[phenixbb] Unwanted LINK records

Luca Pellegrini lp212 at cam.ac.uk
Fri Jul 26 08:21:01 PDT 2019


Phenix.real_space_refine generates a few spurious covalent bonds between protein and ligand in my structure, which distort the local structure, and then adds the corresponding LINK records in the output file. Is there a way to avoid this? 

I am aware of the anti-link option previously mentioned in the phenixbb: http://www.phenix-online.org/pipermail/phenixbb/2018-January/023677.html, but I was wondering if there was another way of preventing this from happening. I am using Phenix 1.15.2-3472.

Best wishes,

Luca Pellegrini, PhD
Department of Biochemistry
University of Cambridge
Cambridge CB2 1GA
United Kingdom

lp212 at cam.ac.uk
tel.: 0044 1223 760469

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