Literature DB >> 17971333

QM/MM computational studies of substrate water binding to the oxygen-evolving centre of photosystem II.

Eduardo M Sproviero1, Katherine Shinopoulos, José A Gascón, James P McEvoy, Gary W Brudvig, Victor S Batista.   

Abstract

This paper reports computational studies of substrate water binding to the oxygen-evolving centre (OEC) of photosystem II (PSII), completely ligated by amino acid residues, water, hydroxide and chloride. The calculations are based on quantum mechanics/molecular mechanics hybrid models of the OEC of PSII, recently developed in conjunction with the X-ray crystal structure of PSII from the cyanobacterium Thermosynechococcus elongatus. The model OEC involves a cuboidal Mn3CaO4Mn metal cluster with three closely associated manganese ions linked to a single mu4-oxo-ligated Mn ion, often called the 'dangling manganese'. Two water molecules bound to calcium and the dangling manganese are postulated to be substrate molecules, responsible for dioxygen formation. It is found that the energy barriers for the Mn(4)-bound water agree nicely with those of model complexes. However, the barriers for Ca-bound waters are substantially larger. Water binding is not simply correlated to the formal oxidation states of the metal centres but rather to their corresponding electrostatic potential atomic charges as modulated by charge-transfer interactions. The calculations of structural rearrangements during water exchange provide support for the experimental finding that the exchange rates with bulk 18 O-labelled water should be smaller for water molecules coordinated to calcium than for water molecules attached to the dangling manganese. The models also predict that the S1-->S2 transition should produce opposite effects on the two water-exchange rates.

Entities:  

Mesh:

Substances:

Year:  2008        PMID: 17971333      PMCID: PMC2614095          DOI: 10.1098/rstb.2007.2210

Source DB:  PubMed          Journal:  Philos Trans R Soc Lond B Biol Sci        ISSN: 0962-8436            Impact factor:   6.237


  36 in total

1.  Stoichiometry of proton release from the catalytic center in photosynthetic water oxidation. Reexamination by a glass electrode study at ph 5.5-7.2.

Authors:  E Schlodder; H T Witt
Journal:  J Biol Chem       Date:  1999-10-22       Impact factor: 5.157

Review 2.  Probing the Mn oxidation states in the OEC. Insights from spectroscopic, computational and kinetic data.

Authors:  D Kuzek; R J Pace
Journal:  Biochim Biophys Acta       Date:  2001-01-05

Review 3.  Photosynthetic water oxidation: towards a mechanism.

Authors:  J H Nugent; A M Rich; M C Evans
Journal:  Biochim Biophys Acta       Date:  2001-01-05

Review 4.  The tetra-manganese complex of photosystem II during its redox cycle - X-ray absorption results and mechanistic implications.

Authors:  H Dau; L Iuzzolino; J Dittmer
Journal:  Biochim Biophys Acta       Date:  2001-01-05

5.  Evidence for impaired hydrogen-bonding of tyrosine YZ in calcium-depleted photosystem II

Authors: 
Journal:  Biochim Biophys Acta       Date:  1999-04-21

6.  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

Review 7.  Oxygen ligand exchange at metal sites - implications for the O2 evolving mechanism of photosystem II.

Authors:  W Hillier; T Wydrzynski
Journal:  Biochim Biophys Acta       Date:  2001-01-05

Review 8.  Mechanism of photosynthetic water oxidation: combining biophysical studies of photosystem II with inorganic model chemistry.

Authors:  J S Vrettos; J Limburg; G W Brudvig
Journal:  Biochim Biophys Acta       Date:  2001-01-05

Review 9.  X-ray spectroscopy-based structure of the Mn cluster and mechanism of photosynthetic oxygen evolution.

Authors:  J H Robblee; R M Cinco; V K Yachandra
Journal:  Biochim Biophys Acta       Date:  2001-01-05

10.  The affinities for the two substrate water binding sites in the O(2) evolving complex of photosystem II vary independently during S-state turnover.

Authors:  W Hillier; T Wydrzynski
Journal:  Biochemistry       Date:  2000-04-18       Impact factor: 3.162

View more
  17 in total

1.  Revealing how nature uses sunlight to split water. Introduction.

Authors:  James Barber; A William Rutherford
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2008-03-27       Impact factor: 6.237

2.  Computational studies of the O(2)-evolving complex of photosystem II and biomimetic oxomanganese complexes.

Authors:  Eduardo M Sproviero; José A Gascón; James P McEvoy; Gary W Brudvig; Victor S Batista
Journal:  Coord Chem Rev       Date:  2008-02       Impact factor: 22.315

Review 3.  Uncovering channels in photosystem II by computer modelling: current progress, future prospects, and lessons from analogous systems.

Authors:  Felix M Ho
Journal:  Photosynth Res       Date:  2008-09-17       Impact factor: 3.573

Review 4.  Substrate water binding and oxidation in photosystem II.

Authors:  Iain L McConnell
Journal:  Photosynth Res       Date:  2008-09-03       Impact factor: 3.573

Review 5.  Computational insights into the O2-evolving complex of photosystem II.

Authors:  Eduardo M Sproviero; James P McEvoy; José A Gascón; Gary W Brudvig; Victor S Batista
Journal:  Photosynth Res       Date:  2008-05-16       Impact factor: 3.573

6.  Structural-functional role of chloride in photosystem II.

Authors:  Ivan Rivalta; Muhamed Amin; Sandra Luber; Serguei Vassiliev; Ravi Pokhrel; Yasufumi Umena; Keisuke Kawakami; Jian-Ren Shen; Nobuo Kamiya; Doug Bruce; Gary W Brudvig; M R Gunner; Victor S Batista
Journal:  Biochemistry       Date:  2011-06-27       Impact factor: 3.162

7.  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

8.  Is Mn-Bound Substrate Water Protonated in the S(2) State of Photosystem II?

Authors:  Ji-Hu Su; Johannes Messinger
Journal:  Appl Magn Reson       Date:  2009-11-13       Impact factor: 0.831

9.  A reaction center-dependent photoprotection mechanism in a highly robust photosystem II from an extremophilic red alga, Cyanidioschyzon merolae.

Authors:  Tomasz Krupnik; Eva Kotabová; Laura S van Bezouwen; Radoslaw Mazur; Maciej Garstka; Peter J Nixon; James Barber; Radek Kaňa; Egbert J Boekema; Joanna Kargul
Journal:  J Biol Chem       Date:  2013-06-17       Impact factor: 5.157

Review 10.  The MoD-QM/MM methodology for structural refinement of photosystem II and other biological macromolecules.

Authors:  Eduardo M Sproviero; Michael B Newcomer; José A Gascón; Enrique R Batista; Gary W Brudvig; Victor S Batista
Journal:  Photosynth Res       Date:  2009 Nov-Dec       Impact factor: 3.573

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.