Re: [modeller_usage] Multiple sequence alignment + modeling in one script

[Modeller Caretaker <>]

On 4/14/14, 4:43 AM, James Starlight wrote:
> I'm looking for the posible modeling script which could do:
>
> i - multiple sequence alignment of several sequences agains target
> sequence (for which experimental structure is exist) to detect common
> functional-relevant motifs in each sequence of ensemble
>
> ii- select the aligned sequence from the ensemble
>
> iii- make a homology model for this structure based on the provided
> experimental (reference) structure including S-S bridges and ligand's
> coppied from the reference.
>
> Please provide me with simolple python example of such fussion of
> sequence analysis and homology modeling,

What you're describing isn't particularly simple, so I doubt a "simple 
python example" will be forthcoming. ;) One solution would be to use 
ModPipe (http://salilab.org/modpipe/).

	Ben Webb, Modeller Caretaker
--
             http://www.salilab.org/modeller/
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