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