On 7/30/15 9:39 PM, Monoj Mon Kalita wrote: > I have an NMR structure of an oligomer which belongs to transmembrane > domain region. Also, I have the single extramembrane region (X-ray > crystal) of that TMDs. Now my question is how can I dock that > extramembrane part on that oligomer and ask the program to replicate it > to the same symmetry of the oligomer ! Can modeller do like that ?
This sounds like http://salilab.org/modeller/FAQ.html#1
Modeller can reproduce the structures of the individual proteins just fine, but if you don't have interaction data it won't dock them automatically - it is not a docking program. If you dock your two input structures together and give them to Modeller as a single template with two chains, it should do what you want.
Ben Webb, Modeller Caretaker