Re: AMBER: mm_pbsa crg file

From: <>
Date: Tue, 14 Oct 2003 10:09:35 -0400 (EDT)

Hi Thomas,

This indeed turned out to be the case when I printed
out the pdb from delphi. Thanks very much for your

Best wishes,
Suzie Byun

Quoting Thomas Steinbrecher

> Hi,
> I had a similar problem once. I figured out that the
> following happened:
> The MM-PBSA script generates a pdb-file of your
> for Delphi to read in. Check very carefully that the
> names in this file match exactly the ones in your .crg
> file. In my case I had a molecule that contained
> ribose-carbon atoms named C5' or so and I added atoms
> that names to my charge file. The MM-PBSA script
> changed the names to C5* for reasons unknown to me.
So only
> some atoms of my ligand were found in .crg and very
> charges were the result.
> Maybe thats your problem too...
> Kind regards,
> Thomas Steinbrecher
> Institut für physikalische Chemie
> Albertstr. 23a
> 79108 Freiburg

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Received on Tue Oct 14 2003 - 15:28:49 PDT
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