AMBER Archive (2009)

Subject: Re: [AMBER] creating new residue adds none wanted ter

From: David A. Case (case_at_biomaps.rutgers.edu)
Date: Mon May 04 2009 - 08:35:41 CDT

On Mon, May 04, 2009, Jorgen Simonsen wrote:
>
> I am trying to create a new residues following the tutorial "*Simulating a
> Solvated Protein that Contains Non-Standard Residues" *where I also have MET
> residue that I have changed to MEM adding an ion to the residue. The problem
> is that when I use ambertool it add a TER to my residue although it is
         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

We need to know details of what commands you gave, what kind of PDB file
you loaded (if any) and so on. Try to see what you are doing that is
different from what is Tutorial A1 (Old), since I believe that adds an
MEM-like residue without the problem you mention.

..good luck...dac

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