From: Daniel Roe <daniel.r.roe.gmail.com>
Date: Tue, 28 Sep 2010 11:37:25 -0400
PTRAJ from AmberTools 1.4 will allow you to calculate distances from
Amber Trajectories.
See the AmberTools manual for command syntax. You can also refer to
Amber tutorials for examples on how to run ptraj (e.g. Section 3 of
http://ambermd.org/tutorials/basic/tutorial1/).
-Dan
On Tue, Sep 28, 2010 at 3:16 AM, Ashutosh Shandilya
<izerokelvin.gmail.com> wrote:
> HOw can I calculate interatomic distances from the trajectory file generated
> from amber apart from VMD.
> I have to see the distances of atoms of ligand molecule and amino acid in
> the active site.
>
> Regards
> Shandilya Ashutosh
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