Hi everyone, I am trying to refine a structure which contains acetolysine (acetyl group attached to Lysine residue) in one of the polypeptide. I have refined acetolysine present in peptide using Refmac after adding the link information in the ligand cif file. After refinement it has linked acetolysine properly to polypeptide and seems to have refined it quite well. I was trying to do real space refinement for this stretch of peptide which contains acetplysine in coot. I have read the linked cif file using read monomer library option in coot. However, during real space refinement it breaks the link and refines it as an indiviual ligand not linked to aother amino acids as it should have been. I was wondering how I can refine the acetolysine in coot using "real space refinement" without breaking it from the polypeptide.
Thanks Regards Simanshu
