Chaionsaw will do the mutations providing you provide the alifgnment in
one of several standard formats. (On the GUI - under Molecular
replacement - create search model)
Modelling is another Q - there are various structure idealisation
programs about including REFMAC but the results are somewhat unreliable./
Some of the energy minimisation software would be better I guess..
Eleanor Dodson
Yong Tang wrote:
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Dear all,
I have a protein that has a homolog with known crystal structure. I
aligned them manually and very carefully to make sure that we get what
we have known right. I want to now replace the conserved residues in
the model into those of my protein of interest and hopefully also do
some sort of positional minimization so that I could have a rough idea
about the surface of my protein of interest. Would there be any
program doing this for me - that is, take the model pdb and my
alignment file and generate a model for my protein of interest? If
not, would you be kind enough to share your protocol with me if you
have done this by hand. Happy Holidays!
Thanks! -yong
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