Try the NMR restraints (flatwell potential). See the corresponding chapter
in the Amber manual.
HTH,
Jason
On Sat, Jul 23, 2011 at 8:27 AM, amir abbasi <amir-abbasi.hotmail.com>wrote:
>
> Hi Dear Users,
> I want to make a wall in my simulation and create a cavity (with an
> arbitrary geometry) on it to force on a DNA to pull it from one side to
> other.
> any suggestions?
>
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> http://lists.ambermd.org/mailman/listinfo/amber
>
--
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Candidate
352-392-4032
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Received on Sat Jul 23 2011 - 09:30:03 PDT
