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May 6, 2011 at 7:16 pm
#5545
Sure, use constraints. That’s pretty much all constraints are, is user-defined modifications to the score term. In your case you could use AtomPairConstraints between your two residues. Here’s documentation on some of the available constraints and their use in C++ Rosetta; I don’t know much about it in pyrosetta.
http://www.rosettacommons.org/manuals/archive/rosetta3.2.1_user_guide/constraint_file.html