[phenixbb] zero B-factors

[Pavel Afonine]

Hello,

all it needs to resolve this particular problem is not use an ancient 
Phenix version (that has that feature).

Edna's problem was solved after switching from 1.8_1069 (which I 
consider ancient) to a more recent (in fact latest) version.

Pavel

On 11/18/13 11:45 AM, Diana Tomchick wrote:
> I have had this problem in the past for refinement of some low resolution datasets. The problem resolved itself when I elected to optimize both the X-ray/stereochemistry and the X-ray/ADP weights. It adds some time to the refinement cycles, but I always have lots of other things to do while I'm waiting for the job to finish.
>
> If you are using the Phenix GUI, then look under the refinement results "Atomic properties" tab which reports ADP statistics. This should provide you a listing of atoms with problematic ADP values.
>
> Diana
>
> * * * * * * * * * * * * * * * * * * * * * * * * * * * *
> Diana R. Tomchick
> Professor
> University of Texas Southwestern Medical Center
> Department of Biophysics
> 5323 Harry Hines Blvd.
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> Email: Diana.Tomchick at UTSouthwestern.edu
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> 214-645-6353 (fax)
>
>
>
>
>
>
>
> On Nov 15, 2013, at 11:37 PM, Edna Patricia Matta, Ms wrote:
>
>> Hello,
>>
>> Recently I did submit a structure to the PDB but they found that some atoms had zero value for the B-factors.
>> I am new in this filed and I do not know what to do. There have been reports of problems with some versions of phenix about this. I used Phenix 1.8.
>>
>> I repeted the refinement doing restrain NCS-related B-factors but I do not find where to check for the the B-factor values in the the log file.
>>
>> Somebody can help me?
>> Thanks a lot,
>> Edna
>>
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