I am using TLS refinement with Phenix for the structure refinement.
On Fri, Jul 31, 2009 at 12:00 AM, Jiamu Du <[email protected]> wrote: > Dear All, > I am refining a structure of a complex between of 50kD protein and a 20kD > glycosylated protien. The data is of 2.9 A resolution. The wilson B factor > is as high as 86.3 A^2. > The refinement seems well with R/Rf of 0.21/0.25. But the B-factor is extra > high. For the 50kD part, the average B factor is 76.5 A^2. But the B factor > of the 20 kD glycosylated protein is as high as 133.3 A^2. Although the > electron density looks fine, even the sugar chain is seen clearly. > My question is: > 1. How to reduce the B factor to a reasonable level? > 2. If it can not be redueced, when I published it, is this value > acceptable? > 3. In the same of similar resolutionIs, is there some other structures like > this situation? A component or a subunit of the protein has a extra high B > factor as high as 130. > > Thanks and best wishes. > > > -- > Jiamu Du, Ph.D. > State Key Laboratory of Molecular Biology > Institute of Biochemistry and Cell Biology > Shanghai Institutes for Biological Sciences > Chinese Academy of Sciences > 320 Yue-Yang Road > Shanghai 200031 > P. R. China > Tel: +86-21-5492-1117 > E-mail: [email protected] > -- Jiamu Du, Ph.D. State Key Laboratory of Molecular Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences 320 Yue-Yang Road Shanghai 200031 P. R. China Tel: +86-21-5492-1117 E-mail: [email protected]
