Literature DB >> 19636808

X-ray scattering combined with coordinate-based analyses for applications in natural and artificial photosynthesis.

David M Tiede1, Kristy L Mardis, Xiaobing Zuo.   

Abstract

Advances in X-ray light sources and detectors have created opportunities for advancing our understanding of structure and structural dynamics for supramolecular assemblies in solution by combining X-ray scattering measurement with coordinate-based modeling methods. In this review the foundations for X-ray scattering are discussed and illustrated with selected examples demonstrating the ability to correlate solution X-ray scattering measurements to molecular structure, conformation, and dynamics. These approaches are anticipated to have a broad range of applications in natural and artificial photosynthesis by offering possibilities for structure resolution for dynamic supramolecular assemblies in solution that can not be fully addressed with crystallographic techniques, and for resolving fundamental mechanisms for solar energy conversion by mapping out structure in light-excited reaction states. © Springer Science+Business Media B.V. 2009

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Year:  2009        PMID: 19636808      PMCID: PMC2891609          DOI: 10.1007/s11120-009-9475-6

Source DB:  PubMed          Journal:  Photosynth Res        ISSN: 0166-8595            Impact factor:   3.573


  57 in total

1.  Improving the accuracy of NMR structures of DNA by means of a database potential of mean force describing base-base positional interactions.

Authors:  J Kuszewski; C Schwieters; G M Clore
Journal:  J Am Chem Soc       Date:  2001-05-02       Impact factor: 15.419

2.  Hierarchical map of protein unfolding and refolding at thermal equilibrium revealed by wide-angle X-ray scattering.

Authors:  Mitsuhiro Hirai; Masaharu Koizumi; Tomohiro Hayakawa; Hiroshi Takahashi; Satoru Abe; Harutaka Hirai; Keiko Miura; Katsuaki Inoue
Journal:  Biochemistry       Date:  2004-07-20       Impact factor: 3.162

3.  Refinement of multidomain protein structures by combination of solution small-angle X-ray scattering and NMR data.

Authors:  Alexander Grishaev; Justin Wu; Jill Trewhella; Ad Bax
Journal:  J Am Chem Soc       Date:  2005-11-30       Impact factor: 15.419

4.  Global rigid body modeling of macromolecular complexes against small-angle scattering data.

Authors:  Maxim V Petoukhov; Dmitri I Svergun
Journal:  Biophys J       Date:  2005-05-27       Impact factor: 4.033

5.  X-ray diffraction "fingerprinting" of DNA structure in solution for quantitative evaluation of molecular dynamics simulation.

Authors:  Xiaobing Zuo; Guanglei Cui; Kenneth M Merz; Ligang Zhang; Frederick D Lewis; David M Tiede
Journal:  Proc Natl Acad Sci U S A       Date:  2006-02-27       Impact factor: 11.205

6.  Simulation-based fitting of protein-protein interaction potentials to SAXS experiments.

Authors:  Seung Joong Kim; Charles Dumont; Martin Gruebele
Journal:  Biophys J       Date:  2008-03-07       Impact factor: 4.033

7.  Global molecular structure and interfaces: refining an RNA:RNA complex structure using solution X-ray scattering data.

Authors:  Xiaobing Zuo; Jingbu Wang; Trenton R Foster; Charles D Schwieters; David M Tiede; Samuel E Butcher; Yun-Xing Wang
Journal:  J Am Chem Soc       Date:  2008-02-27       Impact factor: 15.419

8.  Small-angle X-ray scattering from RNA, proteins, and protein complexes.

Authors:  Jan Lipfert; Sebastian Doniach
Journal:  Annu Rev Biophys Biomol Struct       Date:  2007

9.  Structural characterization of flexible proteins using small-angle X-ray scattering.

Authors:  Pau Bernadó; Efstratios Mylonas; Maxim V Petoukhov; Martin Blackledge; Dmitri I Svergun
Journal:  J Am Chem Soc       Date:  2007-04-06       Impact factor: 15.419

10.  Dynamic charge interactions create surprising rigidity in the ER/K alpha-helical protein motif.

Authors:  Sivaraj Sivaramakrishnan; Benjamin J Spink; Adelene Y L Sim; Sebastian Doniach; James A Spudich
Journal:  Proc Natl Acad Sci U S A       Date:  2008-09-03       Impact factor: 11.205

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  3 in total

1.  FoXS: a web server for rapid computation and fitting of SAXS profiles.

Authors:  Dina Schneidman-Duhovny; Michal Hammel; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2010-05-27       Impact factor: 16.971

2.  Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography.

Authors:  J R Stagno; Y Liu; Y R Bhandari; C E Conrad; S Panja; M Swain; L Fan; G Nelson; C Li; D R Wendel; T A White; J D Coe; M O Wiedorn; J Knoska; D Oberthuer; R A Tuckey; P Yu; M Dyba; S G Tarasov; U Weierstall; T D Grant; C D Schwieters; J Zhang; A R Ferré-D'Amaré; P Fromme; D E Draper; M Liang; M S Hunter; S Boutet; K Tan; X Zuo; X Ji; A Barty; N A Zatsepin; H N Chapman; J C H Spence; S A Woodson; Y-X Wang
Journal:  Nature       Date:  2016-11-14       Impact factor: 49.962

3.  Oxyanion induced variations in domain structure for amorphous cobalt oxide oxygen evolving catalysts, resolved by X-ray pair distribution function analysis.

Authors:  Gihan Kwon; Oleksandr Kokhan; Ali Han; Karena W Chapman; Peter J Chupas; Pingwu Du; David M Tiede
Journal:  Acta Crystallogr B Struct Sci Cryst Eng Mater       Date:  2015-12-01
  3 in total

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