VMD-L Mailing List

From: Anurag Sethi (anurag.sethi_at_gmail.com)
Date: Wed Mar 03 2010 - 18:25:11 CST

You can use the multiseq plugin in VMD to find the interface between two
proteins when they are not in the same pdb file.

Anurag

On Wed, Mar 3, 2010 at 4:38 PM, Neeraj Jagdish Agrawal <jneeraj_at_mit.edu>wrote:

> I need to find all the residues or protein-1 that are within some distance
> cutoff from protein-2. However, the protein-1 and protein-2 are in different
> pdb files. I can use
> atomselect top all "within 4 of ---" however this seems to work only when
> both the proteins are within the same pdb file. Any suggestions would be
> helpful.
>
> thanks
> neeraj
>
>
>