VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Nov 29 2006 - 14:55:07 CST

Hi,
  You can highlight residues using the sequence viewer plugin
by selecting them (click and drag in the sequence window).
You can also do this using the more sophisticated multiple
sequence alignment plugin (multiseq) and more highlighting
styles and coloring schemes are available. Beyond these,
if you know the range of residue IDs or residue numbers you
wish to highlight, you can selectively apply representations
and colors to the residues of your choosing with the text-based
atom selection language as well.

  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Nov 29, 2006 at 12:41:37PM -0800, christopher wrote:
> Hello,
> I'm new to VMD so please excuse me if this has been addressed. I am
> trying to color specific residues of my protein for clarity. I don't
> seem to be able to do this with VMD by:
> Extensions-->Analysis-->Sequence Viewer
> Surely this must be possible. Could you please send an example. The
> tutorial did not address this. Thank you for your time.
>
> CHris 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078