X-lab-3D / PANDORA

MODELLER-based, anchor restrained, Peptide-MHC Modelling pipeline
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Still some PDBs do not have any allele assigned to it #155

Open FarzanehParizi opened 2 years ago

FarzanehParizi commented 2 years ago

Expected Behavior: All PDBs in the template set has allele assigned, especially for anchor prediction using NetMHCIIpan

Current Behavior: Some PDBs e.g. 6XP6, 7KEI still do not have allele assigned to them by checking the PANDORA Database pickle file for pMHCII

Detailed Description: Probably it is from IMGT file. But this allele name is important when we want to predict anchors using NetMHCIIpan

DarioMarzella commented 2 years ago

Check how many cases. If few, we can add the allele by hand and run the precision. If not, do as the first paper and say IMGT did not provide an allele compatible with netmhcpan.

DarioMarzella commented 2 years ago

I think this is realted to issue #126

FarzanehParizi commented 2 years ago

For MHCII: 6XP6 7KEI 6DFS 6KVM

for MHCI: 1LDP 3GSX 5GSV 5W1W