Hi James,

> [...] Is there any possible way to merge polar interactions
> with the protein structures to one object ?

yes, you can put them in the same "group" object. This will show them in 
the same slot in group mode.

http://pymolwiki.org/index.php/Group

Cheers,
   Thomas

-- 
Thomas Holder
MPI for Developmental Biology
Spemannstr. 35
D-72076 Tübingen

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