Dear Niegel,
May be Shijun had to cancel his registration to the PhenixBB as I had to do 
since 2015 due to "too many bounces" whatever the email address I used, 
professional, yahoo or gmail ?... Has this been fixed at some point ?

All the best,Philippe
 Philippe BENAS, Ph.D.

Laboratoire de Cristallographie et RMN Biologiques, UMR 8015 CNRS
Faculté de Pharmacie, Université Paris Descartes
Case 48
Av, de l'Observatoire
F-75270 PARIS cedex 06
URLs: ,

      De : Nigel Moriarty <>
 Envoyé le : Vendredi 2 mars 2018 8h25
 Objet : Re: [ccp4bb] phenix refinement about cis-proline

You can ask all the questions you like about Phenix on PhenixBB. However, to 
answer your question, you can set all peptides to trans using
or more specific control using
apply_cis_trans_specification {    cis_trans_mod = cis *trans    
residue_selection = None  }
to any number of peptides.
---Nigel W. Moriarty
Building 33R0349, Molecular Biophysics and Integrated BioimagingLawrence 
Berkeley National Laboratory
Berkeley, CA 94720-8235
Phone : 510-486-5709     Email :
Fax   : 510-486-5909       Web  :
On Thu, Mar 1, 2018 at 10:58 PM, 张士军 <> wrote:

Dear all    I am refining a structure which has cis-Pro and trans-Pro, the 
tans-Pro is gone when I set the "threshold degrees for cis-peptide " from 
default 45 to 65, but still has cis-Pro. While no significant change when I set 
it to 15. My question is how to set in phenix refinement to clear the Pro 
residues in cis- or trans- conformations.Best Regards shijun  


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