VMD-L Mailing List

From: Capponi, Sara (Sara.Capponi_at_ucsf.edu)
Date: Fri Oct 20 2017 - 12:27:48 CDT

Dear all,

I am experiencing problems in reading an .rst amber file with VMD 1.9.3 but not with VMD 1.9.1.

I used Parmed to create the .rst file from a .psf and .pdb file I can read correctly with VMD 1.9.3. However, when I open the .rst file with VMD 1.9.3, no image of the protein appears on the screen. The procedure I followed is this one:

- loading the .psf file

- loading the .rst file as amber7 restart on the same molecule

The protein is loaded, because in the Graphics window of VMD 1.9.3 I can find all the residues, segname, chains, etc. But the protein is not displayed on the screen.

While VMD 1.9.2 and VMD 1.9.3 don't work, I tried exactly the same procedure with VMD 1.9.1 and it works: I can see the protein.

Do you have any explanations on why the upgraded version of VMD do not display the protein with psf and rst file and an old version does it? How can I fix this problem?

Thanks,

Sara

---------------------------------

Sara Capponi, PhD

Cardiovascular Research Institute

University of California in San Francisco, UCSF

555 Mission Bay Blvd S, R452M

San Francisco - CA 94143