VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Fri Jan 16 2004 - 13:07:09 CST

Jerry,
  At present, there's no way to make bonds between separately loaded
molecules. You could merge them into a single molecule however,
using 'psfgen', 'cat' (if you're desparate) or other tools.
Once merged, you can create bonds as you like either interactively
or with scripts.

Thanks,
  John Stone
  vmd_at_ks.uiuc.edu

On Fri, Jan 16, 2004 at 12:24:30PM -0600, Jerry Ebalunode wrote:
> Hi John,
> Can you use vmd to display hbonds btw two separetly loaded molecules (ligand
> and receptor). If so how can this be done without combining the files and
> loading them. Can VMD through the tckon shell be used to create an hbond list
> between two separetly loaded molecules (ligand and receptor). Thanks for
> your anwser in advance
> --
> Cheers,
>
> Jerry Ebalunode
> Graduate Research Assistant
> RM 402F Houston Science Center
> Phone: 713-743-8367
> Dept. of Biology and Biochemistry
> University of Houston.
> 4800 Calhoun Road
> Houston, TX 77204 

-- 
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