Literature DB >> 19488705

Methods and software for diffuse X-ray scattering from protein crystals.

Michael E Wall1.   

Abstract

Proteins in thermal equilibrium are associated with conformational distributions rather than single, static structures. Although there are no experimental methods to measure the full protein conformational distribution, several methods exist to probe important aspects. Diffuse X-ray scattering is one such method. We have measured the first three-dimensional reciprocal-space maps of the intensity of diffuse X-ray reflections from protein crystals, and used them to characterize protein conformational distributions. With straightforward modifications, X-ray beamlines can be engineered to enable diffuse scattering measurements for protein crystals. To facilitate future studies, the Lunus software package, used to create the first three-dimensional maps of diffuse X-ray reflections from protein crystals, has been made publicly available ( http://lunus.sourceforge.net ).

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Year:  2009        PMID: 19488705     DOI: 10.1007/978-1-59745-483-4_17

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  13 in total

1.  Visualizing networks of mobility in proteins.

Authors:  Mark A Wilson
Journal:  Nat Methods       Date:  2013-09       Impact factor: 28.547

2.  Conformational dynamics of a crystalline protein from microsecond-scale molecular dynamics simulations and diffuse X-ray scattering.

Authors:  Michael E Wall; Andrew H Van Benschoten; Nicholas K Sauter; Paul D Adams; James S Fraser; Thomas C Terwilliger
Journal:  Proc Natl Acad Sci U S A       Date:  2014-12-01       Impact factor: 11.205

Review 3.  X-ray Scattering Studies of Protein Structural Dynamics.

Authors:  Steve P Meisburger; William C Thomas; Maxwell B Watkins; Nozomi Ando
Journal:  Chem Rev       Date:  2017-05-30       Impact factor: 60.622

4.  Diffuse X-ray scattering to model protein motions.

Authors:  Michael E Wall; Paul D Adams; James S Fraser; Nicholas K Sauter
Journal:  Structure       Date:  2014-02-04       Impact factor: 5.006

5.  Measuring and modeling diffuse scattering in protein X-ray crystallography.

Authors:  Andrew H Van Benschoten; Lin Liu; Ana Gonzalez; Aaron S Brewster; Nicholas K Sauter; James S Fraser; Michael E Wall
Journal:  Proc Natl Acad Sci U S A       Date:  2016-03-28       Impact factor: 11.205

Review 6.  Mining electron density for functionally relevant protein polysterism in crystal structures.

Authors:  James S Fraser; Colin J Jackson
Journal:  Cell Mol Life Sci       Date:  2010-12-29       Impact factor: 9.261

7.  Quantum crystallographic charge density of urea.

Authors:  Michael E Wall
Journal:  IUCrJ       Date:  2016-06-08       Impact factor: 4.769

8.  Reproducibility of protein x-ray diffuse scattering and potential utility for modeling atomic displacement parameters.

Authors:  Zhen Su; Medhanjali Dasgupta; Frédéric Poitevin; Irimpan I Mathews; Henry van den Bedem; Michael E Wall; Chun Hong Yoon; Mark A Wilson
Journal:  Struct Dyn       Date:  2021-07-08       Impact factor: 2.920

9.  Predicting X-ray diffuse scattering from translation-libration-screw structural ensembles.

Authors:  Andrew H Van Benschoten; Pavel V Afonine; Thomas C Terwilliger; Michael E Wall; Colin J Jackson; Nicholas K Sauter; Paul D Adams; Alexandre Urzhumtsev; James S Fraser
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2015-07-28

10.  Data publication with the structural biology data grid supports live analysis.

Authors:  Peter A Meyer; Stephanie Socias; Jason Key; Elizabeth Ransey; Emily C Tjon; Alejandro Buschiazzo; Ming Lei; Chris Botka; James Withrow; David Neau; Kanagalaghatta Rajashankar; Karen S Anderson; Richard H Baxter; Stephen C Blacklow; Titus J Boggon; Alexandre M J J Bonvin; Dominika Borek; Tom J Brett; Amedeo Caflisch; Chung-I Chang; Walter J Chazin; Kevin D Corbett; Michael S Cosgrove; Sean Crosson; Sirano Dhe-Paganon; Enrico Di Cera; Catherine L Drennan; Michael J Eck; Brandt F Eichman; Qing R Fan; Adrian R Ferré-D'Amaré; J Christopher Fromme; K Christopher Garcia; Rachelle Gaudet; Peng Gong; Stephen C Harrison; Ekaterina E Heldwein; Zongchao Jia; Robert J Keenan; Andrew C Kruse; Marc Kvansakul; Jason S McLellan; Yorgo Modis; Yunsun Nam; Zbyszek Otwinowski; Emil F Pai; Pedro José Barbosa Pereira; Carlo Petosa; C S Raman; Tom A Rapoport; Antonina Roll-Mecak; Michael K Rosen; Gabby Rudenko; Joseph Schlessinger; Thomas U Schwartz; Yousif Shamoo; Holger Sondermann; Yizhi J Tao; Niraj H Tolia; Oleg V Tsodikov; Kenneth D Westover; Hao Wu; Ian Foster; James S Fraser; Filipe R N C Maia; Tamir Gonen; Tom Kirchhausen; Kay Diederichs; Mercè Crosas; Piotr Sliz
Journal:  Nat Commun       Date:  2016-03-07       Impact factor: 14.919

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