[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.


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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