If I'm not mistaken (and someone please correct me if I am wrong), for
nucleic acids ff10 is exactly equivalent to ff99 + the bsc0 parameters. Of
course, ff10 also includes the non-trivial shift to new solvent models
(TIP4P-Ew and the Joung/Cheatham alkali and halide ions).
In short, I believe the conventional wisdom now is to always use ff10
whenever possible. I don't know of any reasons why you wouldn't be able to
do this with any recent release of AMBER (9, 10, 11, etc)
Brian
On Thu, Sep 22, 2011 at 9:41 AM, souvik sur <souviksur.hotmail.com> wrote:
>
>
> Hello,
>
>
> Can the ff99 force field is comparable with parm bsc0 ?
>
> Is it possible to run
> parm bsc0 in amber9 ? or higher version of amber is required for that?
>
>
>
> regards,
> Souvik Sur
> Ph. D. Student
> Department Of Chemistry
> University Of Delhi
> India
>
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
--
================================ Current Address =======================
Brian Radak : BioMaPS
Institute for Quantitative Biology
PhD candidate - York Research Group : Rutgers, The State
University of New Jersey
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Graduate Program in Chemical Physics : 610 Taylor Road,
Department of Chemistry : Piscataway, NJ
08854-8066
radak004.umn.edu :
radakb.biomaps.rutgers.edu
====================================================================
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Received on Thu Sep 22 2011 - 07:00:03 PDT
