Dear coot users and developers,
We are using coot 0.7-pre-1 (rev 3633) in the lab on linux and Mac
machines, and have observed something odd that we did not see before.
Most (all?) pdb files when opened give a (harmless) warning that says
"Molecule x has nomenclature errors. Correct them?" The residues
mentioned are Phe's, Tyr's, and Asp's. I don't think there was an update
to these residues in the latest dictionary. Before I go into more
detail, is anybody else seeing this, and should we just install a newer
nightly?
I should note that these models have been refined by Phenix versions 1.6
and 1.7, and molprobity thinks they are perfectly fine. There are no
DNA/RNA bases, and odd ligands, except sugars in them.
Best,
Engin
