AMBER Archive (2008)

Subject: Re: AMBER: problems form the pdb to the mol2

From: David A. Case (case_at_scripps.edu)
Date: Mon Jun 23 2008 - 20:51:46 CDT

On Tue, Jun 24, 2008, Rilei Yu wrote:
>
> I came across a problem: when I transform the mol2 format file to the pdb
> format file in sybyl, the type of a "N" atom also change from the Nam
> to the N2 (The only one N atom in the ligand molecule). Then I try to
> change the type of the N in the Sybyl to obtain the original type (Nam),
> unfortunately, I failed.

You don't say exactly *how* you tried to transform the mol2 file to pdb. If I
read your email correctly, you tried to do this "in sybyl". Someone here may
be able to help, but this doesn't (on its face) look like a question that has
anything to do with Amber(?)

If I am misunderstanding your question, you will probably need to be more
explicit about exactly what you tried to do, and what happened.

...dac

-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber_at_scripps.edu
To unsubscribe, send "unsubscribe amber" (in the *body* of the email)
      to majordomo_at_scripps.edu