[phenixbb] model vs Wilson b-factor
Engin Ozkan
eozkan at stanford.edu
Wed Apr 21 13:57:43 PDT 2010
It is reassuring to know that you guys took care of that. I will be
looking forward to the publication.
Thanks,
Engin
On 4/21/10 12:50 PM, Pavel Afonine wrote:
>
>> By the way, I have a related question for Pavel. When you guys were
>> culling the PDB for structures, was there any attention paid to
>> correct the ones that have residual B-factors in the PDB file?
>
> Yes, it's taken care of automatically by phenix.model_vs_data: it
> automatically recognizes if a PDB file contains residual or total
> B-factors. Twinning is takes care of too. There will be paper about it
> soon. The results of phenix.model_vs_data run for "all" PDB entries
> forms the database for POLYGON.
>
>> I am asking this, because a few structures I solved recently to ~2
>> Angstrom resolution were all closer to the upper range of observed
>> structures according to POLYGON, so I thought this could possibly be
>> one reason.
>
> If you tell me which structures concern you then I will check.
>
> Pavel.
>
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--
Engin Özkan
Post-doctoral Scholar
Howard Hughes Medical Institute
Dept of Molecular and Cellular Physiology
279 Campus Drive, Beckman Center B173
Stanford School of Medicine
Stanford, CA 94305
ph: (650)-498-7111
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