AMBER Archive (2006)

Subject: Re: AMBER: help with leap

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• In reply to: sethl_at_gatech.edu: "AMBER: help with leap"
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Hi Seth,

I advise you to go through the AMBER tutorial 1
(http://www.rosswalker.co.uk/tutorials/amber_workshop/) and generate your
structure with nucgen.
I read your attached pdb file and it seems like you did not use the
“AMBER” atoms naming convention for nucleic acids.

Franck

> Dear Amber Community,
>
> I have created a nucleic acid structure in pdb format using another
> program.
> The stucture "looks" fine in other viewers but in xleap there appear to be
> many
> extra unconnected atoms. I have attached a copy of the pdb file... in
> hopes
> someone may kindly take a quick look at it.
>
> Thanks,
> SETH

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• Next message: David A. Case: "Re: AMBER: generate "template" frcmod from standard residues?"
• Previous message: Junmei Wang: "RE: AMBER: antechamber error -> metals"
• In reply to: sethl_at_gatech.edu: "AMBER: help with leap"
• Messages sorted by: [ date ] [ thread ] [ subject ] [ author ]