VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Jan 10 2005 - 17:01:31 CST

Chris,
  The "select_method" parameter is just the textual atom selection you
intend to use for the representation you're modifying. So, for something
where you only want the C-alpha atoms to be drawn, you'd do:
  mol modselect 0 0 "name CA"

If you have questions about VMD's use of atom selection in general,
there's a good bit of discussion about it in the User's Guide:
  http://www.ks.uiuc.edu/Research/vmd/vmd-1.8.2/ug/node76.html#4757
  http://www.ks.uiuc.edu/Research/vmd/vmd-1.8.2/ug/node107.html#6234
  http://www.ks.uiuc.edu/Research/vmd/vmd-1.8.2/ug/node176.html#12947

Let us know if you need more help with this.

  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Jan 10, 2005 at 03:48:27PM -0700, Chang, Christopher wrote:
> Hi,
>
> I am screening a considerable number of protein-protein complexes, and I am trying to write a TCL script to automatically display the backbone as tube, and selected residues as CPK so that I can quickly determine the proximity of these residues. I am assuming that the commands "mol modselect" or "selection" play a role in this, but I have tried everything I can think of in terms of syntax without success. The syntax(es) in the manual is(are) described as
>
> mol modselect rep_number molecule_number select_method
>
> or
>
> selection select_method
>
> Unfortunately, the possible values and the syntax for "select_method" do not seem to be documented anywhere I've looked. Has anyone already done what I need to do, and/or know what the possibilities for "select_method" are?
>
> Thanks,
>
> Chris
>
> Christopher H. Chang, Ph.D.
> National Renewable Energy Laboratory
> 1617 Cole Blvd., Mail Stop 1608
> Golden, CO 80401
> Phone (303) 275-3751
> Fax (303) 275-4007
> 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
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