Re: AMBER: sander + ew_legal.h

From: David A. Case <>
Date: Fri, 2 Apr 2004 17:34:32 -0800

On Fri, Apr 02, 2004, Carsten Detering wrote:
> I am running a simple gas-phase minimization, using this input
> Minimization of dUMP i the gas-phase
> &cntrl
> imin=1, maxcyc=1000, ntmin=1, ncyc=500, ntpr=10
> &end

To run a "gas-phase" simulation you really want a non-periodic calculation.
That is, you should set up your system without a periodic "box", then set
ntb=0 in the input file, along with a large cutoff, say cut=99.

You can see an example of this sort of calculation in the $AMBERHOME/test/dmp

....good luck..dac

David A. Case                     |  e-mail:
Dept. of Molecular Biology, TPC15 |  fax:          +1-858-784-8896
The Scripps Research Institute    |  phone:        +1-858-784-9768
10550 N. Torrey Pines Rd.         |  home page:                   
La Jolla CA 92037  USA            |
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Received on Sat Apr 03 2004 - 02:53:00 PST
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