In the rosetta guide it says to do this using the PyIgClassify webserver but no matter what i do it will never return a file with a CDR even though the nanobody (PDB:5U64) is within its database. Is there a reason that the server doesn't find any CDRs. Also is there any alternatives. If also anyone could provide the documentation on how Antibody CDRs are recorded in PDB that would be very helpful as i can find no docs or examples.

Thanks, Will