11 Dec
2012
11 Dec
'12
1:05 p.m.
On 12/07/2012 10:36 PM, Sangita Kachhap wrote: > I have a protein dimer and I have to insert amino acid rsidues in both monomer > at same palce. Is it possible to do with Modller without affecting interaction > between protein in crystal structure?
Sure, that should be straightforward (whether it affects the interaction depends on how big the insertion is and how close it is to the interface). Just use your original dimer as the template and build a model using an alignment that looks something like
template AAAAA--AAAAA/AAAAA--AAAAA* model AAAAABBAAAAA/AAAAABBAAAAA*
where A represents the original sequence of your dimer, / the chain break, and B the inserted residues.
Ben Webb, Modeller Caretaker
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