I am trying to find a way, in Pymol, to remove an amino acid from a peptide and insert any other amino acid. I have been able to do this for one residue at a time using the command
but I have to do this in two parts so that the new amino acid binds at both ends. I was wondering if there is a way in which Pymol can “swap” an existing side chain at position N on the peptide for any other side chain in an automated fashion?
Any help much appreciated.