Re: AMBER: Force field for RNA with U-turn motif

From: Cenk Andac <cenk_andac.yahoo.com>
Date: Wed, 22 Aug 2007 09:08:29 -0700 (PDT)

Thanks Vlad.

Any more comments? What about the new parmBSC0 force field?
or should I use a combination of both? For instance, can I just use parm99 parameters for the alpha torsion angle following U33 in the anticodon loop and use parmBSC0 parameters for the rest of the RNA?


regards,

jenk

Vlad Cojocaru <Vlad.Cojocaru.eml-r.villa-bosch.de> wrote: Hi Jenk,

I believe amber ff99 is what you want ...

Greets
vlad

Cenk Andac wrote:

> Dear Amber community,
>
> I was wondering if anyone could recommend a suitable force field for
> the anticodon loop region of t-RNA showing a U-turn motif in its
> X-Ray structure..
>
> my best regards,
>
> jenk
>
> ------------------------------------------------------------------------
> Got a little couch potato?
> Check out fun summer activities for kids.
> 



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Received on Sun Aug 26 2007 - 06:07:11 PDT
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