It really looks like a bug. Or it has something to do with molecule libraries and it happend somehow that those links are defined in CIF file. Then they would be applied with those two operations.
May be try to update both coot and libs?

On 11/05/2014 06:16 AM, ly wrote:
Hi Jan,
Thank you very much!
It worked.
Another problem is that the unexpected linker always formed during fit the residue to the map. Are there any parameter setting or python script using for the function of Real Space Refinement or Regularize zone to avoid this problem ?

Dorothy



--
Jan Stransky, PhD student
Institute of Biotechnology, AS CR
Laboratory of structure and function of biomolecules
Nad Safinou II 366
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Czech Republic

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