[BiO BB] hi help me pls

[Shameer Khadar]

Hi Deepan,
Autodock and Gromacs are not for structure prediction.
Autodock -> Docking
Gromacs -> Molecular Dynamics
For Secondory structure prediction - use PSIPRED, JPRED etc.
For Teritiary structure prediction - Use either abinito base methods like
Rosetta or Honology based methods like MODELLER.

Lijo AutoDoc/Gromacs can do any strucure prediction.
Use Rosetta for abinito structure prediction after the structure is obtained
you may use Gromacs for simulation.

Cheers,
K Shameer
NCBS-TIFR
Banglaore




On Dec 19, 2007 6:07 AM, Mike Marchywka <marchywka at hotmail.com> wrote:

>
> >>> 6.Characterization of antigenecity in polypeptides- epitope mapping
>
> This site is fairly new, not sure how it compares to anything,
>
> http://tools.immuneepitope.org/main/jsp/menu.jsp
>
>
>
> Mike Marchywka
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>
> > Date: Tue, 18 Dec 2007 09:33:53 +0530
> > From: lijo.skb at gmail.com
> > To: bio_bulletin_board at bioinformatics.org
> > Subject: Re: [BiO BB] hi help me pls
> >
> >
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-- 
K Shameer
========================================
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