Dear Sur,
You can use ptraj to culculate any torsional angle.
You may use diheral command e.g.
dihedral name mask1 mask2 mask3 mask4 (out filename)
you may use it for modified bases also.
With best wishes,
Ojha
--- On Mon, 2/27/12, souvik sur <souviksur.hotmail.com> wrote:
From: souvik sur <souviksur.hotmail.com>
Subject: [AMBER] Calculation of backbone torsion angles
To: "Amber Mailing List" <amber.ambermd.org>
Date: Monday, February 27, 2012, 5:40 PM
Hello
How do I calculate backbone torsion angles in amber, actually I am doing simulation with modified PNA:DNA duplex, can you please suggest me any amber module for torsion angle calculations.
regards,
Souvik Sur
Ph. D. Student
Department Of Chemistry
University Of Delhi
India
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Received on Mon Feb 27 2012 - 23:00:01 PST
