Re: [AMBER] Regarding SPC/E water model

From: David A Case <case.biomaps.rutgers.edu>
Date: Thu, 27 Mar 2014 09:16:13 -0400

On Thu, Mar 27, 2014, MOHD HOMAIDUR RAHMAN wrote:
>
> The wat_pack.pdb contain only repeating water molecule and "WAT" is residue
> name.`
>
> ATOM 1 O WAT A 1 9.649 18.830 4.849 1.00 0.00
> ATOM 2 H1 WAT A 1 10.382 19.458 4.852 1.00 0.00
> ATOM 3 H2 WAT A 1 9.994 18.025 4.443 1.00 0.00
> TER
>

OK...then experiment some. I'd particularly recommend not changing the
internal names in SPC:

> > > set SPC.1 name "SPC"
> >
> > Why did you do this? It might well have some undesirable side-effects;
> > waters are conventionally named WAT or HOH.

...good luck....dac


_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Thu Mar 27 2014 - 06:30:02 PDT
Custom Search