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Re: [ccp4bb] resolution vs ramachandran |
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CCP4bb navigationCCP4bb <-- 2007 <-- August 2007 <-- 03 August 2007Subject: Re: resolution vs ramachandran From: price {- at -} UCHICAGO {- dot -} EDU price {- at -} UCHICAGO {- dot -} EDU Date: 2007-08-03 For modest resolution structures, the availability of ncs restraints should have a big effect on one's Ramachandran expectations: I've found ncs restraints at 3-3.5A do wonders for the Ramachandran plot even when they don't do much for Rfree. Phoebe At 11:44 AM 8/3/2007, Edward Berry wrote: >Procheck puts out such a correlation (% most favorable >vs resolution) in the _04.ps file. For example look at >page 7, first panel of the sample procheck output at: >http://sb20.lbl.gov/SQR/procheck-2H88.pdf >It appears that 83.5% would be well above average >for a 3 A structure according to procheck statistics. >(However I think most structures nowadays are >"above average" by procheck statistics) > >Ed > >Xiaofei Jia wrote: > >>Dear all, >> >>I am now preparing my structure for deposition. The >>crystal diffracts to 3.0 A. R: 0.20; R free: 0.25. >>What I am concerned with is the Ramachandran plot; >>83.5% in core region, 15.8% in allowed, 0.5 % in >>general allowed,0.2% in disallowed region. The model >>fits in density pretty well and all the attempts to >>improve Ramachandran have not been successful after >>quite a few trials. I am wondering if 83.5 % in core >>region is acceptable with 3.0 A resolution data? Moreover, is there >>some numeric correlation between >>diffraction resolution and model Ramachandran? Thank >>you for your help. >>Xiaofei >> >> >>____________________________________________________________________________________ >>Moody friends. Drama queens. Your life? Nope! - their life, your >>story. Play Sims Stories at Yahoo! Games. >>http://sims.yahoo.com/ --------------------------------------------------------------------------------------------------------------------------- Phoebe A. Rice Assoc. Prof., Dept. of Biochemistry & Molecular Biology The University of Chicago phone 773 834 1723 fax 773 702 0439 http://bmb.bsd.uchicago.edu/index.html http://www.nasa.gov/mission_pages/cassini/multimedia/pia06064.html CCP4bb navigationCCP4bb <-- 2007 <-- August 2007 <-- 03 August 2007 |
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