How
to add an unnatural amino acid (say OCS) at a position in the
sequence and view it in PyMol, provided the protein structure
(PDB file) is given? Is it correct to make changes in the PDB
file itself, if Yes, then how should I do it?
at the risk of setting a bad example... If I had to do it myself I
would edit PDB file manually to mutate existing residue into OCS,
then I would run a quick geometry minimization to fix up geometry
(that is likely to be distorted due to manual editing). If OCS is
this
elbow.where_is_that_cif_file OCS
then everything may just work fine. Otherwise you may want to
provide a CIF file for it.
I wonder if this kind of manipulation can be done in Coot?