Hi Carsten,

>> Is there an (un)documented way of merging multiple molecular objects in
>> Pymol into one molecule...

if you really want them in *one* molecule covalently linked, then also 
have a look at:

   * fuse
   * http://pymolwiki.org/index.php/Fuse

"A copy of the object containing the first atom is moved [and rotated] 
so as to form an approximately resonable bond with the second, and is 
then merged with the first object."

Cheers,
   Thomas

-- 
Thomas Holder
MPI for Developmental Biology

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