Re: [modeller_usage] question regarding homology modeling of an oligomer

[Modeller Caretaker <modeller-care@ucsf.edu>]

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
--
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