lorix wrote:
I would like to build part of a protein which is missing from the PDB file.It is a very long loop (72 residues) and I am not sure if the task is beyond Modeller skills.
Any loop longer than 12 residues or so is going to be essentially impossible to model with this protocol - the conformational space is just too large. You should try to find other templates with reasonable sequence identity to cover at least part of this long loop.
Ben Webb, Modeller Caretaker
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