Is there a way of energy minimizing a loop while keeping the rest of the protein fixed using any of the Rosetta apps?
I don't want to do full scale CCD loop remodelling - just a simple energy gradient minimization or similar small scale relaxation of a loop conformation I already have. In the relax app there seems to be an option called -constrain_relax_segments but it doesn't seem to do what I want. I also don't think I want to do backrub moves either as I just want to find a local minimum.
thanks again for all the help!