PHZwart at lbl.gov
Thu Dec 14 09:11:42 PST 2006
>> 4) The refinement (TLS + ML + B individual) went through, I got
>> reasonable R, Rfree, rmsdBOND, rmsdANGLE. But the B factors are
>> pretty low. The B factor of the backbone is much lower than the side
>> chain, some have numbers like 4. Some metal atoms also have B
>> factors around 4. What did I do wrong?
What is the resolution of your data?
Backbone B-s usually are lower than the main chain.
What is the Wilson B value reported by phenix.refine?
You could re-refine and randomize all B-values and see what happens (I
have to get back to you to to get the exact command for this). Maybe it
is useful to obtain a copy of the latest verison of phenix.refine by
downloading cci_apps from our server http://www.phenix-online.org.
If your B-values still come out lowish, try growing crystals that do not
diffract very well, that usually does the trick.
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