VMD-L Mailing List

From: Suresh (suresh.gorle_at_research.iiit.ac.in)
Date: Fri Jul 06 2012 - 23:33:01 CDT

use the following command for 10 as cutoff
 
within 10 of nucleic

----- Original Message -----
From: "satya kumar" <mail2mvskumar_at_gmail.com>
To: vmd-l_at_ks.uiuc.edu
Sent: Saturday, July 7, 2012 5:04:20 AM
Subject: vmd-l: Distance constraints

Hello VMD users,

I am working on Molecular Dynamics simulations. I have a file sample.gro that has a box consisting of DNA molecule+water molecules in my system. I have to choose all the water molecules that are close to the dna (with some cut off distance). Is there a way that VMD selection can handle it?

Request you to guide me. Thanks for your time.

With Regards,
Satya.