I'm trying to model a structure of an antibody. I have an initial starting structure, which I have generated using a separate online server, and I have prepared the structure for modeling with rosetta. I've been using the application "antibody_model_CDR_H3" which simultaneously docks Vh-Vl and samples loop conformations for HCDR3.
Is there a recommended way to also allow rosetta to resample loop conformations for the other CDR loops? Ideally I'd like to sample relevant loops from the Dunbrack CDR cluster database. The rosetta documentation hints that this is possible in pyrosetta or through movers. Can anyone provide information on how I can accomplish this?