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Title: Computational insights on crystal structures of the oxygen-evolving complex of photosystem II with either Ca²⁺ or Ca²⁺ substituted by Sr²⁺

Journal Article · · Biochemistry
DOI:https://doi.org/10.1021/bi5011706· OSTI ID:1183828
 [1];  [2];  [1];  [1];  [1]
  1. Yale Univ., New Haven, CT (United States)
  2. Yale Univ., New Haven, CT (United States); Brookhaven National Lab. (BNL), Upton, NY (United States)

The oxygen-evolving complex of photosystem II can function with either Ca²⁺ or Sr²⁺ as the heterocation, but the reason for differing turnover rates remains unresolved despite reported X-ray crystal structures for both forms. Using quantum mechanics/molecular mechanics (QM/MM) calculations, we optimize structures with each cation in both the resting state (S₁) and in a series of reduced states (S₀, S₋₁, and S-₂). Through comparison with experimental data, we determine that X-ray crystal structures with either Ca²⁺ or Sr²⁺ are most consistent with the S-₂ state, Mn₄[III,III,III,II] with O4 and O5 protonated. As expected, the QM/MM models show that Ca²⁺/Sr²⁺ substitution results in elongation of the heterocation bonds and displaces terminal waters W3 and W4. The optimized structures also show that hydrogen-bonded W5 is displaced in all S states with Sr²⁺ as the heterocation, suggesting that this water may play a critical role during water oxidation.

Research Organization:
Brookhaven National Laboratory (BNL), Upton, NY (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
Grant/Contract Number:
SC00112704
OSTI ID:
1183828
Report Number(s):
BNL-107849-2015-JA; R&D Project: CO045; KC0301020
Journal Information:
Biochemistry, Vol. 54, Issue 3; ISSN 0006-2960
Publisher:
American Chemical Society (ACS)Copyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 29 works
Citation information provided by
Web of Science

References (41)

Photosystem II: The machinery of photosynthetic water splitting journal October 2008
Recent developments in research on water oxidation by photosystem II journal April 2012
Photosystem II: The Reaction Center of Oxygenic Photosynthesis journal June 2013
Water-Splitting Chemistry of Photosystem II journal November 2006
COOPERATION OF CHARGES IN PHOTOSYNTHETIC O 2 EVOLUTION–I. A LINEAR FOUR STEP MECHANISM journal June 1970
Alternating electron and proton transfer steps in photosynthetic water oxidation journal September 2012
Calcium reconstitutes high rates of oxygen evolution in polypeptide depleted Photosystem II preparations journal February 1984
Quantifying the Ion Selectivity of the Ca 2+ Site in Photosystem II:  Evidence for Direct Involvement of Ca 2+ in O 2 Formation journal July 2001
Biosynthetic Ca2+/Sr2+ Exchange in the Photosystem II Oxygen-evolving Enzyme of Thermosynechococcus elongatus journal May 2004
Crystal structure of oxygen-evolving photosystem II at a resolution of 1.9 Å journal April 2011
Structure of Sr-substituted photosystem II at 2.1 A resolution and its implications in the mechanism of water oxidation journal February 2013
Electronic Structure of the Mn 4 O x Ca Cluster in the S 0 and S 2 States of the Oxygen-Evolving Complex of Photosystem II Based on Pulse 55 Mn-ENDOR and EPR Spectroscopy journal November 2007
S 1 -State Model of the O 2 -Evolving Complex of Photosystem II journal July 2011
X-ray damage to the Mn4Ca complex in single crystals of photosystem II: A case study for metalloprotein crystallography journal August 2005
Entangled quantum electronic wavefunctions of the Mn4CaO5 cluster in photosystem II journal June 2013
Oxygen-Evolving Mn Cluster in Photosystem II: The Protonation Pattern and Oxidation State in the High-Resolution Crystal Structure journal April 2012
Structural models of the manganese complex of photosystem II and mechanistic implications journal January 2012
S 0 -State Model of the Oxygen-Evolving Complex of Photosystem II journal October 2013
PSII manganese cluster: Protonation of W2, O5, O4 and His337 in the S1 state explored by combined quantum chemical and electrostatic energy computations journal August 2014
Two Interconvertible Structures that Explain the Spectroscopic Properties of the Oxygen-Evolving Complex of Photosystem II in the S 2 State journal August 2012
Electronic structure of the oxygen-evolving complex in photosystem II prior to O-O bond formation journal August 2014
Geometry optimization with QM/MM, ONIOM, and other combined methods. I. Microiterations and constraints journal April 2003
Density‐functional thermochemistry. III. The role of exact exchange journal April 1993
Ab initio effective core potentials for molecular calculations. Potentials for the transition metal atoms Sc to Hg journal January 1985
Ab initio effective core potentials for molecular calculations. Potentials for main group elements Na to Bi journal January 1985
The influence of polarization functions on molecular orbital hydrogenation energies journal January 1973
Structural–Functional Role of Chloride in Photosystem II journal July 2011
Structural and Oxidation State Changes of the Photosystem II Manganese Complex in Four Transitions of the Water Oxidation Cycle (S 0 → S 1 , S 1 → S 2 , S 2 → S 3 , and S 3,4 → S 0 ) Characterized by X-ray Absorption Spectroscopy at 20 K and Room Temperature journal February 2005
Strontium EXAFS Reveals the Proximity of Calcium to the Manganese Cluster of Oxygen-Evolving Photosystem II journal October 1998
The Basic Properties of the Electronic Structure of the Oxygen-evolving Complex of Photosystem II Are Not Perturbed by Ca 2+ Removal journal May 2012
Influence of the Ca 2+ ion on the Mn 4 Ca conformation and the H-bond network arrangement in Photosystem II journal January 2014
Effect of Ca 2+ /Sr 2+ Substitution on the Electronic Structure of the Oxygen-Evolving Complex of Photosystem II: A Combined Multifrequency EPR, 55 Mn-ENDOR, and DFT Study of the S 2 State journal March 2011
18 O Isotope Exchange Measurements Reveal that Calcium Is Involved in the Binding of One Substrate-Water Molecule to the Oxygen-Evolving Complex in Photosystem II journal May 2003
The structure and activation of substrate water molecules in the S2 state of photosystem II studied by hyperfine sublevel correlation spectroscopy journal January 2012
The structure and activation of substrate water molecules in Sr 2+ -substituted photosystem II journal January 2014
Oxygen-evolving complex of photosystem II: correlating structure with spectroscopy journal January 2014
Effects of Sr 2+ -Substitution on the Reduction Rates of Y z in PSII MembranesEvidence for Concerted Hydrogen-Atom Transfer in Oxygen Evolution journal December 2000
Ca2+ determines the entropy changes associated with the formation of transition states during water oxidation by Photosystem II journal January 2011
What does the Sr-substituted 2.1 Å resolution crystal structure of photosystem II reveal about the water oxidation mechanism? journal January 2014
Reduced derivatives of the manganese cluster in the photosynthetic oxygen-evolving complex journal December 1992
VMD: Visual molecular dynamics journal February 1996

Cited By (4)

Calcium and heterometallic manganese–calcium complexes supported by tripodal pyridine-carboxylate ligands: structural, EPR and theoretical investigations journal January 2015
Vibrational Analysis of Water Network Around the Mn Cluster book January 2020
Insights into Photosystem II from Isomorphous Difference Fourier Maps of Femtosecond X-ray Diffraction Data and Quantum Mechanics/Molecular Mechanics Structural Models journal January 2017
Crystallographic Data Support the Carousel Mechanism of Water Supply to the Oxygen-Evolving Complex of Photosystem II journal September 2017