Literature DB >> 16103362

X-ray damage to the Mn4Ca complex in single crystals of photosystem II: a case study for metalloprotein crystallography.

Junko Yano1, Jan Kern, Klaus-Dieter Irrgang, Matthew J Latimer, Uwe Bergmann, Pieter Glatzel, Yulia Pushkar, Jacek Biesiadka, Bernhard Loll, Kenneth Sauer, Johannes Messinger, Athina Zouni, Vittal K Yachandra.   

Abstract

X-ray absorption spectroscopy was used to measure the damage caused by exposure to x-rays to the Mn(4)Ca active site in single crystals of photosystem II as a function of dose and energy of x-rays, temperature, and time. These studies reveal that the conditions used for structure determination by x-ray crystallography cause serious damage specifically to the metal-site structure. The x-ray absorption spectra show that the structure changes from one that is characteristic of a high-valent Mn(4)(III(2),IV(2)) oxo-bridged Mn(4)Ca cluster to that of Mn(II) in aqueous solution. This damage to the metal site occurs at a dose that is more than one order of magnitude lower than the dose that results in loss of diffractivity and is commonly considered safe for protein crystallography. These results establish quantitative x-ray dose parameters that are applicable to redox-active metalloproteins. This case study shows that a careful evaluation of the structural intactness of the active site(s) by spectroscopic techniques can validate structures derived from crystallography and that it can be a valuable complementary method before structure-function correlations of metalloproteins can be made on the basis of high-resolution x-ray crystal structures.

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Year:  2005        PMID: 16103362      PMCID: PMC1186027          DOI: 10.1073/pnas.0505207102

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  33 in total

Review 1.  Vibrational spectroscopy of the oxygen-evolving complex and of manganese model compounds.

Authors:  H A Chu; W Hillier; N A Law; G T Babcock
Journal:  Biochim Biophys Acta       Date:  2001-01-05

2.  Crystal structure of photosystem II from Synechococcus elongatus at 3.8 A resolution.

Authors:  A Zouni; H T Witt; J Kern; P Fromme; N Krauss; W Saenger; P Orth
Journal:  Nature       Date:  2001-02-08       Impact factor: 49.962

Review 3.  Physical and chemical considerations of damage induced in protein crystals by synchrotron radiation: a radiation chemical perspective.

Authors:  Peter O'Neill; David L Stevens; Elspeth F Garman
Journal:  J Synchrotron Radiat       Date:  2002-11-01       Impact factor: 2.616

4.  Crystal structure of oxygen-evolving photosystem II from Thermosynechococcus vulcanus at 3.7-A resolution.

Authors:  Nobuo Kamiya; Jian-Ren Shen
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-23       Impact factor: 11.205

5.  Structural changes in a cryo-cooled protein crystal owing to radiation damage.

Authors:  W P Burmeister
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2000-03

6.  The electronic structure of Mn in oxides, coordination complexes, and the oxygen-evolving complex of photosystem II studied by resonant inelastic X-ray scattering.

Authors:  Pieter Glatzel; Uwe Bergmann; Junko Yano; Hendrik Visser; John H Robblee; Weiwei Gu; Frank M F de Groot; George Christou; Vincent L Pecoraro; Stephen P Cramer; Vittal K Yachandra
Journal:  J Am Chem Soc       Date:  2004-08-18       Impact factor: 15.419

7.  Identification and assay of synchrotron radiation-induced alterations on metalloenzymes and proteins.

Authors:  B Chance; P Angiolillo; E K Yang; L Powers
Journal:  FEBS Lett       Date:  1980-04-07       Impact factor: 4.124

8.  An e.x.a.f.s. study of the manganese O2-evolving complex in purified Photosystem II membrane fractions. The S1 and S2 states.

Authors:  D J MacLachlan; B J Hallahan; S V Ruffle; J H Nugent; M C Evans; R W Strange; S S Hasnain
Journal:  Biochem J       Date:  1992-07-15       Impact factor: 3.857

9.  Absence of Mn-centered oxidation in the S(2) --> S(3) transition: implications for the mechanism of photosynthetic water oxidation.

Authors:  J Messinger; J H Robblee; U Bergmann; C Fernandez; P Glatzel; H Visser; R M Cinco; K L McFarlane; E Bellacchio; S A Pizarro; S P Cramer; K Sauer; M P Klein; V K Yachandra
Journal:  J Am Chem Soc       Date:  2001-08-15       Impact factor: 15.419

10.  No evidence from FTIR difference spectroscopy that aspartate-170 of the D1 polypeptide ligates a manganese ion that undergoes oxidation during the S0 to S1, S1 to S2, or S2 to S3 transitions in photosystem II.

Authors:  Richard J Debus; Melodie A Strickler; Lee M Walker; Warwick Hillier
Journal:  Biochemistry       Date:  2005-02-08       Impact factor: 3.162

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  191 in total

1.  Room temperature femtosecond X-ray diffraction of photosystem II microcrystals.

Authors:  Jan Kern; Roberto Alonso-Mori; Julia Hellmich; Rosalie Tran; Johan Hattne; Hartawan Laksmono; Carina Glöckner; Nathaniel Echols; Raymond G Sierra; Jonas Sellberg; Benedikt Lassalle-Kaiser; Richard J Gildea; Pieter Glatzel; Ralf W Grosse-Kunstleve; Matthew J Latimer; Trevor A McQueen; Dörte DiFiore; Alan R Fry; Marc Messerschmidt; Alan Miahnahri; Donald W Schafer; M Marvin Seibert; Dimosthenis Sokaras; Tsu-Chien Weng; Petrus H Zwart; William E White; Paul D Adams; Michael J Bogan; Sébastien Boutet; Garth J Williams; Johannes Messinger; Nicholas K Sauter; Athina Zouni; Uwe Bergmann; Junko Yano; Vittal K Yachandra
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-04       Impact factor: 11.205

2.  Crystal structure of monomeric photosystem II from Thermosynechococcus elongatus at 3.6-a resolution.

Authors:  Matthias Broser; Azat Gabdulkhakov; Jan Kern; Albert Guskov; Frank Müh; Wolfram Saenger; Athina Zouni
Journal:  J Biol Chem       Date:  2010-06-17       Impact factor: 5.157

3.  Synthetic model of the asymmetric [Mn3CaO4] cubane core of the oxygen-evolving complex of photosystem II.

Authors:  Shreya Mukherjee; Jamie A Stull; Junko Yano; Theocharis C Stamatatos; Konstantina Pringouri; Troy A Stich; Khalil A Abboud; R David Britt; Vittal K Yachandra; George Christou
Journal:  Proc Natl Acad Sci U S A       Date:  2012-01-30       Impact factor: 11.205

4.  Ammonia binding to the oxygen-evolving complex of photosystem II identifies the solvent-exchangeable oxygen bridge (μ-oxo) of the manganese tetramer.

Authors:  Montserrat Pérez Navarro; William M Ames; Håkan Nilsson; Thomas Lohmiller; Dimitrios A Pantazis; Leonid Rapatskiy; Marc M Nowaczyk; Frank Neese; Alain Boussac; Johannes Messinger; Wolfgang Lubitz; Nicholas Cox
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-10       Impact factor: 11.205

5.  Synthetic cluster models of biological and heterogeneous manganese catalysts for O2 evolution.

Authors:  Emily Y Tsui; Jacob S Kanady; Theodor Agapie
Journal:  Inorg Chem       Date:  2013-12-16       Impact factor: 5.165

Review 6.  Assembly of nonheme Mn/Fe active sites in heterodinuclear metalloproteins.

Authors:  Julia J Griese; Vivek Srinivas; Martin Högbom
Journal:  J Biol Inorg Chem       Date:  2014-04-26       Impact factor: 3.358

7.  X-Ray absorption studies of Zn2+ binding sites in bacterial, avian, and bovine cytochrome bc1 complexes.

Authors:  Lisa Giachini; Francesco Francia; Giulia Veronesi; Dong-Woo Lee; Fevzi Daldal; Li-Shar Huang; Edward A Berry; Tiziana Cocco; Sergio Papa; Federico Boscherini; Giovanni Venturoli
Journal:  Biophys J       Date:  2007-06-15       Impact factor: 4.033

8.  A model of the oxygen-evolving center of photosystem II predicted by structural refinement based on EXAFS simulations.

Authors:  Eduardo M Sproviero; José A Gascón; James P McEvoy; Gary W Brudvig; Victor S Batista
Journal:  J Am Chem Soc       Date:  2008-05-06       Impact factor: 15.419

9.  Direct detection of oxygen ligation to the Mn(4)Ca cluster of photosystem II by X-ray emission spectroscopy.

Authors:  Yulia Pushkar; Xi Long; Pieter Glatzel; Gary W Brudvig; G Charles Dismukes; Terrence J Collins; Vittal K Yachandra; Junko Yano; Uwe Bergmann
Journal:  Angew Chem Int Ed Engl       Date:  2010       Impact factor: 15.336

10.  Origin and temperature dependence of radiation damage in biological samples at cryogenic temperatures.

Authors:  Alke Meents; Sascha Gutmann; Armin Wagner; Clemens Schulze-Briese
Journal:  Proc Natl Acad Sci U S A       Date:  2009-12-28       Impact factor: 11.205

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