Hi,
Try the 'nativecontacts' command in CPPTRAJ - this may do what you
want. See the manual for full details.
-Dan
On Mon, Feb 20, 2017 at 4:22 AM, Jesmita Dhar <dhar.beauty.gmail.com> wrote:
> Hi,
> I have simulated two 6 residues long peptides,separated by 2 nm. Now I want
> to study if there is any possibilibity of fibrillation over time. For this,
> I want to find out the closest residues for each of the residues present in
> peptide during the simulation. Is it possible in AMBER or in VMD. Please
> help me..
> --
> -Jesmita Dhar
> Senior Research Fellow
> Bose Institute
> _______________________________________________
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> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
--
-------------------------
Daniel R. Roe
Laboratory of Computational Biology
National Institutes of Health, NHLBI
5635 Fishers Ln, Rm T900
Rockville MD, 20852
https://www.lobos.nih.gov/lcb
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Received on Tue Feb 21 2017 - 09:00:04 PST
