On 19/11/12 10:32, Jenny Harmer wrote:
I would like to add CONECT records to my pdb file to indicate interactions 
between protein side chains and a co-factor (all of the related proteins 
contain them).

I don't think CONECT records are the canonical method to specify such a think (if you mean covalent bond).

  I am using Coot to refine the structure but have access to other programs. Is 
there a program to introduce these records into the pdb file or is it done 
automatically when the pdb has been submitted?


I think you want a LINK record

Extensions -> Modelling -> Make Link.

Paul.

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