AMBER Archive (2009)

Subject: Re: [AMBER] rmsd_dna

From: Carlos Simmerling (carlos.simmerling_at_gmail.com)
Date: Wed Jul 08 2009 - 13:21:29 CDT

have you looked at the DNA MD tutorial on the Amber web site? I think it
covers this very well. let us know if you have specific problems with steps
in the tutorial.

On Wed, Jul 8, 2009 at 12:15 PM, balaji nagarajan
<balaji_sethu_at_hotmail.com>wrote:

>
> Dear amber ,
>
> I have done dynamics of a DNA ,
>
> and I have built some model for the same ,
>
> I would like to check the Rmsd of my each model with the whole trajectory ,
>
> any one can tell me how to give the input script for ptraj ,
> if one considers all the atoms
>
> thanking you
> regards
> balaji
> UOM
>
>
>
>
>
>
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