VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Mar 20 2008 - 16:48:27 CDT

It's a bit complex.
When VMD first loads a structure file (PDB or otherwise) it classifies
residues both by the residue names, atoms contained in the residue,
and also by the overall structure topology. If you have a more specific
question about how this works, or perhaps to help you solve a problem, I
would be happy to try and answer it. I can't really explain the entire
workings of the structure analyzer in VMD in a single email, I'd prefer
to answer a more targeted question. :)

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Mar 20, 2008 at 05:39:54PM -0400, Adrian Kaats wrote:
> Hi,
>
> Could someone please tell me how 'atomselect ... protein' identifies protein atoms in a PDB file?
>
> Thanks,
>
> Adrian Kaats
> Ph. D. Candidate
> Department of Biomedical Engineering
> McGill University
>
>
>
>
> ---------------------------------
> Ask a question on any topic and get answers from real people. Go to Yahoo! Answers. 

-- 
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