Re: How to patch residues in different chains

From: Leonardo G. Trabuco (
Date: Sat Apr 08 2006 - 13:22:55 CDT

On Fri, Apr 07, 2006 at 07:32:38PM -0400, snoze pa wrote:
> Hi,
> I am trying to simulate a protein complex. It has two chains and
> both chains have CYS-CYS
> bonds. How can I use patch to generate psf file. Standard method is
> patch DISU 1a2d 119 1a2d:200 etc
> but in my protein both chains are different( like A and B ). Any help

You should read each chain as a different segment. If you read chain A
as segment AA and chain B as segment BB, and want to link residue 10 in
chain A to residue 20 in chain B, you'll have something like:

patch DISU AA:10 BB:20


Leonardo Giantini Trabuco
Ph.D. student
Center for Biophysics and Computational Biology
University of Illinois at Urbana-Champaign

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