Hi,
I am trying to build O-glycosylated peptide (glycosylation at Serine).
I first loaded ff14SB using tleap and then loaded Glycam06_j force field.
I have linked the O-glycosylated residue 0YB to ser and saved the pdb file.
When I am trying to check the pdb file to build amber topology, it gives
following message below: I think it is mismatch in atomtypes (old
nomenclature??).
Could not find angle parameter: HO - OH - Cg
Could not find angle parameter: OH - Cg - H2
Could not find angle parameter: OH - Cg - Os
Could not find angle parameter: OH - Cg - Cg
Could not find angle parameter: 2C - OH - Cg
How can I fix it?
--
Regards,
Dr. Neha S. Gandhi
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Received on Mon Apr 18 2016 - 22:30:04 PDT
