[phenixbb] Can Phenix distinguish ARG and PHE

Thomas C. Terwilliger terwilliger at lanl.gov
Thu Jan 12 08:18:04 PST 2012

Dear Dialing,

If you use phenix.refine on the model that you have rebuilt by hand, then
it will not change the sequence from what you have specified.

If you use phenix.autobuild and specify "rebuild_in_place=False" then
autobuild will reinterpret the sequence and could change it from what you
have chosen.

All the best,
Tom T

>> Dear All,
>> Can the Phenix software get mixed with the PHE and ARG?
>> I use the Coot to build a peptide. 2 fragments of peptides are suitable
>> for one specific part of electronic density map, and there is only one
>> residue can distinguish which fragment of peptide is the real peptide
>> fragment for that part of electronic density map, i.e., in one fragment of
>> peptide it contains ARG, and in the other fragment of peptide it contains
>> PHE.
>> As for after Coot rebuild I still need the refinemnt, I am afraid whether
>> the PHENIX can distinguish the PHE and ARG if I cannot distinguish it so
>> nicely in the Coot when I rebuild the peptide.
>> I am looking forward to getting your reply.
>> Dialing_______________________________________________
>> phenixbb mailing list
>> phenixbb at phenix-online.org
>> http://phenix-online.org/mailman/listinfo/phenixbb

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