Literature DB >> 32152274

Diffuse X-ray scattering from correlated motions in a protein crystal.

Steve P Meisburger1,2, David A Case3, Nozomi Ando4,5.   

Abstract

Protein dynamics are integral to biological function, yet few techniques are sensitive to collective atomic motions. A long-standing goal of X-ray crystallography has been to combine structural information from Bragg diffraction with dynamic information contained in the diffuse scattering background. However, the origin of macromolecular diffuse scattering has been poorly understood, limiting its applicability. We present a finely sampled diffuse scattering map from triclinic lysozyme with unprecedented accuracy and detail, clearly resolving both the inter- and intramolecular correlations. These correlations are studied theoretically using both all-atom molecular dynamics and simple vibrational models. Although lattice dynamics reproduce most of the diffuse pattern, protein internal dynamics, which include hinge-bending motions, are needed to explain the short-ranged correlations revealed by Patterson analysis. These insights lay the groundwork for animating crystal structures with biochemically relevant motions.

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Year:  2020        PMID: 32152274      PMCID: PMC7062842          DOI: 10.1038/s41467-020-14933-6

Source DB:  PubMed          Journal:  Nat Commun        ISSN: 2041-1723            Impact factor:   14.919


  42 in total

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Authors:  Demian Riccardi; Qiang Cui; George N Phillips
Journal:  Biophys J       Date:  2010-10-20       Impact factor: 4.033

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Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2006-03-18

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Authors:  Peter B Moore
Journal:  Structure       Date:  2009-10-14       Impact factor: 5.006

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7.  Three-dimensional diffuse x-ray scattering from crystals of Staphylococcal nuclease.

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Journal:  Proc Natl Acad Sci U S A       Date:  1997-06-10       Impact factor: 11.205

Review 8.  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

Review 9.  E pluribus unum, no more: from one crystal, many conformations.

Authors:  Rahel A Woldeyes; David A Sivak; James S Fraser
Journal:  Curr Opin Struct Biol       Date:  2014-08-09       Impact factor: 6.809

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Journal:  Nature       Date:  1988-04-14       Impact factor: 49.962

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  9 in total

1.  Dynamic Structural Biology Experiments at XFEL or Synchrotron Sources.

Authors:  Pierre Aller; Allen M Orville
Journal:  Methods Mol Biol       Date:  2021

Review 2.  Transactions from the 69th Annual Meeting of the American Crystallographic Association: Data best practices-current state and future needs.

Authors:  Nicholas K Sauter; John P Rose; Talapady N Bhat
Journal:  Struct Dyn       Date:  2020-03-24       Impact factor: 2.920

3.  Pre- and Post-publication Verification for Reproducible Data Mining in Macromolecular Crystallography.

Authors:  John R Helliwell
Journal:  Methods Mol Biol       Date:  2022

Review 4.  Mapping Enzyme Landscapes by Time-Resolved Crystallography with Synchrotron and X-Ray Free Electron Laser Light.

Authors:  Mark A Wilson
Journal:  Annu Rev Biophys       Date:  2021-12-21       Impact factor: 19.763

5.  Combining X-rays, neutrons and electrons, and NMR, for precision and accuracy in structure-function studies.

Authors:  John R Helliwell
Journal:  Acta Crystallogr A Found Adv       Date:  2021-05-04       Impact factor: 2.290

Review 6.  Correlated Motions in Structural Biology.

Authors:  Da Xu; Steve P Meisburger; Nozomi Ando
Journal:  Biochemistry       Date:  2021-07-22       Impact factor: 3.321

7.  Dependence of crystallographic atomic displacement parameters on temperature (25-150 K) for complexes of horse liver alcohol dehydrogenase.

Authors:  Bryce V Plapp; Lokesh Gakhar; Ramaswamy Subramanian
Journal:  Acta Crystallogr D Struct Biol       Date:  2022-09-27       Impact factor: 5.699

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

Review 9.  Advances in methods for atomic resolution macromolecular structure determination.

Authors:  Michael C Thompson; Todd O Yeates; Jose A Rodriguez
Journal:  F1000Res       Date:  2020-07-02
  9 in total

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