Re: [Jmol-users] Re : Re: Mutating Residues!

[Rolf H. <rh...@fl...>]

On 08/08/2013 08:31 PM, Amjad Farooq wrote:
> Paul,
>
> Thanks for your input. But, I do not believe Chimera is a web-based
> application. I am looking for a web-based application to perform mutations.
>
Although an external program might not be web-based you could still use 
it for doing the mutation.

With the Jena3D viewer (http://jena3d.fli-leibniz.de) we do something 
similar with Jmol in combination with the 'scap' program from the 
'jackal' program package for visualizing known variants (SNPs) in 
protein structures (e.g. for PDB code 1DEH).
Although the amino acid exchanges are usually known beforehand and the 
mutations are precomputed we also do it on-the-fly if no precomputed 
mutants are available.

Since there might be up to several hundred variants known for a single 
structure we only load each mutated residue as a separate model and not 
the whole modeled structure provided by 'scap'.

I currently don't have time to go into more detail but if you are 
interested I could tell you more in about a week.

Regards,
Rolf

-- 

Rolf Huehne
Postdoc

Leibniz Institute for Age Research - Fritz Lipmann Institute (FLI)
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