One thing I have wondered about Coot is when you add new waters into the 
structure and these go into a molecule called 'Pointer Atoms...', I have never 
worked out how to get the symmetry mates of these newly inserted waters to 
appear unless I eventually merge them into the same pdb file as the protein.
As an example, here is a newly inserted water molecule (A6) in Pointer-Atoms 
close to a 2-fold:
http://www.ucl.ac.uk/~rmhajc0/watersym.jpg
Is there a trick to get its symmetry mate to appear without merging the pdb's?
I am trying to avoid the situation where you accidentally build two or more 
waters into the same density because the symmetry mates are not showing and 
have to go through all the waters again afterwards to sort it out. I have 
checked the 'Show Symmetry' box for that molecule and I have tried changing the 
radius, etc.
Any clues much appreciated.
Jon.C.



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