AMBER Archive (2004)

Subject: AMBER: amber98 with amberffc+INSIGHT II

From: a b (asittner_at_lycos.com)
Date: Wed Mar 17 2004 - 08:28:58 CST

hi there , i am using amberffc (amber98FF) with insight II.
when i want to minimize a structure comprised of rna/protein+ligand,
the amber98 FF does not recognize the atoms of the small molecule (ligand). i.e., when i try to assign the potential using FF->potentials, it works fine for the biomolecules, but for the ligand i get the message "could not assign potential type to <name of atom>" for each and every atom in the small molecule.
i tried for simple molecules, for example NH3 etc. (even from the insight library) and it still doesn't work.
does anybody know what should i do?
thanks
t. 

--

--------- Original Message ---------

DATE: Wed, 18 Feb 2004 12:00:39
From: Scott Brozell <sbrozell_at_scripps.edu>
To: amber_at_scripps.edu
Cc: 

>Hello,
>
>I have been unable to access the GLYCAM web site for a few days.
>http://glycam.ccrc.uga.edu/
>
>What's happening ?
>
>Scott Brozell
>
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