Dear Nyamtulga Shaandar,
You need to follow the instructions provided with the modelling tutorials and the software manual about the modelling software you have used. There are many tools available for testing homology models. You can use amber for simulation of your model after testing your model thoroughly with other tools.
Regards
Imtiaz
On 4 Mar 2010, at 08:52, Shaandar Nyamtulga wrote:
>
>
> I apologise for my vague question. I am planning to attend in CASP, even though I am novice to protein structure prediction. In which part of protein structure prediction I can use Amber? Within the limit of my knowledge, I am planning to compare the target protein sequence wth others using blast, and find some proteins which have similar parts (domains, motifs,..I guess), copy and paste those similar parts's structures and combine and edit (restructure) them in Pymol. I would really appreciate if someone would give me detailed guidance.
>
> Thank you
>
>
>
> Nyamtulga Shaandar, M.Sc
>
> Researcher,
>
> Informatics Institute,
>
> Mongolian Science Academy,
>
> Mongolia
>
>
>
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IMTIAZ SHAFIQ
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Received on Thu Mar 04 2010 - 05:00:02 PST
