Literature DB >> 14684888

The application of multivariate statistical techniques improves single-wavelength anomalous diffraction phasing.

Navraj S Pannu1, Randy J Read.   

Abstract

Recently, there has been a resurgence in phasing using the single-wavelength anomalous diffraction (SAD) experiment; data from a single wavelength in combination with techniques such as density modification have been used to solve macromolecular structures, even with a very small anomalous signal. Here, a formulation for SAD phasing and refinement employing multivariate statistical techniques is presented. The equation developed accounts explicitly for the correlations among the observed and calculated Friedel mates in a SAD experiment. The correlated SAD equation has been implemented and test cases performed on real diffraction data have revealed better results compared with currently used programs in terms of correlation with the final map and obtaining more reliable phase probability statistics.

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Year:  2003        PMID: 14684888     DOI: 10.1107/s0907444903020808

Source DB:  PubMed          Journal:  Acta Crystallogr D Biol Crystallogr        ISSN: 0907-4449


  33 in total

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Authors:  Heidi A Crosby; Katherine C Rank; Ivan Rayment; Jorge C Escalante-Semerena
Journal:  Appl Environ Microbiol       Date:  2012-07-06       Impact factor: 4.792

2.  Structure of the 12-subunit RNA polymerase II refined with the aid of anomalous diffraction data.

Authors:  Peter A Meyer; Ping Ye; Man-Hee Suh; Mincheng Zhang; Jianhua Fu
Journal:  J Biol Chem       Date:  2009-03-16       Impact factor: 5.157

3.  A multivariate likelihood SIRAS function for phasing and model refinement.

Authors:  Pavol Skubák; Garib Murshudov; Navraj S Pannu
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-09-16

4.  On the combination of molecular replacement and single-wavelength anomalous diffraction phasing for automated structure determination.

Authors:  Santosh Panjikar; Venkataraman Parthasarathy; Victor S Lamzin; Manfred S Weiss; Paul A Tucker
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-09-16

5.  Structure of the PilM-PilN inner membrane type IV pilus biogenesis complex from Thermus thermophilus.

Authors:  Vijaykumar Karuppiah; Jeremy P Derrick
Journal:  J Biol Chem       Date:  2011-05-19       Impact factor: 5.157

6.  Macromolecular X-ray structure determination using weak, single-wavelength anomalous data.

Authors:  Gábor Bunkóczi; Airlie J McCoy; Nathaniel Echols; Ralf W Grosse-Kunstleve; Paul D Adams; James M Holton; Randy J Read; Thomas C Terwilliger
Journal:  Nat Methods       Date:  2014-12-22       Impact factor: 28.547

Review 7.  Advances, interactions, and future developments in the CNS, Phenix, and Rosetta structural biology software systems.

Authors:  Paul D Adams; David Baker; Axel T Brunger; Rhiju Das; Frank DiMaio; Randy J Read; David C Richardson; Jane S Richardson; Thomas C Terwilliger
Journal:  Annu Rev Biophys       Date:  2013-02-28       Impact factor: 12.981

8.  Exploiting subtle structural differences in heavy-atom derivatives for experimental phasing.

Authors:  Jimin Wang; Yue Li; Yorgo Modis
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2014-06-29

9.  Improved technologies now routinely provide protein NMR structures useful for molecular replacement.

Authors:  Binchen Mao; Rongjin Guan; Gaetano T Montelione
Journal:  Structure       Date:  2011-06-08       Impact factor: 5.006

10.  Introduction to phasing.

Authors:  Garry L Taylor
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24
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