Norman,
you can display the symmetry mates of the misplaced domain two in coot
and then choose the one which is in the same molecule as domain one.
Write the symmetry mate coordinates out in coot and edit into your
coordinate file to describe your assymmetric unit with domain one.
regards,
Quick question: is there an environment variable in WinCoot which
points to the directory where 'Extensions-Modelling-Monomer from
dictionary' gets its files? This is the '%COOT_PREFIX%/examples'
directory by default. I couldn't see anything relevant in the
documentation (e.g. section 1.5
