Re: AMBER: nmode with ibelly

From: David A. Case <>
Date: Wed, 8 Jun 2005 21:30:01 -0700

On Wed, Jun 08, 2005, Martin Sippel wrote:
> Using ptraj's strip option, I get
> polypeptides without proper termini (missing OXT) due to truncation of
> adjacent amino acids;

If you remove the PdbResMap commands from your leaprc file, LEaP will not
try to add the OXT atoms. What you are trying is a very non-standard option,
so you should expect to have to play around a little to get it to work.

....good luck...dac

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Received on Thu Jun 09 2005 - 05:53:00 PDT
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