[gmx-users] Replica exchange and freeze groups?

David van der Spoel spoel at xray.bmc.uu.se
Sun Nov 12 21:07:18 CET 2006

Marc Baaden wrote:
> Hi,
> I do wonder whether replica exchange as implemented in Gromacs is
> compatible with freezing part of a system. What I want to do is to
> equilibrate a sub-part (18k atoms) of a large system (340k atoms)
> by freezing the 322k surrounding atoms and doing replica exchange
> on the "small" 18k atom system.
> Is there any trouble to be expected for combining these two options?
> Does anybody have experience with such an approach?
> Thanks in advance,
>   Marc Baaden
I don't see why it shouldn't work, but be careful when combining too 
many things like pressure coupling and constraints and freezing.
Test it on a smaller system first.

David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se

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