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de Lichtenberg C, Rapatskiy L, Reus M, Heyno E, Schnegg A, Nowaczyk MM, Lubitz W, Messinger J, Cox N. Assignment of the slowly exchanging substrate water of nature's water-splitting cofactor. Proc Natl Acad Sci U S A 2024; 121:e2319374121. [PMID: 38437550 PMCID: PMC10945779 DOI: 10.1073/pnas.2319374121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2023] [Accepted: 02/12/2024] [Indexed: 03/06/2024] Open
Abstract
Identifying the two substrate water sites of nature's water-splitting cofactor (Mn4CaO5 cluster) provides important information toward resolving the mechanism of O-O bond formation in Photosystem II (PSII). To this end, we have performed parallel substrate water exchange experiments in the S1 state of native Ca-PSII and biosynthetically substituted Sr-PSII employing Time-Resolved Membrane Inlet Mass Spectrometry (TR-MIMS) and a Time-Resolved 17O-Electron-electron Double resonance detected NMR (TR-17O-EDNMR) approach. TR-MIMS resolves the kinetics for incorporation of the oxygen-isotope label into the substrate sites after addition of H218O to the medium, while the magnetic resonance technique allows, in principle, the characterization of all exchangeable oxygen ligands of the Mn4CaO5 cofactor after mixing with H217O. This unique combination shows i) that the central oxygen bridge (O5) of Ca-PSII core complexes isolated from Thermosynechococcus vestitus has, within experimental conditions, the same rate of exchange as the slowly exchanging substrate water (WS) in the TR-MIMS experiments and ii) that the exchange rates of O5 and WS are both enhanced by Ca2+→Sr2+ substitution in a similar manner. In the context of previous TR-MIMS results, this shows that only O5 fulfills all criteria for being WS. This strongly restricts options for the mechanism of water oxidation.
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Affiliation(s)
- Casper de Lichtenberg
- Department of Chemistry- Ångström Laboratorium, Uppsala University, UppsalaS-75120, Sweden
- Department of Chemistry, Chemical Biological Centre, Umeå University, UmeåS-90187, Sweden
| | - Leonid Rapatskiy
- Max Planck Institute for Chemical Energy Conversion, Mülheim an der RuhrD-45470, Germany
| | - Michael Reus
- Max Planck Institute for Chemical Energy Conversion, Mülheim an der RuhrD-45470, Germany
| | - Eiri Heyno
- Max Planck Institute for Chemical Energy Conversion, Mülheim an der RuhrD-45470, Germany
| | - Alexander Schnegg
- Max Planck Institute for Chemical Energy Conversion, Mülheim an der RuhrD-45470, Germany
| | - Marc M. Nowaczyk
- Department of Plant Biochemistry, Ruhr-Universität Bochum, BochumD-44780, Germany
| | - Wolfgang Lubitz
- Max Planck Institute for Chemical Energy Conversion, Mülheim an der RuhrD-45470, Germany
| | - Johannes Messinger
- Department of Chemistry- Ångström Laboratorium, Uppsala University, UppsalaS-75120, Sweden
- Department of Chemistry, Chemical Biological Centre, Umeå University, UmeåS-90187, Sweden
| | - Nicholas Cox
- Max Planck Institute for Chemical Energy Conversion, Mülheim an der RuhrD-45470, Germany
- Research School of Chemistry, Australian National University, Acton ACT2601, Australia
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2
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Marin D, Gerbaud G, Margeat O, Ziarelli F, Ferrer F, Ouari O, Campos A, Bertaina S, Savoyant A. Magnetic functionalization of ZnO nanoparticles surfaces via optically generated methyl radicals. J Chem Phys 2023; 158:2889491. [PMID: 37158327 DOI: 10.1063/5.0152015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Accepted: 04/24/2023] [Indexed: 05/10/2023] Open
Abstract
The combination of nuclear and electron magnetic resonance techniques, in pulse and continuous wave regimes, is used to unravel the nature and features of the light-induced magnetic state arising at the surface of chemically prepared zinc oxide nanoparticles (NPs) occurring under 120 K when subjected to a sub-bandgap (405 nm) laser excitation. It is shown that the four-line structure observed around g ∼ 2.00 in the as-grown samples (beside the usual core-defect signal at g ∼ 1.96) arises from surface-located methyl radicals (•CH3), originating from the acetate capped ZnO molecules. By functionalizing the as-grown zinc oxide NPs with deuterated sodium acetate, the •CH3 electron paramagnetic resonance (EPR) signal is replaced by trideuteromethyl (•CD3). For •CH3, •CD3, and core-defect signals, an electron spin echo is detected below ∼100 K, allowing for the spin-lattice and spin-spin relaxation-time measurements for each of them. Advanced pulse-EPR techniques reveal the proton or deuteron spin-echo modulation for both radicals and give access to small unresolved superhyperfine couplings between adjacent •CH3. In addition, electron double resonance techniques show that some correlations exist between the different EPR transitions of •CH3. These correlations are discussed as possibly arising from cross-relaxation phenomena between different rotational states of radicals.
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Affiliation(s)
- D Marin
- Aix Marseille University, CNRS, IM2NP, Marseille, France
| | - G Gerbaud
- Aix Marseille University, CNRS, BIP, Marseille, France
| | - O Margeat
- Aix Marseille University, CNRS, CINAM, Marseille, France
| | - F Ziarelli
- Aix Marseille University, CNRS, Centrale Marseille, FSCM (FR1739), 13397 Marseille, France
| | - F Ferrer
- Aix Marseille University, CNRS, ICR, Marseille, France
| | - O Ouari
- Aix Marseille University, CNRS, ICR, Marseille, France
| | - A Campos
- Aix Marseille University, CNRS, Centrale Marseille, FSCM (FR1739), 13397 Marseille, France
| | - S Bertaina
- Aix Marseille University, CNRS, IM2NP, Marseille, France
| | - A Savoyant
- Aix Marseille University, CNRS, IM2NP, Marseille, France
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3
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McClain KR, Kwon H, Chakarawet K, Nabi R, Kragskow JGC, Chilton NF, Britt RD, Long JR, Harvey BG. A Trinuclear Gadolinium Cluster with a Three-Center One-Electron Bond and an S = 11 Ground State. J Am Chem Soc 2023; 145:8996-9002. [PMID: 37068040 PMCID: PMC10141408 DOI: 10.1021/jacs.3c00182] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/18/2023]
Abstract
The recent discovery of metal-metal bonding and valence delocalization in the dilanthanide complexes (CpiPr5)2Ln2I3 (CpiPr5 = pentaisopropylcyclopentadienyl; Ln = Y, Gd, Tb, Dy) opened up the prospect of harnessing the 4fn5dz21 electron configurations of non-traditional divalent lanthanide ions to access molecules with novel bonding motifs and magnetism. Here, we report the trinuclear mixed-valence clusters (CpiPr5)3Ln3H3I2 (1-Ln, Ln = Y, Gd), which were synthesized via potassium graphite reduction of the trivalent clusters (CpiPr5)3Ln3H3I3. Structural, computational, and spectroscopic analyses support valence delocalization in 1-Ln resulting from a three-center, one-electron σ bond formed from the 4dz2 and 5dz2 orbitals on Y and Gd, respectively. Dc magnetic susceptibility data obtained for 1-Gd reveal that valence delocalization engenders strong parallel alignment of the σ-bonding electron and the 4f electrons of each gadolinium center to afford a high-spin ground state of S = 11. Notably, this represents the first clear instance of metal-metal bonding in a molecular trilanthanide complex, and the large spin-spin exchange constant of J = 168(1) cm-1 determined for 1-Gd is only the second largest coupling constant characterized to date for a molecular lanthanide compound.
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Affiliation(s)
- K Randall McClain
- Naval Air Warfare Center, Weapons Division, Research Department, Chemistry Division, US Navy, China Lake, California 93555, United States
| | - Hyunchul Kwon
- Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
| | - Khetpakorn Chakarawet
- Department of Chemistry, University of California, Davis, Davis, California 95616, United States
| | - Rizwan Nabi
- Department of Chemistry, The University of Manchester, Manchester M13 9PL, U.K
| | - Jon G C Kragskow
- Department of Chemistry, The University of Manchester, Manchester M13 9PL, U.K
| | - Nicholas F Chilton
- Department of Chemistry, The University of Manchester, Manchester M13 9PL, U.K
| | - R David Britt
- Department of Chemistry, University of California, Davis, Davis, California 95616, United States
| | - Jeffrey R Long
- Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, California 94720, United States
- Materials Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Benjamin G Harvey
- Naval Air Warfare Center, Weapons Division, Research Department, Chemistry Division, US Navy, China Lake, California 93555, United States
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4
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Lubitz W, Pantazis DA, Cox N. Water oxidation in oxygenic photosynthesis studied by magnetic resonance techniques. FEBS Lett 2023; 597:6-29. [PMID: 36409002 DOI: 10.1002/1873-3468.14543] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2022] [Revised: 11/14/2022] [Accepted: 11/15/2022] [Indexed: 11/23/2022]
Abstract
The understanding of light-induced biological water oxidation in oxygenic photosynthesis is of great importance both for biology and (bio)technological applications. The chemically difficult multistep reaction takes place at a unique protein-bound tetra-manganese/calcium cluster in photosystem II whose structure has been elucidated by X-ray crystallography (Umena et al. Nature 2011, 473, 55). The cluster moves through several intermediate states in the catalytic cycle. A detailed understanding of these intermediates requires information about the spatial and electronic structure of the Mn4 Ca complex; the latter is only available from spectroscopic techniques. Here, the important role of Electron Paramagnetic Resonance (EPR) and related double resonance techniques (ENDOR, EDNMR), complemented by quantum chemical calculations, is described. This has led to the elucidation of the cluster's redox and protonation states, the valence and spin states of the manganese ions and the interactions between them, and contributed substantially to the understanding of the role of the protein surrounding, as well as the binding and processing of the substrate water molecules, the O-O bond formation and dioxygen release. Based on these data, models for the water oxidation cycle are developed.
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Affiliation(s)
- Wolfgang Lubitz
- Max-Planck-Institut für Chemische Energiekonversion, Mülheim/Ruhr, Germany
| | | | - Nicholas Cox
- Research School of Chemistry, Australian National University, Canberra, ACT, Australia
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5
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Rogers C, Hardwick O, Corry TA, Rummel F, Collison D, Bowen AM, O’Malley PJ. Magnetic and Electronic Structural Properties of the S 3 State of Nature's Water Oxidizing Complex: A Combined Study in ELDOR-Detected Nuclear Magnetic Resonance Spectral Simulation and Broken-Symmetry Density Functional Theory. ACS OMEGA 2022; 7:41783-41788. [PMID: 36406523 PMCID: PMC9670293 DOI: 10.1021/acsomega.2c06151] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Accepted: 10/24/2022] [Indexed: 06/16/2023]
Abstract
ELDOR-detected nuclear magnetic resonance (EDNMR) spectral simulations combined with broken-symmetry density functional theory (BS-DFT) calculations are used to obtain and to assign the 55Mn hyperfine coupling constants (hfcs) for modified forms of the water oxidizing complex in the penultimate S3 state of the water oxidation cycle. The study shows that an open cubane form of the core Mn4CaO6 cluster explains the magnetic properties of the dominant S = 3 species in all cases studied experimentally with no need to invoke a closed cubane intermediate possessing a distorted pentacoordinate Mn4 ion as recently suggested. EDNMR simulations found that both the experimental bandwidth and multinuclear transitions may alter relative EDNMR peak intensities, potentially leading to incorrect assignment of hfcs. The implications of these findings for the water oxidation mechanism are discussed.
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6
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Kisgeropoulos EC, Gan YJ, Greer SM, Hazel JM, Shafaat HS. Pulsed Multifrequency Electron Paramagnetic Resonance Spectroscopy Reveals Key Branch Points for One- vs Two-Electron Reactivity in Mn/Fe Proteins. J Am Chem Soc 2022; 144:11991-12006. [PMID: 35786920 DOI: 10.1021/jacs.1c13738] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Traditionally, the ferritin-like superfamily of proteins was thought to exclusively use a diiron active site in catalyzing a diverse array of oxygen-dependent reactions. In recent years, novel redox-active cofactors featuring heterobimetallic Mn/Fe active sites have been discovered in both the radical-generating R2 subunit of class Ic (R2c) ribonucleotide reductases (RNRs) and the related R2-like ligand-binding oxidases (R2lox). However, the protein-specific factors that differentiate the radical reactivity of R2c from the C-H activation reactions of R2lox remain unknown. In this work, multifrequency pulsed electron paramagnetic resonance (EPR) spectroscopy and ligand hyperfine techniques in conjunction with broken-symmetry density functional theory calculations are used to characterize the molecular and electronic structures of two EPR-active intermediates trapped during aerobic assembly of the R2lox Mn/Fe cofactor. A MnIII(μ-O)(μ-OH)FeIII species is identified as the first EPR-active species and represents a common state between the two classes of redox-active Mn/Fe proteins. The species downstream from the MnIII(μ-O)(μ-OH)FeIII state exhibits unique EPR properties, including unprecedented spectral breadth and isotope-dependent g-tensors, which are attributed to a weakly coupled, hydrogen-bonded MnIII(μ-OH)FeIII species. This final intermediate precedes formation of the MnIII/FeIII resting state and is suggested to be relevant to understanding the endogenous reactivity of R2lox.
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Affiliation(s)
- Effie C Kisgeropoulos
- The Ohio State Biochemistry Program, The Ohio State University, 100 W 18th Avenue, Columbus, Ohio 43210, United States
| | - Yunqiao J Gan
- Department of Chemistry and Biochemistry, The Ohio State University, 100 W 18th Avenue, Columbus, Ohio 43210, United States
| | - Samuel M Greer
- National High Magnetic Field Laboratory, Florida State University, Tallahassee, Florida 32310, United States.,Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306, United States
| | - Joseph M Hazel
- Department of Chemistry and Biochemistry, The Ohio State University, 100 W 18th Avenue, Columbus, Ohio 43210, United States
| | - Hannah S Shafaat
- The Ohio State Biochemistry Program, The Ohio State University, 100 W 18th Avenue, Columbus, Ohio 43210, United States.,Department of Chemistry and Biochemistry, The Ohio State University, 100 W 18th Avenue, Columbus, Ohio 43210, United States
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7
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Möbius K, Lubitz W, Savitsky A. CIDEP-Enhanced ENDOR of short-lived radicals. Recollections of first joint experiments with Renad Sagdeev. Russ Chem Bull 2022. [DOI: 10.1007/s11172-021-3366-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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8
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Paramagnetic resonance investigation of mono- and di-manganese-containing systems in biochemistry. Methods Enzymol 2022; 666:315-372. [DOI: 10.1016/bs.mie.2022.02.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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9
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Malär AA, Wili N, Völker LA, Kozlova MI, Cadalbert R, Däpp A, Weber ME, Zehnder J, Jeschke G, Eckert H, Böckmann A, Klose D, Mulkidjanian AY, Meier BH, Wiegand T. Spectroscopic glimpses of the transition state of ATP hydrolysis trapped in a bacterial DnaB helicase. Nat Commun 2021; 12:5293. [PMID: 34489448 PMCID: PMC8421360 DOI: 10.1038/s41467-021-25599-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2021] [Accepted: 08/20/2021] [Indexed: 02/06/2023] Open
Abstract
The ATP hydrolysis transition state of motor proteins is a weakly populated protein state that can be stabilized and investigated by replacing ATP with chemical mimics. We present atomic-level structural and dynamic insights on a state created by ADP aluminum fluoride binding to the bacterial DnaB helicase from Helicobacter pylori. We determined the positioning of the metal ion cofactor within the active site using electron paramagnetic resonance, and identified the protein protons coordinating to the phosphate groups of ADP and DNA using proton-detected 31P,1H solid-state nuclear magnetic resonance spectroscopy at fast magic-angle spinning > 100 kHz, as well as temperature-dependent proton chemical-shift values to prove their engagements in hydrogen bonds. 19F and 27Al MAS NMR spectra reveal a highly mobile, fast-rotating aluminum fluoride unit pointing to the capture of a late ATP hydrolysis transition state in which the phosphoryl unit is already detached from the arginine and lysine fingers.
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Affiliation(s)
| | - Nino Wili
- Physical Chemistry, ETH Zürich, Zürich, Switzerland
| | | | - Maria I Kozlova
- Department of Physics, Osnabrück University, Osnabrück, Germany
| | | | | | | | | | | | - Hellmut Eckert
- Institut für Physikalische Chemie, WWU Münster, Münster, Germany
- Instituto de Física de Sao Carlos, Universidade de Sao Paulo, Sao Carlos, SP, Brazil
| | - Anja Böckmann
- Molecular Microbiology and Structural Biochemistry UMR 5086 CNRS/Université de Lyon, Lyon, France
| | - Daniel Klose
- Physical Chemistry, ETH Zürich, Zürich, Switzerland.
| | - Armen Y Mulkidjanian
- Department of Physics, Osnabrück University, Osnabrück, Germany.
- School of Bioengineering and Bioinformatics and Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia.
| | - Beat H Meier
- Physical Chemistry, ETH Zürich, Zürich, Switzerland.
| | - Thomas Wiegand
- Physical Chemistry, ETH Zürich, Zürich, Switzerland.
- Max-Planck-Institute for Chemical Energy Conversion, Mülheim an der Ruhr, Germany.
- Institute of Technical and Macromolecular Chemistry, RWTH Aachen, Aachen, Germany.
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10
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Bunda S, May NV, Bonczidai-Kelemen D, Udvardy A, Ching HYV, Nys K, Samanipour M, Van Doorslaer S, Joó F, Lihi N. Copper(II) Complexes of Sulfonated Salan Ligands: Thermodynamic and Spectroscopic Features and Applications for Catalysis of the Henry Reaction. Inorg Chem 2021; 60:11259-11272. [PMID: 34251196 DOI: 10.1021/acs.inorgchem.1c01264] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Copper(II) complexes formed with sulfonated salan ligands (HSS) have been synthesized, and their coordination chemistry has been characterized using pH-potentiometry and spectroscopic methods [UV-vis, electron paramagnetic resonance (EPR), and electron-electron double resonance (ELDOR)-detected NMR (EDNMR)] in aqueous solution. Several bridging moieties between the two salicylamine functions were introduced, e.g., ethyl (HSS), propyl (PrHSS), butyl (BuHSS), cyclohexyl (cis-CyHSS, trans-CyHSS), and diphenyl (dPhHSS). All of the investigated ligands feature excellent copper(II) binding ability via the formation of a (O-,N,N,O-) chelate system. The results indicated that the cyclohexyl moiety significantly enhances the stability of the copper(II) complexes. EPR studies revealed that the arrangement of the coordinated donor atoms is more symmetrical around the copper(II) center and similar for HSS, BuHSS, CyHSS, and dPhHSS, respectively, and a higher rhombicity of the g tensor was detected for PrHSS. The copper(II) complexes of the sulfosalan ligands were isolated in solid form also and showed moderate catalytic activity in the Henry (nitroaldol) reaction of aldehydes and nitromethane. The best yield for nitroaldol production was obtained for copper(II) complexes of PrHSS and BuHSS, although their metal binding ability is moderate compared to that of the cyclohexyl counterparts. However, these complexes possess larger spin density on the nitrogen nuclei than that for the other cases, which alters their catalytic activity.
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Affiliation(s)
- Szilvia Bunda
- Department of Physical Chemistry, University of Debrecen, Debrecen H-4032, Hungary.,Doctoral School of Chemistry, University of Debrecen, Debrecen H-4032, Hungary
| | - Nóra V May
- Centre for Structural Science, Research Centre for Natural Sciences, Budapest H-1519, Hungary
| | - Dóra Bonczidai-Kelemen
- Doctoral School of Chemistry, University of Debrecen, Debrecen H-4032, Hungary.,Department of Inorganic and Analytical Chemistry, University of Debrecen, Debrecen H-4032, Hungary
| | - Antal Udvardy
- Department of Physical Chemistry, University of Debrecen, Debrecen H-4032, Hungary
| | - H Y Vincent Ching
- Department of Chemistry, University of Antwerp, Universiteitsplein 1, Antwerpen B-2610, Belgium
| | - Kevin Nys
- Department of Chemistry, University of Antwerp, Universiteitsplein 1, Antwerpen B-2610, Belgium
| | - Mohammad Samanipour
- Department of Chemistry, University of Antwerp, Universiteitsplein 1, Antwerpen B-2610, Belgium
| | - Sabine Van Doorslaer
- Department of Chemistry, University of Antwerp, Universiteitsplein 1, Antwerpen B-2610, Belgium
| | - Ferenc Joó
- Department of Physical Chemistry, University of Debrecen, Debrecen H-4032, Hungary.,MTA-DE Redox and Homogeneous Reaction Mechanisms Research Group, University of Debrecen, Debrecen H-4032, Hungary
| | - Norbert Lihi
- Department of Inorganic and Analytical Chemistry, University of Debrecen, Debrecen H-4032, Hungary.,MTA-DE Redox and Homogeneous Reaction Mechanisms Research Group, University of Debrecen, Debrecen H-4032, Hungary
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11
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Marchiori DA, Debus RJ, Britt RD. Pulse EPR Spectroscopic Characterization of the S 3 State of the Oxygen-Evolving Complex of Photosystem II Isolated from Synechocystis. Biochemistry 2020; 59:4864-4872. [PMID: 33319991 DOI: 10.1021/acs.biochem.0c00880] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
The S3 state is the last semi-stable state in the water splitting reaction that is catalyzed by the Mn4O5Ca cluster that makes up the oxygen-evolving complex (OEC) of photosystem II (PSII). Recent high-field/frequency (95 GHz) electron paramagnetic resonance (EPR) studies of PSII isolated from the thermophilic cyanobacterium Thermosynechococcus elongatus have found broadened signals induced by chemical modification of the S3 state. These signals are ascribed to an S3 form that contains a five-coordinate MnIV center bridged to a cuboidal MnIV3O4Ca unit. High-resolution X-ray free-electron laser studies of the S3 state have observed the OEC with all-octahedrally coordinated MnIV in what is described as an open cuboid-like cluster. No five-coordinate MnIV centers have been reported in these S3 state structures. Here, we report high-field/frequency (130 GHz) pulse EPR of the S3 state in Synechocystis sp. PCC 6803 PSII as isolated in the presence of glycerol. The S3 state of PSII from Synechocystis exhibits multiple broadened forms (≈69% of the total signal) similar to those seen in the chemically modified S3 centers from T. elongatus. Field-dependent ELDOR-detected nuclear magnetic resonance resolves two classes of 55Mn nuclear spin transitions: one class with small hyperfine couplings (|A| ≈ 1-7 MHz) and another with larger hyperfine couplings (|A| ≈ 100 MHz). These results are consistent with an all-MnIV4 open cubane structure of the S3 state and suggest that the broadened S3 signals arise from a perturbation of Mn4A and/or Mn3B, possibly induced by the presence of glycerol in the as-isolated Synechocystis PSII.
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Affiliation(s)
- David A Marchiori
- Department of Chemistry, University of California, Davis, One Shields Avenue, Davis, California 95616, United States
| | - Richard J Debus
- Department of Biochemistry, University of California at Riverside, Riverside, California 92521, United States
| | - R David Britt
- Department of Chemistry, University of California, Davis, One Shields Avenue, Davis, California 95616, United States
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12
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Murzakhanov FF, Mamin GV, Goldberg MA, Knotko AV, Gafurov MR, Orlinskii SB. EPR of Radiation-Induced Nitrogen Centers in Hydroxyapatite: New Approaches to the Study of Electron-Nuclear Interactions. RUSS J COORD CHEM+ 2020. [DOI: 10.1134/s1070328420110044] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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13
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ATP Analogues for Structural Investigations: Case Studies of a DnaB Helicase and an ABC Transporter. Molecules 2020; 25:molecules25225268. [PMID: 33198135 PMCID: PMC7698047 DOI: 10.3390/molecules25225268] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2020] [Revised: 11/06/2020] [Accepted: 11/09/2020] [Indexed: 12/22/2022] Open
Abstract
Nucleoside triphosphates (NTPs) are used as chemical energy source in a variety of cell systems. Structural snapshots along the NTP hydrolysis reaction coordinate are typically obtained by adding stable, nonhydrolyzable adenosine triphosphate (ATP) -analogues to the proteins, with the goal to arrest a state that mimics as closely as possible a physiologically relevant state, e.g., the pre-hydrolytic, transition and post-hydrolytic states. We here present the lessons learned on two distinct ATPases on the best use and unexpected pitfalls observed for different analogues. The proteins investigated are the bacterial DnaB helicase from Helicobacter pylori and the multidrug ATP binding cassette (ABC) transporter BmrA from Bacillus subtilis, both belonging to the same division of P-loop fold NTPases. We review the magnetic-resonance strategies which can be of use to probe the binding of the ATP-mimics, and present carbon-13, phosphorus-31, and vanadium-51 solid-state nuclear magnetic resonance (NMR) spectra of the proteins or the bound molecules to unravel conformational and dynamic changes upon binding of the ATP-mimics. Electron paramagnetic resonance (EPR), and in particular W-band electron-electron double resonance (ELDOR)-detected NMR, is of complementary use to assess binding of vanadate. We discuss which analogues best mimic the different hydrolysis states for the DnaB helicase and the ABC transporter BmrA. These might be relevant also to structural and functional studies of other NTPases.
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14
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Equbal A, Li Y, Tabassum T, Han S. Crossover from a Solid Effect to Thermal Mixing 1H Dynamic Nuclear Polarization with Trityl-OX063. J Phys Chem Lett 2020; 11:3718-3723. [PMID: 32315195 DOI: 10.1021/acs.jpclett.0c00830] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Trityl-OX063 is a narrow-line, water-soluble, and biocompatible polarizing agent, widely used for dynamic nuclear polarization (DNP) amplified NMR of 13C, but not of the abundant 1H nuclear spin, for which the ineffective solid effect (SE) is expected to be operational. Surprisingly, we observed a crossover from SE to thermal mixing (TM) DNP of 1H with increasing Trityl-OX063 concentration at 7 T. We experimentally ascertained diagnostic signatures of TM-DNP that have only been theoretically predicted: (i) an electron paramagnetic resonance (EPR) spectrum that maintains an asymmetrically broadened EPR line from strong e-e couplings and (ii) hyperpolarization, i.e., cooling of select electron-spin populations, manifested in a characteristic pump-probe electron double-resonance spectrum under DNP conditions. Low microwave power requirements, high polarization transfer rates, and efficient DNP at high magnetic fields are the key benefits of TM-DNP.
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Affiliation(s)
- Asif Equbal
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - Yuanxin Li
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - Tarnuma Tabassum
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - Songi Han
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, Santa Barbara, California 93106, United States
- Department of Chemical Engineering, University of California, Santa Barbara, Santa Barbara, California 93106, United States
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15
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Ramirez Cohen M, Feintuch A, Goldfarb D, Vega S. Study of electron spectral diffusion process under DNP conditions by ELDOR spectroscopy focusing on the 14N solid effect. MAGNETIC RESONANCE (GOTTINGEN, GERMANY) 2020; 1:45-57. [PMID: 37904885 PMCID: PMC10500736 DOI: 10.5194/mr-1-45-2020] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/04/2020] [Accepted: 03/26/2020] [Indexed: 11/01/2023]
Abstract
Electron spectral diffusion (eSD) plays an important role in solid-state, static dynamic nuclear polarization (DNP) with polarizers that have inhomogeneously broadened EPR spectra, such as nitroxide radicals. It affects the electron spin polarization gradient within the EPR spectrum during microwave irradiation and thereby determines the effectiveness of the DNP process via the so-called indirect cross-effect (iCE) mechanism. The electron depolarization profile can be measured by electron-electron double resonance (ELDOR) experiments, and a theoretical framework for deriving eSD parameters from ELDOR spectra and employing them to calculate DNP profiles has been developed. The inclusion of electron depolarization arising from the 14 N solid effect (SE) has not yet been taken into account in this theoretical framework and is the subject of the present work. The 14 N SE depolarization was studied using W-band ELDOR of a 0.5 mM TEMPOL solution, where eSD is negligible, taking into account the hyperfine interaction of both 14 N and 1 H nuclei, the long microwave irradiation applied under DNP conditions, and electron and nuclear relaxation. The results of this analysis were then used in simulations of ELDOR spectra of 10 and 20 mM TEMPOL solutions, where eSD is significant using the eSD model and the SE contributions were added ad hoc employing the 1 H and 14 N frequencies and their combinations, as found from the analysis of the 0.5 mM sample. This approach worked well for the 20 mM solution, where a good fit for all ELDOR spectra recorded along the EPR spectrum was obtained and the inclusion of the 14 N SE mechanism improved the agreement with the experimental spectra. For the 10 mM solution, simulations of the ELDOR spectra recorded along the g z position gave a lower-quality fit than for spectra recorded in the center of the EPR spectrum. This indicates that the simple approach we used to describe the 14 N SE is limited when its contribution is relatively high as the anisotropy of its magnetic interactions was not considered explicitly.
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Affiliation(s)
- Marie Ramirez Cohen
- Department of Chemical and Biological Physics, Weizmann Institute of Science,
Rehovot, Israel
| | - Akiva Feintuch
- Department of Chemical and Biological Physics, Weizmann Institute of Science,
Rehovot, Israel
| | - Daniella Goldfarb
- Department of Chemical and Biological Physics, Weizmann Institute of Science,
Rehovot, Israel
| | - Shimon Vega
- Department of Chemical and Biological Physics, Weizmann Institute of Science,
Rehovot, Israel
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16
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A trade-off for covalent and intercalation binding modes: a case study for Copper (II) ions and singly modified DNA nucleoside. Sci Rep 2019; 9:12602. [PMID: 31467417 PMCID: PMC6715747 DOI: 10.1038/s41598-019-48935-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2019] [Accepted: 07/29/2019] [Indexed: 12/03/2022] Open
Abstract
Selective binding to nucleic acids and, more generally, to biopolymers, very often requires at a minimum the presence of specific functionalities and precise spatial arrangement. DNA can fold into defined 3D structures upon binding to metal centers and/or lanthanides. Binding efficiency can be boosted by modified nucleosides incorporated into DNA sequences. In this work the high selectivity of modified nucleosides towards copper (II) ions, when used in the monomeric form, is unexpectedly and drastically reduced upon being covalently attached to the DNA sequence in single-site scenario. Surprisingly, such selectivity is partially retained upon non-covalent (i.e. intercalation) mixture formed by native DNA duplex and a nucleoside in the monomeric form. Exploiting the electron spin properties of such different and rich binding mode scenarios, 1D/2D pulsed EPR experiments have been used and tailored to differentiate among the different modes. An unusual correlation of dispersion of hyperfine couplings and strength of the binding mode(s) is described.
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17
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Lubitz W, Chrysina M, Cox N. Water oxidation in photosystem II. PHOTOSYNTHESIS RESEARCH 2019; 142:105-125. [PMID: 31187340 PMCID: PMC6763417 DOI: 10.1007/s11120-019-00648-3] [Citation(s) in RCA: 120] [Impact Index Per Article: 24.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Accepted: 05/20/2019] [Indexed: 05/18/2023]
Abstract
Biological water oxidation, performed by a single enzyme, photosystem II, is a central research topic not only in understanding the photosynthetic apparatus but also for the development of water splitting catalysts for technological applications. Great progress has been made in this endeavor following the report of a high-resolution X-ray crystallographic structure in 2011 resolving the cofactor site (Umena et al. in Nature 473:55-60, 2011), a tetra-manganese calcium complex. The electronic properties of the protein-bound water oxidizing Mn4OxCa complex are crucial to understand its catalytic activity. These properties include: its redox state(s) which are tuned by the protein matrix, the distribution of the manganese valence and spin states and the complex interactions that exist between the four manganese ions. In this short review we describe how magnetic resonance techniques, particularly EPR, complemented by quantum chemical calculations, have played an important role in understanding the electronic structure of the cofactor. Together with isotope labeling, these techniques have also been instrumental in deciphering the binding of the two substrate water molecules to the cluster. These results are briefly described in the context of the history of biological water oxidation with special emphasis on recent work using time resolved X-ray diffraction with free electron lasers. It is shown that these data are instrumental for developing a model of the biological water oxidation cycle.
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Affiliation(s)
- Wolfgang Lubitz
- Max-Planck-Institut für Chemische Energiekonversion, Mülheim/Ruhr, Germany
| | - Maria Chrysina
- Max-Planck-Institut für Chemische Energiekonversion, Mülheim/Ruhr, Germany
| | - Nicholas Cox
- Research School of Chemistry, The Australian National University, Canberra, Australia
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18
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Hetzke T, Bowen AM, Vogel M, Gauger M, Suess B, Prisner TF. Binding of tetracycline to its aptamer determined by 2D-correlated Mn 2+ hyperfine spectroscopy. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2019; 303:105-114. [PMID: 31039520 DOI: 10.1016/j.jmr.2019.04.011] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Revised: 04/16/2019] [Accepted: 04/17/2019] [Indexed: 06/09/2023]
Abstract
The tetracycline-binding RNA aptamer (TC-aptamer) binds its cognate ligand the antibiotic tetracycline (TC) via a Mg2+ or Mn2+ ion with high affinity at high divalent metal ion concentrations (KD=800pM, ⩾10 mM). These concentrations lie above the physiological divalent metal ion concentration of ca. 1 mM and it is known from literature, that the binding affinity decreases upon decreasing the divalent metal ion concentration. This work uses a Mn2+ concentration of 1 mM and 1D-hyperfine experiments reveal two pronounced 31P couplings from the RNA besides the 13C signal of 13C-labeled TC. From these 1D-hyperfine data alone, however, no conclusions can be drawn on the binding of TC. Either TC may bind via Mn2+ to the aptamer or TC may form a free Mn-TC complex and some Mn2+ also binds to the aptamer. In this work, we show using 2D-correlated hyperfine spectroscopy at Q-band frequencies (34 GHz), that the 13C and 31P signals can be correlated; thus arising from a single species. We use THYCOS (triple hyperfine correlation spectroscopy) and 2D ELDOR-detected NMR (2D electron electron double resonance detected NMR) for this purpose showing that they are suitable techniques to correlate two different nuclear spin species (13C and 31P) on two different molecules (RNA and TC) to the same electron spin (Mn2+). Out of the two observed 31P-hyperfine couplings, only one shows a clear correlation to 13C. Although THYCOS and 2D EDNMR yield identical results, 2D EDNMR is far more sensitive. THYCOS spectra needed a time factor of ×20 in comparison to 2D EDNMR to achieve a comparable signal-to-noise.
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Affiliation(s)
- Thilo Hetzke
- Institute of Physical and Theoretical Chemistry and Center of Biomolecular Magnetic Resonance, Goethe University Frankfurt, Frankfurt am Main, Germany
| | - Alice M Bowen
- Center for Advanced Electron Spin Resonance (CAESR), Inorganic Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford, United Kingdom
| | - Marc Vogel
- Department of Biology, Technical University of Darmstadt, Darmstadt, Germany
| | - Maximilian Gauger
- Institute of Physical and Theoretical Chemistry and Center of Biomolecular Magnetic Resonance, Goethe University Frankfurt, Frankfurt am Main, Germany
| | - Beatrix Suess
- Department of Biology, Technical University of Darmstadt, Darmstadt, Germany
| | - Thomas F Prisner
- Institute of Physical and Theoretical Chemistry and Center of Biomolecular Magnetic Resonance, Goethe University Frankfurt, Frankfurt am Main, Germany.
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19
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Peng Z, Biktagirov T, Cho FH, Gerstmann U, Takahashi S. Investigation of near-surface defects of nanodiamonds by high-frequency EPR and DFT calculation. J Chem Phys 2019; 150:134702. [DOI: 10.1063/1.5085351] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Z. Peng
- Department of Chemistry, University of Southern California, Los Angeles, California 90089, USA
| | - T. Biktagirov
- Lehrstuhl für Theoretische Physik, Universität Paderborn, Warburger Str. 100, 33098 Paderborn, Germany
| | - F. H. Cho
- Department of Physics and Astronomy, University of Southern California, Los Angeles, California 90089, USA
| | - U. Gerstmann
- Lehrstuhl für Theoretische Physik, Universität Paderborn, Warburger Str. 100, 33098 Paderborn, Germany
| | - S. Takahashi
- Department of Chemistry, University of Southern California, Los Angeles, California 90089, USA
- Department of Physics and Astronomy, University of Southern California, Los Angeles, California 90089, USA
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20
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Dikanov SA, Berry SM, Lu Y. HYSCORE Insights into the Distribution of the Unpaired Spin Density in an Engineered Cu A Site in Azurin and Its His120Gly Variant. Inorg Chem 2019; 58:4437-4445. [PMID: 30869885 DOI: 10.1021/acs.inorgchem.8b03604] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A comparative study of the 1H and 14N hyperfine interactions between the CuA site in an engineered CuA center in azurin (WT-CuAAz) and its His120Gly variant (H120G-CuAAz) using the two-dimensional ESEEM technique, HYSCORE, is reported. HYSCORE spectroscopy has clarified conflicting results in previous electron paramagnetic resonance (EPR) and electron nuclear double resonance (ENDOR) studies and found clear differences between the two CuA azurins. Specifically, a hyperfine coupling AN⊥ of 15.3 MHz was determined for the first time from the frequencies of double-quantum transitions of 14N histidine nitrogens coordinated to CuA in WT-CuAAz. In contrast, such coupling was not observed in the spectra of H120G-CuAAz, indicating at least a several megahertz increase in AN⊥ for the coordinated nitrogen in this variant. In addition, 14N HYSCORE spectra of WT-CuAAz show interaction with only one type of weakly coupled nitrogen assigned to the remote Nε atom of coordinated imidazole residues based on the quadrupole coupling constant ( e2 Qq/4 h) of ∼0.4 MHz. The spectrum of H120G-CuAAz resolves additional features typical for backbone peptide nitrogens with larger e2 Qq/4 h values of ∼0.7 MHz. Hyperfine couplings with these nitrogens vary between ∼0.4 and 0.7 MHz. In addition, the two resolved cross-peaks from Cβ protons in H120G-CuAAz display only ∼1 MHz shifts relative to the corresponding peaks in WT-CuAAz. These new findings have provided the first experimental evidence of the previous density functional theory analysis that predicted changes in the delocalized electron spin population of ∼0.02-0.03 (i.e., ∼10%) on copper and sulfur atoms of the CuA center in H120 variants relative to WT-CuAAz and resolved contradicting results between EPR and ENDOR studies of the valence distribution in CuAAz and its variants.
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Affiliation(s)
- Sergei A Dikanov
- Department of Veterinary Clinical Medicine , University of Illinois at Urbana-Champaign , Urbana , Illinois 61801 , United States
| | - Steven M Berry
- Department of Chemistry and Biochemistry , University of Minnesota Duluth , Duluth , Minnesota 55812 , United States
| | - Yi Lu
- Department of Chemistry , University of Illinois at Urbana-Champaign , Urbana , Illinois 61801 , United States
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21
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Wili N, Richert S, Limburg B, Clarke SJ, Anderson HL, Timmel CR, Jeschke G. ELDOR-detected NMR beyond hyperfine couplings: a case study with Cu(ii)-porphyrin dimers. Phys Chem Chem Phys 2019; 21:11676-11688. [DOI: 10.1039/c9cp01760g] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The pulse EPR method ELDOR-detected NMR gives information about electron–electron couplings in Cu(ii) porphyrin dimers.
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Affiliation(s)
- Nino Wili
- Laboratorium für Physikalische Chemie
- ETH Zürich
- 8093 Zürich
- Switzerland
| | - Sabine Richert
- Centre for Advanced Electron Spin Resonance (CÆSR)
- University of Oxford
- Oxford
- UK
| | - Bart Limburg
- Chemistry Research Laboratory
- University of Oxford
- Oxford
- UK
| | | | | | | | - Gunnar Jeschke
- Laboratorium für Physikalische Chemie
- ETH Zürich
- 8093 Zürich
- Switzerland
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22
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Lee HB, Shiau AA, Oyala PH, Marchiori DA, Gul S, Chatterjee R, Yano J, Britt RD, Agapie T. Tetranuclear [Mn IIIMn 3IVO 4] Complexes as Spectroscopic Models of the S 2 State of the Oxygen Evolving Complex in Photosystem II. J Am Chem Soc 2018; 140:17175-17187. [PMID: 30407806 DOI: 10.1021/jacs.8b09961] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Despite extensive biochemical, spectroscopic, and computational studies, the mechanism of biological water oxidation by the oxygen evolving complex (OEC) of Photosystem II remains a subject of significant debate. Mechanistic proposals are guided by the characterization of reaction intermediates such as the S2 state, which features two characteristic EPR signals at g = 2 and g = 4.1. Two nearly isoenergetic structural isomers have been proposed as the source of these distinct signals, but relevant structure-electronic structure studies remain rare. Herein, we report the synthesis, crystal structure, electrochemistry, XAS, magnetic susceptibility, variable temperature CW-EPR, and pulse EPR data for a series of [MnIIIMn3IVO4] cuboidal complexes as spectroscopic models of the S2 state of the OEC. Resembling the oxidation state and EPR spectra of the S2 state of the OEC, these model complexes show two EPR signals, a broad low field signal and a multiline signal, that are remarkably similar to the biological system. The effect of systematic changes in the nature of the bridging ligands on spectroscopy were studied. Results show that the electronic structure of tetranuclear Mn complexes is highly sensitive to even small geometric changes and the nature of the bridging ligands. Our model studies suggest that the spectroscopic properties of the OEC may also react very sensitively to small changes in structure; the effect of protonation state and other reorganization processes need to be carefully assessed.
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Affiliation(s)
- Heui Beom Lee
- Department of Chemistry and Chemical Engineering , California Institute of Technology , 1200 E California Blvd MC 127-72 , Pasadena , California 91125 , United States
| | - Angela A Shiau
- Department of Chemistry and Chemical Engineering , California Institute of Technology , 1200 E California Blvd MC 127-72 , Pasadena , California 91125 , United States
| | - Paul H Oyala
- Department of Chemistry and Chemical Engineering , California Institute of Technology , 1200 E California Blvd MC 127-72 , Pasadena , California 91125 , United States
| | - David A Marchiori
- Department of Chemistry , University of California Davis , One Shields Avenue , Davis , California 95616 , United States
| | - Sheraz Gul
- Molecular Biophysics and Integrated Bioimaging Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Ruchira Chatterjee
- Molecular Biophysics and Integrated Bioimaging Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - Junko Yano
- Molecular Biophysics and Integrated Bioimaging Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , United States
| | - R David Britt
- Department of Chemistry , University of California Davis , One Shields Avenue , Davis , California 95616 , United States
| | - Theodor Agapie
- Department of Chemistry and Chemical Engineering , California Institute of Technology , 1200 E California Blvd MC 127-72 , Pasadena , California 91125 , United States
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23
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Litvinov A, Feintuch A, Un S, Goldfarb D. Triple resonance EPR spectroscopy determines the Mn 2+ coordination to ATP. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2018; 294:143-152. [PMID: 30053753 PMCID: PMC6230374 DOI: 10.1016/j.jmr.2018.07.007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2018] [Revised: 06/18/2018] [Accepted: 07/12/2018] [Indexed: 06/08/2023]
Abstract
Mn2+ often serves as a paramagnetic substitute to Mg2+, providing means for exploring the close environment of Mg2+ in many biological systems where it serves as an essential co-factor. This applies to proteins with ATPase activity, where the ATP hydrolysis requires the binding of Mg2+-ATP to the ATPase active site. In this context, it is important to distinguish between the Mn2+ coordination mode with free ATP in solution as compared to the protein bound case. In this work, we explore the Mn2+ complexes with ATP, the non-hydrolysable ATP analog, AMPPNP, and ADP free in solution. Using W-band 31P electron-nuclear double resonance (ENDOR) we obtained information about the coordination to the phosphates, whereas from electron-electron double resonance (ELDOR) - detected NMR (EDNMR) we determined the coordination to an adenosine nitrogen. The coordination to these ligands has been reported earlier, but whether the nitrogen and phosphate coordination is within the same nucleotide molecules or different ones is still under debate. By applying the correlation technique, THYCOS (triple hyperfine correlation spectroscopy), and measuring 15N-31P correlations we establish that in Mn-ATP in solution both phosphates and a nitrogen are coordinated to the Mn2+ ion. We also carried out DFT calculations to substantiate this finding. In addition, we expanded the understanding of the THYCOS experiment by comparing it to 2D-EDNMR for 55Mn-31P correlation experiments and through simulations of THYCOS and 2D-EDNMR spectra with 15N-31P correlations.
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Affiliation(s)
- Aleksei Litvinov
- Department of Chemical and Biological Physics, Weizmann Institute of Science, Israel
| | - Akiva Feintuch
- Department of Chemical and Biological Physics, Weizmann Institute of Science, Israel
| | - Sun Un
- Department of Biochemistry, Biophysics and Structural Biology, Institute for Integrative Biology of the Cell (I2BC), Université Paris-Saclay, CEA, CNRS UMR 9198, CEA-Saclay, Gif-sur-Yvette F-91198, France
| | - Daniella Goldfarb
- Department of Chemical and Biological Physics, Weizmann Institute of Science, Israel.
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24
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Wili N, Jeschke G. Chirp echo Fourier transform EPR-detected NMR. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2018; 289:26-34. [PMID: 29448131 DOI: 10.1016/j.jmr.2018.02.001] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2017] [Revised: 02/02/2018] [Accepted: 02/04/2018] [Indexed: 06/08/2023]
Abstract
A new ultra-wide band (UWB) pulse EPR method is introduced for observing all nuclear frequencies of a paramagnetic center in a single shot. It is based on burning spectral holes with a high turning angle (HTA) pulse that excites forbidden transitions and subsequent detection of the hole pattern by a chirp echo. We term this method Chirp Echo Epr SpectroscopY (CHEESY)-detected NMR. The approach is a revival of FT EPR-detected NMR. It yields similar spectra and the same type of information as electron-electron double resonance (ELDOR)-detected NMR, but with a multiplex advantage. We apply CHEESY-detected NMR in Q band to nitroxides and correlate the hyperfine spectrum to the EPR spectrum by varying the frequency of the HTA pulse. Furthermore, a selective π pulse before the HTA pulse allows for detecting hyperfine sublevel correlations between transitions of one nucleus and for elucidating the coupling regime, the same information as revealed by the HYSCORE experiment. This is demonstrated on hexaaquamanganese(II). We expect that CHEESY-detected NMR is generally applicable to disordered systems and that our results further motivate the development of EPR spectrometers capable of coherent UWB excitation and detection, especially at higher fields and frequencies.
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Affiliation(s)
- Nino Wili
- Laboratory of Physical Chemistry, ETH Zurich, Vladimir-Prelog-Weg 2, CH-8093 Zurich, Switzerland
| | - Gunnar Jeschke
- Laboratory of Physical Chemistry, ETH Zurich, Vladimir-Prelog-Weg 2, CH-8093 Zurich, Switzerland.
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25
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Van Landeghem M, Maes W, Goovaerts E, Van Doorslaer S. Disentangling overlapping high-field EPR spectra of organic radicals: Identification of light-induced polarons in the record fullerene-free solar cell blend PBDB-T:ITIC. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2018; 288:1-10. [PMID: 29367021 DOI: 10.1016/j.jmr.2018.01.007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2017] [Revised: 01/09/2018] [Accepted: 01/10/2018] [Indexed: 06/07/2023]
Abstract
We present a combined high-field EPR and DFT study of light-induced radicals in the bulk heterojunction blend of PBDB-T:ITIC, currently one of the highest efficiency non-fullerene donor:acceptor combinations in organic photovoltaics. We demonstrate two different approaches for disentangling the strongly overlapping high-field EPR spectra of the positive and negative polarons after charge separation: (1) relaxation-filtered field-swept EPR based on the difference in T1 spin-relaxation times and (2) field-swept EDNMR-induced EPR by exploiting the presence of 14N hyperfine couplings in only one of the radical species, the small molecule acceptor radical. The approach is validated by light-induced EPR spectra on related blends and the spectral assignment is underpinned by DFT computations. The broader applicability of the spectral disentangling methods is discussed.
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Affiliation(s)
- Melissa Van Landeghem
- Department of Physics, University of Antwerp, Universiteitsplein 1, 2610 Antwerpen, Belgium.
| | - Wouter Maes
- Institute for Materials Research, Design & Synthesis of Organic Semiconductors, Hasselt University, Agoralaan 1, 3590 Diepenbeek, Belgium.
| | - Etienne Goovaerts
- Department of Physics, University of Antwerp, Universiteitsplein 1, 2610 Antwerpen, Belgium.
| | - Sabine Van Doorslaer
- Department of Physics, University of Antwerp, Universiteitsplein 1, 2610 Antwerpen, Belgium.
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26
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Möbius K, Lubitz W, Savitsky A. Jim Hyde and the ENDOR Connection: A Personal Account. APPLIED MAGNETIC RESONANCE 2017; 48:1149-1183. [PMID: 29151676 PMCID: PMC5668355 DOI: 10.1007/s00723-017-0959-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/29/2017] [Indexed: 06/07/2023]
Abstract
In this minireview, we report on our year-long EPR work, such as electron-nuclear double resonance (ENDOR), pulse electron double resonance (PELDOR) and ELDOR-detected NMR (EDNMR) at X-band and W-band microwave frequencies and magnetic fields. This report is dedicated to James S. Hyde and honors his pioneering contributions to the measurement of spin interactions in large (bio)molecules. From these interactions, detailed information is revealed on structure and dynamics of macromolecules embedded in liquid-solution or solid-state environments. New developments in pulsed microwave and sweepable cryomagnet technology as well as ultra-fast electronics for signal data handling and processing have pushed the limits of EPR spectroscopy and its multi-frequency extensions to new horizons concerning sensitivity of detection, selectivity of molecular interactions and time resolution. Among the most important advances is the upgrading of EPR to high magnetic fields, very much in analogy to what happened in NMR. The ongoing progress in EPR spectroscopy is exemplified by reviewing various multi-frequency electron-nuclear double-resonance experiments on organic radicals, light-generated donor-acceptor radical pairs in photosynthesis, and site-specifically nitroxide spin-labeled bacteriorhodopsin, the light-driven proton pump, as well as EDNMR and ENDOR on nitroxides. Signal and resolution enhancements are particularly spectacular for ENDOR, EDNMR and PELDOR on frozen-solution samples at high Zeeman fields. They provide orientation selection for disordered samples approaching single-crystal resolution at canonical g-tensor orientations-even for molecules with small g-anisotropies. Dramatic improvements of EPR detection sensitivity could be achieved, even for short-lived paramagnetic reaction intermediates. Thus, unique structural and dynamic information is revealed that can hardly be obtained by other analytical techniques. Micromolar concentrations of sample molecules have become sufficient to characterize stable and transient reaction intermediates of complex molecular systems-offering exciting applications for physicists, chemists, biochemists and molecular biologists.
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Affiliation(s)
- Klaus Möbius
- Department of Physics, Free University Berlin, Arnimallee 14, 14195 Berlin, Germany
- Max-Planck-Institute for Chemical Energy Conversion, 45470 Mülheim an der Ruhr, Germany
| | - Wolfgang Lubitz
- Max-Planck-Institute for Chemical Energy Conversion, 45470 Mülheim an der Ruhr, Germany
| | - Anton Savitsky
- Max-Planck-Institute for Chemical Energy Conversion, 45470 Mülheim an der Ruhr, Germany
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27
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Sidabras JW, Reijerse EJ, Lubitz W. Uniform Field Re-entrant Cylindrical TE[Formula: see text] Cavity for Pulse Electron Paramagnetic Resonance Spectroscopy at Q-band. APPLIED MAGNETIC RESONANCE 2017; 48:1301-1314. [PMID: 29151677 PMCID: PMC5668368 DOI: 10.1007/s00723-017-0955-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Revised: 09/14/2017] [Indexed: 06/07/2023]
Abstract
Uniform field (UF) resonators create a region-of-interest, where the sample volume receives a homogeneous microwave magnetic field ([Formula: see text]) excitation. However, as the region-of-interest is increased, resonator efficiency is reduced. In this work, a new class of uniform field resonators is introduced: the uniform field re-entrant cylindrical TE[Formula: see text] cavity. Here, a UF cylindrical TE[Formula: see text] cavity is designed with re-entrant fins to increase the overall resonator efficiency to match the resonator efficiency maximum of a typical cylindrical TE[Formula: see text] cavity. The new UF re-entrant cylindrical TE[Formula: see text] cavity is designed for Q-band (34 GHz) and is calculated to have the same electron paramagnetic resonance (EPR) signal intensity as a TE[Formula: see text] cavity, a 60% increase in average resonator efficiency [Formula: see text] over the sample, and has a [Formula: see text] profile that is 79.8% uniform over the entire sample volume (98% uniform over the region-of-interest). A new H-type T-junction waveguide coupler with inductive obstacles is introduced that increases the dynamic range of a movable short coupler while reducing the frequency shift by 43% during over-coupling. The resonator assembly is fabricated and tested both on the bench and with EPR experiments. This resonator provides a template to improve EPR spectroscopy for pulse experiments at high frequencies.
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Affiliation(s)
- Jason W. Sidabras
- Max Planck Institut für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülehim an der Ruhr, Germany
| | - Edward J. Reijerse
- Max Planck Institut für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülehim an der Ruhr, Germany
| | - Wolfgang Lubitz
- Max Planck Institut für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülehim an der Ruhr, Germany
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Nalepa A, Malferrari M, Lubitz W, Venturoli G, Möbius K, Savitsky A. Local water sensing: water exchange in bacterial photosynthetic reaction centers embedded in a trehalose glass studied using multiresonance EPR. Phys Chem Chem Phys 2017; 19:28388-28400. [DOI: 10.1039/c7cp03942e] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Pulsed EPR spectroscopies and isotope labeled water are applied to detect and quantify the local water in a bacterial reaction center embedded into a trehalose glass.
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Affiliation(s)
- Anna Nalepa
- Max-Planck-Institut für Chemische Energiekonversion
- D-45470 Mülheim an der Ruhr
- Germany
| | - Marco Malferrari
- Laboratorio di Biochimica e Biofisica
- Dipartimento di Farmacia e Biotecnologie
- FaBiT
- Università di Bologna
- I-40126 Bologna
| | - Wolfgang Lubitz
- Max-Planck-Institut für Chemische Energiekonversion
- D-45470 Mülheim an der Ruhr
- Germany
| | - Giovanni Venturoli
- Laboratorio di Biochimica e Biofisica
- Dipartimento di Farmacia e Biotecnologie
- FaBiT
- Università di Bologna
- I-40126 Bologna
| | - Klaus Möbius
- Max-Planck-Institut für Chemische Energiekonversion
- D-45470 Mülheim an der Ruhr
- Germany
- Department of Physics
- Free University Berlin
| | - Anton Savitsky
- Max-Planck-Institut für Chemische Energiekonversion
- D-45470 Mülheim an der Ruhr
- Germany
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