VMD-L Mailing List

From: Norman Geist (norman.geist_at_uni-greifswald.de)
Date: Thu Aug 20 2020 - 02:24:05 CDT

Hey,

 

what about:

 

atomselect macro protein1 {any selection for protein1}

atomselect macro protein2 {any selection for protein2}

 

Now in drawing methods choose MSMS (or better Quicksurf imho) and as
selection use something like:

 

same residue as ((protein1 within 2.5 of protein2) or (protein2 within 2.5
of protein1))

 

You could also split them in two representations, depending on what looks
better:

 

same residue as (protein1 within 2.5 of protein2)

same residue as (protein2 within 2.5 of protein1)

 

Also, if you want to play over multiple frames, consider checking the
"Update selection every frame" box on the Trajectory tab in the
representations.

 

Bests

Norman Geist

 

Von: owner-vmd-l_at_ks.uiuc.edu [mailto:owner-vmd-l_at_ks.uiuc.edu] Im Auftrag von
Shang,Emily
Gesendet: Mittwoch, 19. August 2020 17:24
An: vmd-l_at_ks.uiuc.edu
Betreff: vmd-l: How do I define "collision only" atoms using MSMS?

 

 

I'm trying to illustrate only the buried surface between two proteins.