jan 12 2005 - 11:08:45 CST)
  • Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Tue Jan 11 2005 - 10:42:25 CST)
  • Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Mon Jan 10 2005 - 09:56:14 CST)
  • Re: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 09:11:15 CDT)
  • Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 16:21:22 CDT)
  • Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 13:46:26 CDT)
  • Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 12:41:16 CDT)
  • Re: mpeg doesn't run on media player (Fri Jun 25 2004 - 04:54:56 CDT)
  • RE: How to read i8(64 bit) .dcd file with 32 bit VMD (Mon May 24 2004 - 03:24:33 CDT)
  • RE: How to read i8(64 bit) trajectory (.dcd) file with 32 bit VMD (Mon May 24 2004 - 03:32:12 CDT)
  • Re: vmd 1.8.2 - slow on linux (Wed May 12 2004 - 07:26:11 CDT)
  • Re: dcd with fixed atoms (Wed Mar 17 2004 - 13:05:14 CST)
  • Re: digest form (Wed Mar 17 2004 - 05:10:43 CST)
  • Re: random graphics outages on startup (Wed Feb 04 2004 - 10:47:59 CST)
  • RE: dcd reading error (Sat Jan 03 2004 - 10:07:49 CST)
  • Re: quicktime/mpeg movies (Fri Jun 20 2003 - 14:30:24 CDT)
  • Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 11:02:01 CDT)
  • Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 10:41:47 CDT)
  • Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 09:34:36 CDT)
  • Re: Some comments about stereo with nvidia cards & shutter glasses (Mon May 05 2003 - 11:58:14 CDT)
  • Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 12:58:40 CST)
  • Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 11:41:38 CST)
  • Re: SGI O2 stereo problems (Thu Mar 09 2000 - 08:00:27 CST)
  • Re: SGI O2 stereo problems (Wed Mar 08 2000 - 14:43:38 CST)
  • SGI O2 stereo problems (Tue Feb 15 2000 - 13:33:15 CST)
• Bogdan Tarus
  • Re: vmd crash at start (Thu Jun 17 2010 - 12:16:06 CDT)
  • vmd crash at start (Thu Jun 17 2010 - 10:33:35 CDT)
• Bokas George
  • Re: default representations for multiple molecules (Thu May 15 2014 - 18:31:47 CDT)
  • Re: default representations for multiple molecules (Thu May 15 2014 - 17:58:52 CDT)
  • default representations for multiple molecules (Thu May 15 2014 - 16:48:54 CDT)
• Bonakala Satyanarayana
  • Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 01:46:40 CDT)
  • Creating data file for triclinic system (Wed Jul 23 2014 - 01:40:58 CDT)
• bond.james
  • how to get interaction energy (Wed Aug 15 2012 - 07:50:11 CDT)
  • how to get interaction energy (Wed Aug 15 2012 - 06:04:29 CDT)
  • constant velocity for carbon nanotubes (Wed Jul 18 2012 - 21:38:48 CDT)
• Bongkeun Kim
  • Re: Transparent image render problem after vmd 1.9 version (Wed Apr 06 2011 - 11:51:43 CDT)
  • Transparent image render problem after vmd 1.9 version (Wed Apr 06 2011 - 01:22:21 CDT)
• bonicoli_at_loria.fr
  • Re: property iterate over a range (representation / draw style) (Wed Feb 04 2009 - 10:04:40 CST)
  • property iterate over a range (representation / draw style) (Tue Feb 03 2009 - 11:16:12 CST)
• bora erdemli
  • BPS Meeting @ Baltimore (Mon Mar 05 2007 - 19:16:40 CST)
  • rmsf calculations (Tue Feb 27 2007 - 01:42:25 CST)
  • Re: measure hbonds (Fri Jan 28 2005 - 06:38:12 CST)
  • BOND CP2 - CT2 IN PARAMETER FILES (Thu Oct 28 2004 - 16:42:09 CDT)
  • Re: measure fit error?? (Fri Oct 08 2004 - 12:29:22 CDT)
  • Re: problem in autoionize (Fri Oct 01 2004 - 00:23:58 CDT)
  • Re: problem in autoionize (Thu Sep 30 2004 - 08:00:18 CDT)
  • Re: problem in autoionize (Thu Sep 30 2004 - 01:38:51 CDT)
  • problem in autoionize (Wed Sep 29 2004 - 08:43:05 CDT)
  • rmsd calculation and alignment (Tue Sep 28 2004 - 07:28:15 CDT)
  • torsion angle (Mon Sep 06 2004 - 06:18:22 CDT)
  • rmsd problem,script and version (Fri Sep 03 2004 - 00:23:42 CDT)
  • rmsd problem (Thu Aug 26 2004 - 14:10:05 CDT)
  • Re: monitoring h bonds (Tue Aug 24 2004 - 06:52:50 CDT)
  • monitoring h bonds (Wed Aug 18 2004 - 08:59:56 CDT)
• Boris Steipe
  • Re: psfgen and unknown residue types (Mon Feb 24 2014 - 10:16:00 CST)
  • Re: psfgen and unknown residue types (Sun Feb 23 2014 - 21:19:42 CST)
  • Re: VMD can't read 1OXY (Tue Feb 11 2014 - 16:15:13 CST)
  • Re: VMD can't read 1OXY (Tue Feb 11 2014 - 09:51:10 CST)
  • VMD can't read 1OXY (Mon Feb 10 2014 - 21:16:55 CST)
  • Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 10:14:28 CST)
  • RE： hydrogen bond cutoff value (Tue Dec 03 2013 - 08:31:52 CST)
  • Re: A question with dipwatch.tcl script in VMD (Sat Aug 17 2013 - 16:58:12 CDT)
  • Re: problems aligning two simillar structures (Tue Mar 26 2013 - 20:07:40 CDT)
  • Re: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Tue Nov 20 2012 - 14:44:53 CST)
  • Re: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Tue Nov 20 2012 - 11:20:04 CST)
  • Re: How to label the chains in a multimer (Fri Nov 16 2012 - 13:50:34 CST)
  • Re: how to delete one peptide from dimer (Thu Nov 15 2012 - 09:59:37 CST)
  • Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 22:29:42 CST)
  • Re: shades of licorice representation (Tue Jul 19 2011 - 10:10:01 CDT)
  • Re: volume of hydration shells (Thu Jun 23 2011 - 09:00:10 CDT)
  • Re: how to display bond btw backbone atom and sidechain atom (Wed Nov 24 2010 - 07:57:41 CST)
  • Re: Real-time ambient occlusion lighting (Tue Oct 12 2010 - 19:07:16 CDT)
  • Multimodel PDB files with different models (again)? (Tue May 18 2010 - 16:19:46 CDT)
  • Re: Multiseq question (Mon Nov 23 2009 - 09:48:34 CST)
  • Re: conformations of a linker (Fri Oct 31 2008 - 16:39:17 CDT)
  • Re: atom type (Wed Oct 01 2008 - 11:37:48 CDT)
  • Re: multiple attempts before vmd starts up (Thu Oct 18 2007 - 13:47:21 CDT)
  • Re: multiple attempts before vmd starts up (Thu Oct 18 2007 - 00:07:55 CDT)
• Borne, Vincent
  • Visualizing coarse grained particles in VMD (Thu Mar 26 2020 - 12:07:21 CDT)
• Bose, Ritwika
  • Protein mutation issues (Sun Jun 10 2018 - 23:27:29 CDT)
• Boshra Moradi
  • vmd in windows 8 (64bite) (Tue Sep 09 2014 - 12:47:23 CDT)
  • Fwd: fixed atoms_creating psf with out change in pdb (Wed Sep 03 2014 - 21:13:08 CDT)
• bozell, joe
  • Problems with Mac OSX VMD and certain PDB files (Wed Nov 24 2004 - 12:34:47 CST)
• brad noyes
  • Re: compile VMD on freebsd 4.8 (Tue Sep 09 2003 - 21:05:44 CDT)
  • Re: compile VMD on freebsd 4.8 (Tue Sep 09 2003 - 16:43:10 CDT)
  • Re: compile VMD on freebsd 4.8 (Thu Jul 24 2003 - 17:54:42 CDT)
  • Re: compile VMD on freebsd 4.8 (Wed Jul 23 2003 - 20:59:27 CDT)
  • render to png, and ppm (Sun Jul 13 2003 - 20:47:15 CDT)
  • Re: implicit casting (Fri May 23 2003 - 15:25:40 CDT)
  • implicit casting (Fri May 23 2003 - 15:14:27 CDT)
  • Re: compiling/porting vmd (Fri May 23 2003 - 01:30:18 CDT)
  • compiling/porting vmd (Thu May 22 2003 - 22:23:25 CDT)
• Bram Stolk
  • Re: L/R lighting discrepancy (Thu Nov 10 2005 - 06:48:47 CST)
  • Re: L/R lighting discrepancy (Wed Nov 09 2005 - 04:51:10 CST)
  • Re: L/R lighting discrepancy (Tue Nov 08 2005 - 14:01:25 CST)
  • L/R lighting discrepancy (Tue Nov 08 2005 - 10:44:39 CST)
  • Re: IRIX6 build from CVS (Tue Nov 08 2005 - 10:20:10 CST)
  • IRIX6 build from CVS (Tue Nov 08 2005 - 03:28:25 CST)
• Brandon Havranek
  • Alascan plugin error (Fri Aug 13 2021 - 23:23:25 CDT)
• Branko
  • Re: rgyr calculation problem (Fri Nov 19 2010 - 12:44:50 CST)
  • Re: rgyr calculation problem (Wed Nov 10 2010 - 13:04:31 CST)
  • Re: rgyr calculation problem (Wed Nov 10 2010 - 11:50:30 CST)
  • Re: rgyr calculation problem (Wed Nov 10 2010 - 11:06:22 CST)
  • rgyr calculation problem (Fri Nov 05 2010 - 16:21:05 CDT)
• brataraj ghosh
  • DNA .dcd file analysis (Thu Jan 05 2017 - 07:33:07 CST)
  • plug-in for DNA .dcd (Tue Jan 03 2017 - 02:05:25 CST)
• BRAULIO FAVIÁN VALDEBENITO MATURANA
  • Protein cavities (Thu May 26 2011 - 12:41:48 CDT)
• BRAULIO VALDEBENITO MATURANA
  • Re: Protein cavities (Sun May 29 2011 - 16:42:33 CDT)
  • Protein cavities (Sat May 28 2011 - 23:26:02 CDT)
• Breght Boschker
  • Eye position / camera position (Thu Jun 02 2005 - 05:27:49 CDT)
• Brendan Dennis
  • Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Wed Feb 01 2023 - 13:51:43 CST)
  • Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Wed Feb 01 2023 - 01:10:25 CST)
  • Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 16:48:10 CST)
  • Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 13:16:41 CST)
  • Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Mon Jan 30 2023 - 20:16:39 CST)
• Brendan O'Malley
  • Postdoctoral positions in Australia (Wed Nov 06 2002 - 04:55:13 CST)
  • VMD and Trackers (Sun Jul 14 2002 - 19:22:45 CDT)
  • Tracking devices and VMD (Mon Jun 17 2002 - 04:15:07 CDT)
  • vmd stereo (Sun Oct 29 2000 - 19:27:16 CST)
• Bret Hess
  • Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:59:22 CST)
  • Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:46:31 CST)
  • Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 10:55:22 CST)
• Brett Pemberton
  • Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 22:37:59 CDT)
  • Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 20:59:56 CDT)
  • Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 18:57:15 CDT)
  • VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 00:52:41 CDT)
• Brian Bennion
  • Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 (Mon Jan 07 2008 - 10:58:36 CST)
  • Re: Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 09:51:54 CDT)
  • Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 15:34:28 CDT)
  • Re: calculating b-factors from trajectories (Wed May 23 2007 - 10:34:57 CDT)
  • Re: superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 14:44:17 CST)
  • autopsf errors in vmd1.8.5 (Mon Oct 30 2006 - 12:09:54 CST)
  • Re: about maximum number of atoms (Wed Aug 02 2006 - 17:55:28 CDT)
  • Re: RMSF ? (Wed Jun 21 2006 - 10:10:08 CDT)
  • Re: fading rep scripts (Mon Jun 12 2006 - 17:48:21 CDT)
  • fading rep scripts (Mon Jun 12 2006 - 16:41:38 CDT)
  • Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 17:22:15 CST)
  • Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 16:54:20 CST)
  • Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 10:27:52 CST)
  • Poor Hydrogen Placem