VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Sun Feb 15 2009 - 12:59:15 CST

Hi,
  VMD doesn't have any built-in facility for measuring volume
at present. That said, you might have a look at a code written
by one of the students in our group some years ago:
  http://www.ks.uiuc.edu/Development/MDTools/molvolume/

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Sat, Feb 14, 2009 at 03:58:14PM -0600, Falgun Shah wrote:
> Dear vmd user
>
> I am using Namd for SMD studies of my protein of interest. I want to measure
> the volume of the binding site before and after i pulled my ligand. can it
> be done by using VMD. Please let me know if scripts are available. Thanks in
> advance
>
> --
> Falgun H shah
> PhD candidate (3rd year)
> Department of Medicinal Chemistry
> 2028, Natural Product Center
> University of Mississippi
>
> Ph No: 6629151286(O)
> 662 801 5667(M)
> email: fhshah_at_olemiss.edu 

-- 
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