[Chimera-users] AMBER ff99SB Documentation

[Elaine Meng]

Hi Nikolay,
Try the Amber web site and/or manuals.  Google and Pubmed may also be useful.
<http://ambermd.org/>

There is some information in the Add Charge manual page of the Chimera User's Guide,
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/addcharge/addcharge.html#standard>

... but be aware that minimization in Chimera always uses ff99 for all parameters other than the charges, as mentioned here:
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/minimize/minimize.html#standard>
... because that is what the MMTK package used by Chimera provides.

Elaine
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Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On May 12, 2012, at 4:08 PM, Nikolay Igorovich Rodionov wrote:

> Hi all,
> Could someone point in the direction of some good  documentation on ff99SB, how it functions, and what calculations it performs?
> Thank you,
> Nikolay Rodionov