Thanks to Warren for setting me straight on independent positioning of
molecules.
Now I wish to write out the two molecules, together, to one pdb file,
as required by RosettaDock. I must be blind. They say:
...from the main menu, File→Export Molecule can be used to write
a PDB file containing
the starting structure with both docking partners.
The closest menu option I can find (using MacPyMol) is File->Save
Molecule...
The resulting dialog apparently only allows one object to be written.
Any advice? Thanks!
- Paul