AMBER Archive (2009)

Subject: Re: [AMBER] helical parameters

From: Bala subramanian (bala.biophysics_at_gmail.com)
Date: Mon Mar 23 2009 - 13:14:29 CDT

I do in the following way
Make pdbs from your trajectory, give it as input to X3DNA ( software that
can calculate helical parameters from pdb file) one bye one in a loop using
a script. Check in X3DNA webpage, i think there is a script available there
for parsing pdb's.

Bala

On Mon, Mar 23, 2009 at 5:21 PM, balaji nagarajan
<balaji_sethu_at_hotmail.com>wrote:

>
> Dear Amber !
>
> How one can calculate the helical parameters
> of DNA from the trajectory .,
>
>
> thanks in advance
> balaji
> UOM
>
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