Hydrogenation is failing to observe coplanar rules.

[electronicsbyjulie]

This is from the hGNAL PDB:

[primaryodors]

This should be fixed right away before continuing with the cron fixes.

Would also be good to create a unit test for hydrogenate() generating coplanar hydrogens in side chains that should have them: Arg, Asn, Gln, His, Phe, Trp, Tyr.

[electronicsbyjulie]

The coupled homology branch has a fix for this one.

[primaryodors]

It looks like the way to test this would be to re-add the hydrogenate_add_missing_heavy_atoms code, enable it, and generate a coupled PDB.

[primaryodors]

Confirmed, still happening, in both the G protein (first image) and the receptor (second image).

[primaryodors]

There are missing and extra hydrogens, but coplanarity is being observed now.