Recently, I am using RabD to design my nanobodies, But I can not perform it smoothly:
ERROR] Exception caught by JobDistributor for job complex.1_0001
L1 start resnum not found in pose: 24 L
Please check pdb is renumbered properly and the passed -numbering_scheme option matches the PDB.
This could also mean missing density in the cdr loop. Loop modeling applications can be used to fill missing residues
Program did not found L chain, which is not in a nanobody. And my structure is already renumber in AHO using PyIgClassfiy.py .
However, rosetta had already record the antibody type as Camelid Antibody
/// Rosetta Antibody Info ///
/// Antibody Type: Camelid Antibody
/// Light Chain Type: unknown
/// Predict H3 Cterminus Base: NEUTRAL
My Rosetta version is 2018.33.60351_bundle / 2017.52.59948_bundle all not working.
Attached is my run files and error.log...
who can help me to see what happening?
Thank you very much!