Dear Rongjin,
I think that HADDOCK (http://www.nmr.chem.uu.nl/haddock/) is the best
solution for your requests.
Danilo
On Tue, 7 Jan 2014 16:36:43 -0500, rjguan <[log in to unmask]> wrote:
> Dear All,
>
> We have a RNA binding protein with structure known. We want to dock a
> RNA molecule to
> the protein structure, and we roughly know where RNA binds to the
> protein. Which program
> does a better job (generally speaking) in the following cases:
> 1. RNA is rigid;
> 2. RNA is allowed to change conformation.
>
> Please share your experience.
>
> Thanks
> Rongjin Guan
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