1
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Nayek A, Dey S, Patra S, Rana A, Serrano PN, George SJ, Cramer SP, Ghosh Dey S, Dey A. Facile electrocatalytic proton reduction by a [Fe-Fe]-hydrogenase bio-inspired synthetic model bearing a terminal CN - ligand. Chem Sci 2024; 15:2167-2180. [PMID: 38332837 PMCID: PMC10848691 DOI: 10.1039/d3sc05397k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2023] [Accepted: 12/22/2023] [Indexed: 02/10/2024] Open
Abstract
An azadithiolate bridged CN- bound pentacarbonyl bis-iron complex, mimicking the active site of [Fe-Fe] H2ase is synthesized. The geometric and electronic structure of this complex is elucidated using a combination of EXAFS analysis, infrared and Mössbauer spectroscopy and DFT calculations. The electrochemical investigations show that complex 1 effectively reduces H+ to H2 between pH 0-3 at diffusion-controlled rates (1011 M-1 s-1) i.e. 108 s-1 at pH 3 with an overpotential of 140 mV. Electrochemical analysis and DFT calculations suggests that a CN- ligand increases the pKa of the cluster enabling hydrogen production from its Fe(i)-Fe(0) state at pHs much higher and overpotential much lower than its precursor bis-iron hexacarbonyl model which is active in its Fe(0)-Fe(0) state. The formation of a terminal Fe-H species, evidenced by spectroelectrochemistry in organic solvent, via a rate determining proton coupled electron transfer step and protonation of the adjacent azadithiolate, lowers the kinetic barrier leading to diffusion controlled rates of H2 evolution. The stereo-electronic factors enhance its catalytic rate by 3 order of magnitude relative to a bis-iron hexacarbonyl precursor at the same pH and potential.
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Affiliation(s)
- Abhijit Nayek
- School of Chemical Science, Indian Association for the Cultivation of Science Kolkata 700032 India
| | - Subal Dey
- School of Chemical Science, Indian Association for the Cultivation of Science Kolkata 700032 India
| | - Suman Patra
- School of Chemical Science, Indian Association for the Cultivation of Science Kolkata 700032 India
| | - Atanu Rana
- School of Chemical Science, Indian Association for the Cultivation of Science Kolkata 700032 India
| | - Pauline N Serrano
- Department of Chemistry, University of California Davis CA 94616 USA
| | - Simon J George
- Department of Chemistry, University of California Davis CA 94616 USA
- SETI Institute 339 Bernardo Ave, Suite, 200 Mountain View CA 94043 USA
| | - Stephen P Cramer
- Department of Chemistry, University of California Davis CA 94616 USA
- Physical Biosciences Division, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA
- SETI Institute 339 Bernardo Ave, Suite, 200 Mountain View CA 94043 USA
| | - Somdatta Ghosh Dey
- School of Chemical Science, Indian Association for the Cultivation of Science Kolkata 700032 India
| | - Abhishek Dey
- School of Chemical Science, Indian Association for the Cultivation of Science Kolkata 700032 India
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2
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Sidabras JW, Stripp ST. A personal account on 25 years of scientific literature on [FeFe]-hydrogenase. J Biol Inorg Chem 2023; 28:355-378. [PMID: 36856864 DOI: 10.1007/s00775-023-01992-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2022] [Accepted: 01/25/2023] [Indexed: 03/02/2023]
Abstract
[FeFe]-hydrogenases are gas-processing metalloenzymes that catalyze H2 oxidation and proton reduction (H2 release) in microorganisms. Their high turnover frequencies and lack of electrical overpotential in the hydrogen conversion reaction has inspired generations of biologists, chemists, and physicists to explore the inner workings of [FeFe]-hydrogenase. Here, we revisit 25 years of scientific literature on [FeFe]-hydrogenase and propose a personal account on 'must-read' research papers and review article that will allow interested scientists to follow the recent discussions on catalytic mechanism, O2 sensitivity, and the in vivo synthesis of the active site cofactor with its biologically uncommon ligands carbon monoxide and cyanide. Focused on-but not restricted to-structural biology and molecular biophysics, we highlight future directions that may inspire young investigators to pursue a career in the exciting and competitive field of [FeFe]-hydrogenase research.
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Affiliation(s)
- Jason W Sidabras
- Department of Biophysics, Medical College of Wisconsin, 8701 Watertown Plank Rd, Milwaukee, WI, USA, 53226.
| | - Sven T Stripp
- Department of Physics, Freie Universität Berlin, Arnimallee 14, 14195, Berlin, Germany.
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3
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Birrell JA, Rodríguez-Maciá P, Reijerse EJ, Martini MA, Lubitz W. The catalytic cycle of [FeFe] hydrogenase: A tale of two sites. Coord Chem Rev 2021. [DOI: 10.1016/j.ccr.2021.214191] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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4
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Abstract
The double-cubane cluster (DCC) refers to an [Fe8S9] iron-sulfur complex that is otherwise only known to exist in nitrogenases. Containing a bridging µ2-S ligand, the DCC in the DCC-containing protein (DCCP) is covalently linked to the protein scaffold via six coordinating cysteine residues. In this study, the nature of spin coupling and the effect of spin states on the cluster’s geometry are investigated computationally. Using density functional theory (DFT) and a broken symmetry (BS) approach to study the electronic ground state of the system, we computed the exchange interaction between the spin-coupled spins of the four FeFe dimers contained in the DCC. This treatment yields results that are in excellent agreement with both computed and experimentally determined exchange parameters for analogously coupled di-iron complexes. Hybrid quantum mechanical (QM)/molecular mechanical (MM) geometry optimizations show that cubane cluster A closest to charged amino acid side chains (Arg312, Glu140, Lys146) is less compact than cluster B, indicating that electrons of the same spin in a charged environment seek maximum separation. Overall, this study provides the community with a fundamental reference for subsequent studies of DCCP, as well as for investigations of other [Fe8S9]-containing enzymes.
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5
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Reijerse E, Birrell JA, Lubitz W. Spin Polarization Reveals the Coordination Geometry of the [FeFe] Hydrogenase Active Site in Its CO-Inhibited State. J Phys Chem Lett 2020; 11:4597-4602. [PMID: 32420744 PMCID: PMC7309315 DOI: 10.1021/acs.jpclett.0c01352] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2020] [Accepted: 05/18/2020] [Indexed: 06/11/2023]
Abstract
The active site of [FeFe] hydrogenase features a binuclear iron cofactor Fe2ADT(CO)3(CN)2, where ADT represents the bridging ligand aza-propane-dithiolate. The terminal diatomic ligands all coordinate in a basal configuration, and one CO bridges the two irons leaving an open coordination site at which the hydrogen species and the competitive inhibitor CO bind. Externally supplied CO is expected to coordinate in an apical configuration. However, an alternative configuration has been proposed in which, due to ligand rotation, the CN- bound to the distal Fe becomes apical. Using selective 13C isotope labeling of the CN- and COext ligands in combination with pulsed 13C electron-nuclear-nuclear triple resonance spectroscopy, spin polarization effects are revealed that, according to density functional theory calculations, are consistent with only the "unrotated" apical COext configuration.
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6
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Reijerse EJ, Pelmenschikov V, Birrell JA, Richers CP, Kaupp M, Rauchfuss TB, Cramer SP, Lubitz W. Asymmetry in the Ligand Coordination Sphere of the [FeFe] Hydrogenase Active Site Is Reflected in the Magnetic Spin Interactions of the Aza-propanedithiolate Ligand. J Phys Chem Lett 2019; 10:6794-6799. [PMID: 31580680 PMCID: PMC6844125 DOI: 10.1021/acs.jpclett.9b02354] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2019] [Accepted: 10/03/2019] [Indexed: 06/10/2023]
Abstract
[FeFe] hydrogenases are very active enzymes that catalyze the reversible conversion of molecular hydrogen into protons and electrons. Their active site, the H-cluster, contains a unique binuclear iron complex, [2Fe]H, with CN- and CO ligands as well as an aza-propane-dithiolate (ADT) moiety featuring a central amine functionality that mediates proton transfer during catalysis. We present a pulsed 13C-ENDOR investigation of the H-cluster in which the two methylene carbons of ADT are isotope labeled with 13C. We observed that the corresponding two 13C hyperfine interactions are of opposite sign and corroborated this finding using density functional theory calculations. The spin polarization in the ADT ligand is shown to be linked to the asymmetric coordination of the distal iron site with its terminal CN- and CO ligands. We propose that this asymmetry is relevant for the enzyme reactivity and is related to the (optimal) stabilization of the iron-hydride intermediate in the catalytic cycle.
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Affiliation(s)
- Edward J. Reijerse
- Max-Planck-Institut
für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Vladimir Pelmenschikov
- Institut
für Chemie, Technische Universität
Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - James A. Birrell
- Max-Planck-Institut
für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Casseday P. Richers
- School
of Chemical Sciences, University of Illinois, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Martin Kaupp
- Institut
für Chemie, Technische Universität
Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Thomas B. Rauchfuss
- School
of Chemical Sciences, University of Illinois, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | | | - Wolfgang Lubitz
- Max-Planck-Institut
für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
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7
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Rao G, Britt RD. Electronic Structure of Two Catalytic States of the [FeFe] Hydrogenase H-Cluster As Probed by Pulse Electron Paramagnetic Resonance Spectroscopy. Inorg Chem 2018; 57:10935-10944. [PMID: 30106575 DOI: 10.1021/acs.inorgchem.8b01557] [Citation(s) in RCA: 39] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The active site of the [FeFe] hydrogenase (HydA1), the H-cluster, is a 6-Fe cofactor that contains CO and CN- ligands. It undergoes several different oxidation and protonation state changes in its catalytic cycle to metabolize H2. Among them, the well-known Hox state and the recently identified Hhyd state are thought to be directly involved in H2 activation and evolution, and they are both EPR active with net spin S = 1/2. Herein, we report the pulse electronic paramagnetic spectroscopic investigation of these two catalytic states in Chlamydomonas reinhardtii HydA1 ( CrHydA1). Using an in vitro biosynthetic maturation approach, we site-specifically installed 13C into the CO or CN- ligands and 57Fe into the [2Fe]H subcluster of the H-cluster in order to measure the hyperfine couplings to these magnetic nuclei. For Hox, we measured 13C hyperfine couplings (13CO aiso of 25.5, 5.8, and 4.5 MHz) corresponding to all three CO ligands in the H-cluster. We also observed two 57Fe hyperfine couplings (57Fe aiso of ∼17 and 5.7 MHz) arising from the two Fe atoms in the [2Fe]H subcluster. For Hhyd, we only observed two distinct 13CO hyperfine interactions (13CO aiso of 0.16 and 0.08 MHz) and only one for 13CN- (13CN aiso of 0.16 MHz); the couplings to the 13CO/13CN- on the distal Fe of [2Fe]H may be too small to detect. We also observed a very small (<0.3 MHz) 57Fe HFI from the labeled [2Fe]H subcluster and four 57Fe HFI from the labeled [4Fe-4S]H subcluster (57Fe aiso of 7.2, 16.6, 28.2, and 35.3 MHz). These hyperfine coupling constants are consistent with the previously proposed electronic structure of the H-cluster at both Hox and Hhyd states and provide a basis for more detailed analysis.
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Affiliation(s)
- Guodong Rao
- Department of Chemistry , University of California , Davis , California 95616 , United States
| | - R David Britt
- Department of Chemistry , University of California , Davis , California 95616 , United States
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8
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Del Barrio M, Sensi M, Fradale L, Bruschi M, Greco C, de Gioia L, Bertini L, Fourmond V, Léger C. Interaction of the H-Cluster of FeFe Hydrogenase with Halides. J Am Chem Soc 2018; 140:5485-5492. [PMID: 29590528 DOI: 10.1021/jacs.8b01414] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
FeFe hydrogenases catalyze H2 oxidation and production using an "H-cluster", where two Fe ions are bound by an aza-dithiolate (adt) ligand. Various hypotheses have been proposed (by us and others) to explain that the enzyme reversibly inactivates under oxidizing, anaerobic conditions: intramolecular binding of the N atom of adt, formation of the so-called "Hox/inact" state or nonproductive binding of H2 to isomers of the H-cluster. Here, we show that none of the above explains the new finding that the anaerobic, oxidative, H2-dependent reversible inactivation is strictly dependent on the presence of Cl- or Br-. We provide experimental evidence that chloride uncompetitively inhibits the enzyme: it reversibly binds to catalytic intermediates of H2 oxidation (but not to the resting "Hox" state), after which oxidation locks the active site into a stable, saturated, inactive form, the structure of which is proposed here based on DFT calculations. The halides interact with the amine group of the H-cluster but do not directly bind to iron. It should be possible to stabilize the inhibited state in amounts compatible with spectroscopic investigations to explore further this unexpected reactivity of the H-cluster of hydrogenase.
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Affiliation(s)
- Melisa Del Barrio
- Aix Marseille Université , CNRS, Bioénergétique et Ingénierie des Protéines , Marseille , France
| | - Matteo Sensi
- Aix Marseille Université , CNRS, Bioénergétique et Ingénierie des Protéines , Marseille , France
| | - Laura Fradale
- Aix Marseille Université , CNRS, Bioénergétique et Ingénierie des Protéines , Marseille , France
| | - Maurizio Bruschi
- Department of Earth and Environmental Sciences , University of Milano-Bicocca , 20126 Milan , Italy
| | - Claudio Greco
- Department of Earth and Environmental Sciences , University of Milano-Bicocca , 20126 Milan , Italy
| | - Luca de Gioia
- Department of Biotechnologies and Biosciences , University of Milano-Bicocca , 20126 Milan , Italy
| | - Luca Bertini
- Department of Biotechnologies and Biosciences , University of Milano-Bicocca , 20126 Milan , Italy
| | - Vincent Fourmond
- Aix Marseille Université , CNRS, Bioénergétique et Ingénierie des Protéines , Marseille , France
| | - Christophe Léger
- Aix Marseille Université , CNRS, Bioénergétique et Ingénierie des Protéines , Marseille , France
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9
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Wang S, Aster A, Mirmohades M, Lomoth R, Hammarström L. Structural and Kinetic Studies of Intermediates of a Biomimetic Diiron Proton-Reduction Catalyst. Inorg Chem 2018; 57:768-776. [PMID: 29297686 DOI: 10.1021/acs.inorgchem.7b02687] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
One-electron reduction and subsequent protonation of a biomimetic proton-reduction catalyst [FeFe(μ-pdt)(CO)6] (pdt = propanedithiolate), 1, were investigated by UV-vis and IR spectroscopy on a nano- to microsecond time scale. The study aimed to provide further insight into the proton-reduction cycle of this [FeFe]-hydrogenase model complex, which with its prototypical alkyldithiolate-bridged diiron core is widely employed as a molecular, precious metal-free catalyst for sustainable H2 generation. The one-electron-reduced catalyst was obtained transiently by electron transfer from photogenerated [Ru(dmb)3]+ in the absence of proton sources or in the presence of acids (dichloro- or trichloroacetic acid or tosylic acid). The reduced catalyst and its protonation product were observed in real time by UV-vis and IR spectroscopy, leading to their structural characterization and providing kinetic data on the electron and proton transfer reactions. 1 features an intact (μ2,κ2-pdt)(μ-H)Fe2 core in the reduced, 1-, and reduced-protonated states, 1H, in contrast to the Fe-S bond cleavage upon the reduction of [FeFe(bdt)(CO)6], 2, with a benzenedithiolate bridge. The driving-force dependence of the rate constants for the protonation of 1- (kpt = 7.0 × 105, 1.3 × 107, and 7.0 × 107 M-1 s-1 for the three acids used in this study) suggests a reorganization energy >1 eV and indicates that hydride complex 1H is formed by direct protonation of the Fe-Fe bond. The protonation of 1- is sufficiently fast even with the weaker acids, which excludes a rate-limiting role in light-driven H2 formation under typical conditions.
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Affiliation(s)
- Shihuai Wang
- Department of Chemistry-Ångström Laboratory, Uppsala University , Box 523, SE-751 20 Uppsala, Sweden
| | - Alexander Aster
- Department of Chemistry-Ångström Laboratory, Uppsala University , Box 523, SE-751 20 Uppsala, Sweden
| | - Mohammad Mirmohades
- Department of Chemistry-Ångström Laboratory, Uppsala University , Box 523, SE-751 20 Uppsala, Sweden
| | - Reiner Lomoth
- Department of Chemistry-Ångström Laboratory, Uppsala University , Box 523, SE-751 20 Uppsala, Sweden
| | - Leif Hammarström
- Department of Chemistry-Ångström Laboratory, Uppsala University , Box 523, SE-751 20 Uppsala, Sweden
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10
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Sensi M, Baffert C, Fradale L, Gauquelin C, Soucaille P, Meynial-Salles I, Bottin H, de Gioia L, Bruschi M, Fourmond V, Léger C, Bertini L. Photoinhibition of FeFe Hydrogenase. ACS Catal 2017. [DOI: 10.1021/acscatal.7b02252] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Matteo Sensi
- Aix Marseille University, CNRS, BIP UMR 7281, 13402 CEDEX 20 Marseille, France
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
| | - Carole Baffert
- Aix Marseille University, CNRS, BIP UMR 7281, 13402 CEDEX 20 Marseille, France
| | - Laura Fradale
- Aix Marseille University, CNRS, BIP UMR 7281, 13402 CEDEX 20 Marseille, France
| | - Charles Gauquelin
- Université de Toulouse, INSA, UPS, INP, LISBP, INRA:UMR792,135
CNRS:UMR 5504, Avenue
de Rangueil, 31077 Toulouse, France
| | - Philippe Soucaille
- Université de Toulouse, INSA, UPS, INP, LISBP, INRA:UMR792,135
CNRS:UMR 5504, Avenue
de Rangueil, 31077 Toulouse, France
| | - Isabelle Meynial-Salles
- Université de Toulouse, INSA, UPS, INP, LISBP, INRA:UMR792,135
CNRS:UMR 5504, Avenue
de Rangueil, 31077 Toulouse, France
| | - Hervé Bottin
- Institut
de Biologie Intégrative de la Cellule (I2BC), Institut Frédéric
Joliot, CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, F-91198 CEDEX Gif-Sur-Yvette, France
| | - Luca de Gioia
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
| | - Maurizio Bruschi
- Department
of Earth and Environmental Sciences, Milano-Bicocca University, Piazza della
Scienza 1, 20126 Milan, Italy
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
| | - Vincent Fourmond
- Aix Marseille University, CNRS, BIP UMR 7281, 13402 CEDEX 20 Marseille, France
| | - Christophe Léger
- Aix Marseille University, CNRS, BIP UMR 7281, 13402 CEDEX 20 Marseille, France
| | - Luca Bertini
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
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11
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Sensi M, Baffert C, Greco C, Caserta G, Gauquelin C, Saujet L, Fontecave M, Roy S, Artero V, Soucaille P, Meynial-Salles I, Bottin H, de Gioia L, Fourmond V, Léger C, Bertini L. Reactivity of the Excited States of the H-Cluster of FeFe Hydrogenases. J Am Chem Soc 2016; 138:13612-13618. [DOI: 10.1021/jacs.6b06603] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Matteo Sensi
- Aix Marseille Univ., CNRS, BIP UMR 7281, Marseille, France
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
| | - Carole Baffert
- Aix Marseille Univ., CNRS, BIP UMR 7281, Marseille, France
| | - Claudio Greco
- Department
of Earth and Environmental Sciences, Milano-Bicocca University, Piazza della
Scienza 1, 20126 Milan, Italy
| | - Giorgio Caserta
- Laboratoire
de Chimie des Processus Biologiques, UMR 8229 CNRS, Collège de France, Université Paris 6, 11 Place Marcelin Berthelot, Paris 75231 Cedex 05, France
| | - Charles Gauquelin
- Université de Toulouse, INSA, UPS, INP, LISBP, INRA:UMR792,135 CNRS:UMR 5504, avenue de Rangueil, 31077 Toulouse, France
| | - Laure Saujet
- Institut de Biologie et de Technologies de Saclay IBITECS, SB2SM/Institut de Biologie Intégrative de la Cellule I2BC, UMR 9198, CEA, CNRS, Université Paris Sud, F-91191 Gif sur Yvette, France
| | - Marc Fontecave
- Laboratoire
de Chimie des Processus Biologiques, UMR 8229 CNRS, Collège de France, Université Paris 6, 11 Place Marcelin Berthelot, Paris 75231 Cedex 05, France
| | - Souvik Roy
- Laboratoire
de Chimie et Biologie des Métaux, Université Grenoble Alpes, CNRS, CEA, 17 rue des Martyrs, 38054 Grenoble, France
| | - Vincent Artero
- Laboratoire
de Chimie et Biologie des Métaux, Université Grenoble Alpes, CNRS, CEA, 17 rue des Martyrs, 38054 Grenoble, France
| | - Philippe Soucaille
- Université de Toulouse, INSA, UPS, INP, LISBP, INRA:UMR792,135 CNRS:UMR 5504, avenue de Rangueil, 31077 Toulouse, France
| | - Isabelle Meynial-Salles
- Université de Toulouse, INSA, UPS, INP, LISBP, INRA:UMR792,135 CNRS:UMR 5504, avenue de Rangueil, 31077 Toulouse, France
| | - Hervé Bottin
- Institut de Biologie et de Technologies de Saclay IBITECS, SB2SM/Institut de Biologie Intégrative de la Cellule I2BC, UMR 9198, CEA, CNRS, Université Paris Sud, F-91191 Gif sur Yvette, France
| | - Luca de Gioia
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
| | | | | | - Luca Bertini
- Department
of Biotechnologies and Biosciences, University of Milano-Bicocca, Piazza
della Scienza 2, 20126 Milan, Italy
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12
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Tabrizi SG, Pelmenschikov V, Noodleman L, Kaupp M. The Mössbauer Parameters of the Proximal Cluster of Membrane-Bound Hydrogenase Revisited: A Density Functional Theory Study. J Chem Theory Comput 2015; 12:174-87. [PMID: 26598030 PMCID: PMC4819768 DOI: 10.1021/acs.jctc.5b00854] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
![]()
An unprecedented [4Fe-3S] cluster
proximal to the regular [NiFe]
active site has recently been found to be responsible for the ability
of membrane-bound hydrogenases (MBHs) to oxidize dihydrogen in the
presence of ambient levels of oxygen. Starting from proximal cluster
models of a recent DFT study on the redox-dependent structural transformation
of the [4Fe-3S] cluster, 57Fe Mössbauer parameters
(electric field gradients, isomer shifts, and nuclear hyperfine couplings)
were calculated using DFT. Our results revise the previously reported
correspondence of Mössbauer signals and iron centers in the
[4Fe-3S]3+ reduced-state proximal cluster. Similar conflicting
assignments are also resolved for the [4Fe-3S]5+ superoxidized
state with particular regard to spin-coupling in the broken-symmetry
DFT calculations. Calculated 57Fe hyperfine coupling (HFC)
tensors expose discrepancies in the experimental set of HFC tensors
and substantiate the need for additional experimental work on the
magnetic properties of the MBH proximal cluster in its reduced and
superoxidized redox states.
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Affiliation(s)
- Shadan Ghassemi Tabrizi
- Technical University of Berlin , Institute for Chemistry and Theoretical Chemistry, Sekr. C7, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Vladimir Pelmenschikov
- Technical University of Berlin , Institute for Chemistry and Theoretical Chemistry, Sekr. C7, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Louis Noodleman
- Department of Integrative Structural and Computational Biology, The Scripps Research Institute , 10550 North Torrey Pines Road, CB213, La Jolla, California 92037, United States
| | - Martin Kaupp
- Technical University of Berlin , Institute for Chemistry and Theoretical Chemistry, Sekr. C7, Strasse des 17. Juni 135, 10623 Berlin, Germany
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13
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Zipoli F, Car R, Cohen MH, Selloni A. Theoretical Design by First Principles Molecular Dynamics of a Bioinspired Electrode-Catalyst System for Electrocatalytic Hydrogen Production from Acidified Water. J Chem Theory Comput 2015; 6:3490-502. [PMID: 26617099 DOI: 10.1021/ct100319b] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
Bacterial di-iron hydrogenases produce hydrogen efficiently from water. Accordingly, we have studied by first-principles molecular-dynamics simulations (FPMD) electrocatalytic hydrogen production from acidified water by their common active site, the [FeFe]H cluster, extracted from the enzyme and linked directly to the (100) surface of a pyrite electrode. We found that the cluster could not be attached stably to the surface via a thiol link analogous to that which attaches it to the rest of the enzyme, despite the similarity of the (100) pyrite surface to the Fe4S4 cubane to which it is linked in the enzyme. We report here a systematic sequence of modifications of the structure and composition of the cluster devised to maintain the structural stability of the pyrite/cluster complex in water throughout its hydrogen production cycle, an example of the molecular design of a complex system by FPMD.
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Affiliation(s)
- Federico Zipoli
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Roberto Car
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Morrel H Cohen
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Annabella Selloni
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
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14
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Chang CH, Kim K. Density Functional Theory Calculation of Bonding and Charge Parameters for Molecular Dynamics Studies on [FeFe] Hydrogenases. J Chem Theory Comput 2015; 5:1137-45. [PMID: 26609623 DOI: 10.1021/ct800342w] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
We have developed and tested molecular mechanics parameters for [FeS] clusters found in known [FeFe] hydrogenases. Bond stretching, angle bending, dihedral and improper torsion parameters for models of the oxidized and reduced catalytic H-cluster, [4Fe4S](+,2+)Cys4, [4Fe4S](+,2+)Cys3His, and [2Fe2S](+,2+)Cys4, were calculated solely from Kohn-Sham density functional theory and Natural Population Analysis. Circumsphere analysis of the cubane clusters in the energy-minimized structure of the full Clostridium pasteurianum hydrogenase I showed the resulting metallocluster structures to be similar to known cubane structures. All clusters were additionally stable in molecular dynamics simulations over the course of 1.0 ns in the fully oxidized and fully reduced enzyme models. Normal modes calculated by quasiharmonic analysis from the dynamics data show unexpected couplings among internal coordinate motions, which may reflect the effects of the protein structure on metallocluster dynamics.
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Affiliation(s)
- Christopher H Chang
- National Renewable Energy Laboratory, 1617 Cole Boulevard, Golden, Colorado 80401
| | - Kwiseon Kim
- National Renewable Energy Laboratory, 1617 Cole Boulevard, Golden, Colorado 80401
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15
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Adamska-Venkatesh A, Simmons TR, Siebel JF, Artero V, Fontecave M, Reijerse E, Lubitz W. Artificially maturated [FeFe] hydrogenase from Chlamydomonas reinhardtii: a HYSCORE and ENDOR study of a non-natural H-cluster. Phys Chem Chem Phys 2015; 17:5421-30. [PMID: 25613229 DOI: 10.1039/c4cp05426a] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Hydrogenases are enzymes that catalyze the oxidation of H2 as well as the reduction of protons to form H2. The active site of [FeFe] hydrogenase is referred to as the "H-cluster" and consists of a "classical" [4Fe-4S] cluster connected via a bridging cysteine thiol group to a unique [2Fe]H sub-cluster, containing CN(-) and CO ligands as well as a bidentate azadithiolate ligand. It has been recently shown that the biomimetic [Fe2(adt)(CO)4(CN)2](2-) (adt(2-) = azadithiolate) complex resembling the diiron sub-cluster can be inserted in vitro into the apo-protein of [FeFe] hydrogenase, which contains only the [4Fe-4S] part of the H-cluster, resulting in a fully active enzyme. This synthetic tool allows convenient incorporation of a variety of diiron mimics, thus generating hydrogenases with artificial active sites. [FeFe] hydrogenase from Chlamydomonas reinhardtii maturated with the biomimetic complex [Fe2(pdt)(CO)4(CN)2](2-) (pdt(2-) = propanedithiolate), in which the bridging adt(2-) ligand is replaced by pdt(2-), can be stabilized in a state strongly resembling the active oxidized (Hox) state of the native protein. This state is EPR active and the signal originates from the mixed valence Fe(I)Fe(II) state of the diiron sub-cluster. Taking advantage of the variant with (15)N and (13)C isotope labeled CN(-) ligands we performed HYSCORE and ENDOR studies on this hybrid protein. The (13)C hyperfine couplings originating from both CN(-) ligands were determined and assigned. Only the (15)N coupling from the CN(-) ligand bound to the terminal iron was observed. Detailed orientation selective ENDOR and HYSCORE experiments at multiple field positions enabled the extraction of accurate data for the relative orientations of the nitrogen and carbon hyperfine tensors. These data are consistent with the crystal structure assuming a g-tensor orientation following the local symmetry of the binuclear sub-cluster.
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Affiliation(s)
- Agnieszka Adamska-Venkatesh
- Max-Planck-Institut für Chemische Energiekonversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany.
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16
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Abstract
Proton reduction and H2 oxidation are key elementary reactions for solar fuel production. Hydrogenases interconvert H+ and H2 with remarkable efficiency and have therefore received much attention in this context. For [FeFe]-hydrogenases, catalysis occurs at a unique cofactor called the H-cluster. In this article, we discuss ways in which EPR spectroscopy has elucidated aspects of the bioassembly of the H-cluster, with a focus on four case studies: EPR spectroscopic identification of a radical en route to the CO and CN- ligands of the H-cluster, tracing 57Fe from the maturase HydG into the H-cluster, characterization of the auxiliary Fe-S cluster in HydG, and isotopic labeling of the CN- ligands of HydA for electronic structure studies of its Hox state. Advances in cell-free maturation protocols have enabled several of these mechanistic studies, and understanding H-cluster maturation may in turn provide insights leading to improvements in hydrogenase production for biotechnological applications.
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Affiliation(s)
- Daniel L. M. Suess
- Department of Chemistry, University of California, One Shields Avenue, Davis, CA 95616, USA
| | - R. David Britt
- Department of Chemistry, University of California, One Shields Avenue, Davis, CA 95616, USA
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17
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Peters JW, Schut GJ, Boyd ES, Mulder DW, Shepard EM, Broderick JB, King PW, Adams MWW. [FeFe]- and [NiFe]-hydrogenase diversity, mechanism, and maturation. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2014; 1853:1350-69. [PMID: 25461840 DOI: 10.1016/j.bbamcr.2014.11.021] [Citation(s) in RCA: 273] [Impact Index Per Article: 27.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2014] [Revised: 11/10/2014] [Accepted: 11/16/2014] [Indexed: 11/29/2022]
Abstract
The [FeFe]- and [NiFe]-hydrogenases catalyze the formal interconversion between hydrogen and protons and electrons, possess characteristic non-protein ligands at their catalytic sites and thus share common mechanistic features. Despite the similarities between these two types of hydrogenases, they clearly have distinct evolutionary origins and likely emerged from different selective pressures. [FeFe]-hydrogenases are widely distributed in fermentative anaerobic microorganisms and likely evolved under selective pressure to couple hydrogen production to the recycling of electron carriers that accumulate during anaerobic metabolism. In contrast, many [NiFe]-hydrogenases catalyze hydrogen oxidation as part of energy metabolism and were likely key enzymes in early life and arguably represent the predecessors of modern respiratory metabolism. Although the reversible combination of protons and electrons to generate hydrogen gas is the simplest of chemical reactions, the [FeFe]- and [NiFe]-hydrogenases have distinct mechanisms and differ in the fundamental chemistry associated with proton transfer and control of electron flow that also help to define catalytic bias. A unifying feature of these enzymes is that hydrogen activation itself has been restricted to one solution involving diatomic ligands (carbon monoxide and cyanide) bound to an Fe ion. On the other hand, and quite remarkably, the biosynthetic mechanisms to produce these ligands are exclusive to each type of enzyme. Furthermore, these mechanisms represent two independent solutions to the formation of complex bioinorganic active sites for catalyzing the simplest of chemical reactions, reversible hydrogen oxidation. As such, the [FeFe]- and [NiFe]-hydrogenases are arguably the most profound case of convergent evolution. This article is part of a Special Issue entitled: Fe/S proteins: Analysis, structure, function, biogenesis and diseases.
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Affiliation(s)
- John W Peters
- Department of Chemistry and Biochemistry, Montana State University, Bozeman, MT 59717, USA.
| | - Gerrit J Schut
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA 30602, USA
| | - Eric S Boyd
- Department of Microbiology and Immunology, Montana State University, Bozeman, MT 59717, USA
| | - David W Mulder
- Biosciences Center, National Renewable Energy Laboratory, Golden, CO 80401, USA
| | - Eric M Shepard
- Department of Chemistry and Biochemistry, Montana State University, Bozeman, MT 59717, USA
| | - Joan B Broderick
- Department of Chemistry and Biochemistry, Montana State University, Bozeman, MT 59717, USA
| | - Paul W King
- Biosciences Center, National Renewable Energy Laboratory, Golden, CO 80401, USA
| | - Michael W W Adams
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA 30602, USA
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18
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Finkelmann AR, Stiebritz MT, Reiher M. Activation Barriers of Oxygen Transformation at the Active Site of [FeFe] Hydrogenases. Inorg Chem 2014; 53:11890-902. [DOI: 10.1021/ic501049z] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Arndt R. Finkelmann
- Laboratorium
für Physikalische
Chemie, ETH Zürich, Valdimir-Prelog-Weg 2, 8093 Zürich, Switzerland
| | - Martin T. Stiebritz
- Laboratorium
für Physikalische
Chemie, ETH Zürich, Valdimir-Prelog-Weg 2, 8093 Zürich, Switzerland
| | - Markus Reiher
- Laboratorium
für Physikalische
Chemie, ETH Zürich, Valdimir-Prelog-Weg 2, 8093 Zürich, Switzerland
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19
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Mulder DW, Ratzloff MW, Bruschi M, Greco C, Koonce E, Peters JW, King PW. Investigations on the role of proton-coupled electron transfer in hydrogen activation by [FeFe]-hydrogenase. J Am Chem Soc 2014; 136:15394-402. [PMID: 25286239 DOI: 10.1021/ja508629m] [Citation(s) in RCA: 91] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Proton-coupled electron transfer (PCET) is a fundamental process at the core of oxidation-reduction reactions for energy conversion. The [FeFe]-hydrogenases catalyze the reversible activation of molecular H2 through a unique metallocofactor, the H-cluster, which is finely tuned by the surrounding protein environment to undergo fast PCET transitions. The correlation of electronic and structural transitions at the H-cluster with proton-transfer (PT) steps has not been well-resolved experimentally. Here, we explore how modification of the conserved PT network via a Cys → Ser substitution at position 169 proximal to the H-cluster of Chlamydomonas reinhardtii [FeFe]-hydrogenase (CrHydA1) affects the H-cluster using electron paramagnetic resonance (EPR) and Fourier transform infrared (FTIR) spectroscopy. Despite a substantial decrease in catalytic activity, the EPR and FTIR spectra reveal different H-cluster catalytic states under reducing and oxidizing conditions. Under H2 or sodium dithionite reductive treatments, the EPR spectra show signals that are consistent with a reduced [4Fe-4S]H(+) subcluster. The FTIR spectra showed upshifts of νCO modes to energies that are consistent with an increase in oxidation state of the [2Fe]H subcluster, which was corroborated by DFT analysis. In contrast to the case for wild-type CrHydA1, spectra associated with Hred and Hsred states are less populated in the Cys → Ser variant, demonstrating that the exchange of -SH with -OH alters how the H-cluster equilibrates among different reduced states of the catalytic cycle under steady-state conditions.
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Affiliation(s)
- David W Mulder
- Biosciences Center, National Renewable Energy Laboratory , Golden, Colorado 80401, United States
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20
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Myers WK, Stich TA, Suess DLM, Kuchenreuther JM, Swartz JR, Britt RD. The cyanide ligands of [FeFe] hydrogenase: pulse EPR studies of (13)C and (15)N-labeled H-cluster. J Am Chem Soc 2014; 136:12237-40. [PMID: 25133957 PMCID: PMC4156861 DOI: 10.1021/ja507046w] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
![]()
The
two cyanide ligands in the assembled cluster of [FeFe] hydrogenase
originate from exogenous l-tyrosine. Using selectively labeled
tyrosine substrates, the cyanides were isotopically labeled via a
recently developed in vitro maturation procedure
allowing advanced electron paramagnetic resonance techniques to probe
the electronic structure of the catalytic core of the enzyme. The
ratio of the isotropic 13C hyperfine interactions for the
two CN– ligands—a reporter of spin density
on their respective coordinating iron ions—collapses from ≈5.8
for the Hox form of hydrogenase to <2 for the CO-inhibited
form. Additionally, when the maturation was carried out using [15N]-tyrosine, no features previously ascribed to the nitrogen
of the bridging dithiolate ligand were observed suggesting that this
bridge is not sourced from tyrosine.
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Affiliation(s)
- William K Myers
- Department of Chemistry, University of California, Davis , Davis, California 95616 United States
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21
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Affiliation(s)
- Wolfgang Lubitz
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Hideaki Ogata
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Olaf Rüdiger
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Edward Reijerse
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
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22
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Bertini L, Bruschi M, Cosentino U, Greco C, Moro G, Zampella G, De Gioia L. Quantum mechanical methods for the investigation of metalloproteins and related bioinorganic compounds. Methods Mol Biol 2014; 1122:207-68. [PMID: 24639262 DOI: 10.1007/978-1-62703-794-5_14] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
It is well known that transition metal ions are often bound to proteins, conveying very specific functional properties. In fact, metalloproteins play crucial biological roles in the transport and activation of small molecules such as H2, O2, and N2, as well as in several other biochemical processes. However, even if the presence of transition metals in the active site of proteins allows a very rich biochemistry, the experimental disclosure of structure-activity relationships in metalloproteins is generally difficult exactly because of the presence of transition metals, which are intrinsically characterized by a very versatile and often elusive chemistry. For this reason, computational methods are becoming very popular tools in the characterization of metalloproteins. In particular, since computing power is becoming less and less expensive, due to the continuous technological development of CPUs, the computational tools suited to investigate metalloproteins are becoming more accessible and therefore more commonly used also in molecular biology and biochemistry laboratories. Here, we present the main procedures and computational methods based on quantum mechanics, which are commonly used to study the structural, electronic, and reactivity properties of metalloproteins and related bioinspired compounds, with a specific focus on the practical and technical aspects that must be generally tackled to properly study such biomolecular systems.
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Affiliation(s)
- Luca Bertini
- Department of Environmental Science, University of Milano-Bicocca, Milan, Italy
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23
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Mulder DW, Ratzloff MW, Shepard EM, Byer AS, Noone SM, Peters JW, Broderick JB, King PW. EPR and FTIR Analysis of the Mechanism of H2 Activation by [FeFe]-Hydrogenase HydA1 from Chlamydomonas reinhardtii. J Am Chem Soc 2013; 135:6921-9. [DOI: 10.1021/ja4000257] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- David W. Mulder
- Biosciences
Center, National Renewable Energy Laboratory, Golden, Colorado
80401, United States
| | - Michael W. Ratzloff
- Biosciences
Center, National Renewable Energy Laboratory, Golden, Colorado
80401, United States
| | - Eric M. Shepard
- Department
of Chemistry and
Biochemistry, Montana State University,
Bozeman, Montana 59717, United States
| | - Amanda S. Byer
- Department
of Chemistry and
Biochemistry, Montana State University,
Bozeman, Montana 59717, United States
| | - Seth M. Noone
- Biosciences
Center, National Renewable Energy Laboratory, Golden, Colorado
80401, United States
| | - John W. Peters
- Department
of Chemistry and
Biochemistry, Montana State University,
Bozeman, Montana 59717, United States
| | - Joan B. Broderick
- Department
of Chemistry and
Biochemistry, Montana State University,
Bozeman, Montana 59717, United States
| | - Paul W. King
- Biosciences
Center, National Renewable Energy Laboratory, Golden, Colorado
80401, United States
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24
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Voityuk AA. Intermediate neglect of differential overlap for spectroscopy. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2013. [DOI: 10.1002/wcms.1141] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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25
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26
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A new reactivity pattern of heterodinuclear complexes [MnRe(CO)6(μ-S2CPR3)] with nBuLi/protonation and its electrochemistry properties investigation as structure and function models for the Fe-only hydrogenase active site. J Organomet Chem 2012. [DOI: 10.1016/j.jorganchem.2012.07.003] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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27
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Foster CE, Krämer T, Wait AF, Parkin A, Jennings DP, Happe T, McGrady JE, Armstrong FA. Inhibition of [FeFe]-hydrogenases by formaldehyde and wider mechanistic implications for biohydrogen activation. J Am Chem Soc 2012; 134:7553-7. [PMID: 22512303 DOI: 10.1021/ja302096r] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Formaldehyde-a rapid and reversible inhibitor of hydrogen evolution by [FeFe]-hydrogenases-binds with a strong potential dependence that is almost complementary to that of CO. Whereas exogenous CO binds tightly to the oxidized state known as H(ox) but very weakly to a state two electrons more reduced, formaldehyde interacts most strongly with the latter. Formaldehyde thus intercepts increasingly reduced states of the catalytic cycle, and density functional theory calculations support the proposal that it reacts with the H-cluster directly, most likely targeting an otherwise elusive and highly reactive Fe-hydrido (Fe-H) intermediate.
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Affiliation(s)
- Carina E Foster
- Department of Chemistry, Inorganic Chemistry Laboratory, University of Oxford, South Parks Road, Oxford, OX1 3QR, United Kingdom
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28
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29
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Schilter D, Nilges MJ, Chakrabarti M, Lindahl PA, Rauchfuss TB, Stein M. Mixed-valence nickel-iron dithiolate models of the [NiFe]-hydrogenase active site. Inorg Chem 2012; 51:2338-48. [PMID: 22304696 PMCID: PMC3288512 DOI: 10.1021/ic202329y] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A series of mixed-valence nickel-iron dithiolates is described. Oxidation of (diphosphine)Ni(dithiolate)Fe(CO)(3) complexes 1, 2, and 3 with ferrocenium salts affords the corresponding tricarbonyl cations [(dppe)Ni(pdt)Fe(CO)(3)](+) ([1](+)), [(dppe)Ni(edt)Fe(CO)(3)](+) ([2](+)) and [(dcpe)Ni(pdt)Fe(CO)(3)](+) ([3](+)), respectively, where dppe = Ph(2)PCH(2)CH(2)PPh(2), dcpe = Cy(2)PCH(2)CH(2)PCy(2), (Cy = cyclohexyl), pdtH(2) = HSCH(2)CH(2)CH(2)SH, and edtH(2) = HSCH(2)CH(2)SH. The cation [2](+) proved unstable, but the propanedithiolates are robust. IR and EPR spectroscopic measurements indicate that these species exist as C(s)-symmetric species. Crystallographic characterization of [3]BF(4) shows that Ni is square planar. Interaction of [1]BF(4) with P-donor ligands (L) afforded a series of substituted derivatives of type [(dppe)Ni(pdt)Fe(CO)(2)L]BF(4) for L = P(OPh)(3) ([4a]BF(4)), P(p-C(6)H(4)Cl)(3) ([4b]BF(4)), PPh(2)(2-py) ([4c]BF(4)), PPh(2)(OEt) ([4d]BF(4)), PPh(3) ([4e]BF(4)), PPh(2)(o-C(6)H(4)OMe) ([4f]BF(4)), PPh(2)(o-C(6)H(4)OCH(2)OMe) ([4g]BF(4)), P(p-tol)(3) ([4h]BF(4)), P(p-C(6)H(4)OMe)(3) ([4i]BF(4)), and PMePh(2) ([4j]BF(4)). EPR analysis indicates that ethanedithiolate [2](+) exists as a single species at 110 K, whereas the propanedithiolate cations exist as a mixture of two conformers, which are proposed to be related through a flip of the chelate ring. Mössbauer spectra of 1 and oxidized S = 1/2 [4e]BF(4) are both consistent with a low-spin Fe(I) state. The hyperfine coupling tensor of [4e]BF(4) has a small isotropic component and significant anisotropy. DFT calculations using the BP86, B3LYP, and PBE0 exchange-correlation functionals agree with the structural and spectroscopic data, suggesting that the SOMOs in complexes of the present type are localized in an Fe(I)-centered d(z(2)) orbital. The DFT calculations allow an assignment of oxidation states of the metals and rationalization of the conformers detected by EPR spectroscopy. Treatment of [1](+) with CN(-) and compact basic phosphines results in complex reactions. With dppe, [1](+) undergoes quasi-disproportionation to give 1 and the diamagnetic complex [(dppe)Ni(pdt)Fe(CO)(2)(dppe)](2+) ([5](2+)), which features square-planar Ni linked to an octahedral Fe center.
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Affiliation(s)
- David Schilter
- Department of Chemistry, University of Illinois, 600 South Goodwin Avenue, Urbana, Illinois 61801, United States
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30
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Greco C, Bruschi M, Fantucci P, Ryde U, De Gioia L. Probing the Effects of One-Electron Reduction and Protonation on the Electronic Properties of the Fe-S Clusters in the Active-Ready Form of [FeFe]-Hydrogenases. A QM/MM Investigation. Chemphyschem 2011; 12:3376-82. [DOI: 10.1002/cphc.201100498] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2011] [Revised: 10/13/2011] [Indexed: 11/08/2022]
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31
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Greco C, Bruschi M, Fantucci P, Ryde U, De Gioia L. Mechanistic and Physiological Implications of the Interplay among Iron–Sulfur Clusters in [FeFe]-Hydrogenases. A QM/MM Perspective. J Am Chem Soc 2011; 133:18742-9. [DOI: 10.1021/ja205542k] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Claudio Greco
- Department of Biotechnology and Bioscience, University of Milan-Bicocca, Piazza della Scienza 2, 20126, Milan, Italy
- Department of Chemistry, Humboldt-Universitaet zu Berlin, Brook-Taylor-Strasse 2, 12489, Berlin, Germany
| | - Maurizio Bruschi
- Department of Environmental Sciences, University of Milan-Bicocca, Piazza della Scienza 1, 20126, Milan, Italy
| | - Piercarlo Fantucci
- Department of Biotechnology and Bioscience, University of Milan-Bicocca, Piazza della Scienza 2, 20126, Milan, Italy
| | - Ulf Ryde
- Department of Theoretical Chemistry, Lund University, P.O. Box 124, 22100 Lund, Sweden
| | - Luca De Gioia
- Department of Biotechnology and Bioscience, University of Milan-Bicocca, Piazza della Scienza 2, 20126, Milan, Italy
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32
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Lambertz C, Leidel N, Havelius KGV, Noth J, Chernev P, Winkler M, Happe T, Haumann M. O2 reactions at the six-iron active site (H-cluster) in [FeFe]-hydrogenase. J Biol Chem 2011; 286:40614-23. [PMID: 21930709 DOI: 10.1074/jbc.m111.283648] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
Irreversible inhibition by molecular oxygen (O(2)) complicates the use of [FeFe]-hydrogenases (HydA) for biotechnological hydrogen (H(2)) production. Modification by O(2) of the active site six-iron complex denoted as the H-cluster ([4Fe4S]-2Fe(H)) of HydA1 from the green alga Chlamydomonas reinhardtii was characterized by x-ray absorption spectroscopy at the iron K-edge. In a time-resolved approach, HydA1 protein samples were prepared after increasing O(2) exposure periods at 0 °C. A kinetic analysis of changes in their x-ray absorption near edge structure and extended X-ray absorption fine structure spectra revealed three phases of O(2) reactions. The first phase (τ(1) ≤ 4 s) is characterized by the formation of an increased number of Fe-O,C bonds, elongation of the Fe-Fe distance in the binuclear unit (2Fe(H)), and oxidation of one iron ion. The second phase (τ(2) ≈ 15 s) causes a ∼50% decrease of the number of ∼2.7-Å Fe-Fe distances in the [4Fe4S] subcluster and the oxidation of one more iron ion. The final phase (τ(3) ≤ 1000 s) leads to the disappearance of most Fe-Fe and Fe-S interactions and further iron oxidation. These results favor a reaction sequence, which involves 1) oxygenation at 2Fe(H(+)) leading to the formation of a reactive oxygen species-like superoxide (O(2)(-)), followed by 2) H-cluster inactivation and destabilization due to ROS attack on the [4Fe4S] cluster to convert it into an apparent [3Fe4S](+) unit, leading to 3) complete O(2)-induced degradation of the remainders of the H-cluster. This mechanism suggests that blocking of ROS diffusion paths and/or altering the redox potential of the [4Fe4S] cubane by genetic engineering may yield improved O(2) tolerance in [FeFe]-hydrogenase.
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Affiliation(s)
- Camilla Lambertz
- Lehrstuhl für Biochemie der Pflanzen, AG Photobiotechnologie, Ruhr-Universität Bochum, 44780 Bochum, Germany
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33
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Oxidation State Changes and Electron Flow in Enzymatic Catalysis and Electrocatalysis through Wannier-Function Analysis. Chemistry 2011; 17:12136-43. [DOI: 10.1002/chem.201101916] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2011] [Indexed: 12/21/2022]
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Greco C, De Gioia L. A theoretical study on the enhancement of functionally relevant electron transfers in biomimetic models of [FeFe]-hydrogenases. Inorg Chem 2011; 50:6987-95. [PMID: 21728321 DOI: 10.1021/ic200297d] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Recent advances aimed at modeling the chemistry of the active site of [FeFe]-hydrogenases (the H-cluster, composed by a catalytic Fe(2)S(2) subcluster and an Fe(4)S(4) portion) have led to the synthesis of binuclear coordination compounds containing a noninnocent organophosphine ligand [2,3-bis(diphenylphosphino)maleic anhydride, bma] that is able to undergo monoelectron reduction, analogously to the tetranuclear Fe(4)S(4) subcluster portion of the H-cluster. However, such a synthetic model was shown to feature negligible electronic communication between the noninnocent ligand and the remaining portion of the cluster, at variance with the enzyme active site. Here, we report a theoretical investigation that shows why the electron transfer observed in the enzyme upon protonation of the catalytic Fe(2)S(2) subsite cannot take place in the bma-containing cluster. In addition, we show that targeted modifications of the bma ligand are sufficient to restore the electronic communication within the model, such that electron density can be more easily withdrawn from the noninnocent ligand, as a result of protonation of the iron centers. Similar results were also obtained with a ligand derived from cobaltocene. The relevance of our findings is discussed from the perspective of biomimetic reproduction of proton reduction to yield molecular hydrogen.
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Affiliation(s)
- Claudio Greco
- Department of Biotechnology and Biosciences, Milan-Bicocca University, Piazza della Scienza 2, 20126, Milan, Italy.
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Giles LJ, Grigoropoulos A, Szilagyi RK. Electron and Spin Density Topology of the H-Cluster and Its Biomimetic Complexes. Eur J Inorg Chem 2011. [DOI: 10.1002/ejic.201100318] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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36
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Electrocatalyst design from first principles: A hydrogen-production catalyst inspired by nature. Catal Today 2011. [DOI: 10.1016/j.cattod.2010.12.030] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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37
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A new tetranuclear copper(II) Schiff base complex containing Cu4O4 cubane core: Structural and spectral characterizations. J Mol Struct 2011. [DOI: 10.1016/j.molstruc.2011.02.003] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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Yu L, Greco C, Bruschi M, Ryde U, De Gioia L, Reiher M. Targeting intermediates of [FeFe]-hydrogenase by CO and CN vibrational signatures. Inorg Chem 2011; 50:3888-900. [PMID: 21443182 DOI: 10.1021/ic102039z] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
In this work, we employ density functional theory to assign vibrational signatures of [FeFe]-hydrogenase intermediates to molecular structures. For this purpose, we perform an exhaustive analysis of structures and harmonic vibrations of a series of CN and CO containing model clusters of the [FeFe]-hydrogenase enzyme active site considering also different charges, counterions, and solvents. The pure density functional BP86 in combination with a triple-ζ polarized basis set produce reliable molecular structures as well as harmonic vibrations. Calculated CN and CO stretching vibrations are analyzed separately. Scaled vibrational frequencies are then applied to assign intermediates in [FeFe]-hydrogenase's reaction cycle. The results nicely complement the previous studies of Darensbourg and Hall, and Zilberman et al. The infrared spectrum of the H(ox) form is in very good agreement with the calculated spectrum of the Fe(I)Fe(II) model complex featuring a free coordination site at the distal Fe atom, as well as, with the calculated spectra of the complexes in which H(2) or H(2)O are coordinated at this site. The spectrum of H(red) measured from Desulfovibrio desulfuricans is compatible with a mixture of a Fe(I)Fe(I) species with all terminal COs, and a Fe(I)Fe(I) species with protonated dtma ligand, while the spectrum of H(red) recently measured from Chlamydomonas reinhardtii is compatible with a mixture of a Fe(I)Fe(I) species with a bridged CO, and a Fe(II)Fe(II) species with a terminal hydride bound to the Fe atom.
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Affiliation(s)
- Lian Yu
- Laboratorium für Physikalische Chemie, ETH Zürich, Wolfgang-Pauli-Strasse 10, CH-8093 Zürich, Switzerland
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Hong G, Cornish AJ, Hegg EL, Pachter R. On understanding proton transfer to the biocatalytic [Fe-Fe](H) sub-cluster in [Fe-Fe]H(2)ases: QM/MM MD simulations. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2011; 1807:510-7. [PMID: 21296047 DOI: 10.1016/j.bbabio.2011.01.011] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2010] [Revised: 01/26/2011] [Accepted: 01/31/2011] [Indexed: 11/19/2022]
Abstract
Proton transfer to the [Fe-Fe](H) sub-cluster in the Desulfovibrio desulfuricans (DdH) and Clostridium pasteurianum (CpI) [Fe-Fe] hydrogenases was investigated by a combination of first principles and empirical molecular dynamics simulations. Pathways that can be inferred from the X-ray crystal structures of DdH and CpI, i.e., (Glu159→Ser198→Glu156→water460→Cys178→DTMA([Fe-Fe](H)) and (Glu282→Ser319→Glu279→water612→Cys299), respectively, were considered. Proton transfer from Cys178 to DTMA in the [Fe-Fe](H) sub-cluster in DdH was readily observed in our results, specifically when [Fe-Fe](H) was in the reduced state ([Fe(I)-Fe(I)]) or in the mixed valence state for the protonated distal iron Fe(d) ([Fe(I)-Fe(II)-H(-)](H)). A concerted mechanism is proposed, where proton transfer in DdH from Glu159 to Glu156 via Ser198 and Glu156 to Cys178 via water460 readily occurred, as well as from Glu282 to Glu279 via Ser319 and Glu279 to Cys299 via water612 in CpI. The theoretical prediction of the proton transfer characteristics is consistent with the assumed biocatalytic mechanism of the [Fe-Fe] hydrogenases in which the proton binds at Fe(d), providing confirmation that has not been explored so far. The computational results were qualitatively validated by the agreement with experimental hydrogen production activity data for mutated CpI enzymes, relative to the wild-type protein. Finally, the insight provided by the simulations, combined, in part, with experimental validation, are important for establishing an approach in future exploration of proton transfer to the active site in this class of enzymes, and possibly also for biomimetic analogs.
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Affiliation(s)
- G Hong
- Air Force Research Laboratory, Materials and Manufacturing Directorate, Wright-Patterson Air Force Base, OH 45433, USA
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40
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Greco C, Silakov A, Bruschi M, Ryde U, De Gioia L, Lubitz W. Magnetic Properties of [FeFe]-Hydrogenases: A Theoretical Investigation Based on Extended QM and QM/MM Models of the H-Cluster and Its Surroundings. Eur J Inorg Chem 2011. [DOI: 10.1002/ejic.201001058] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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41
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Greco C, Bruschi M, Fantucci P, Ryde U, De Gioia L. Isocyanide in Biochemistry? A Theoretical Investigation of the Electronic Effects and Energetics of Cyanide Ligand Protonation in [FeFe]-Hydrogenases. Chemistry 2011; 17:1954-65. [DOI: 10.1002/chem.201001493] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2010] [Revised: 10/24/2010] [Indexed: 11/07/2022]
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42
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Silakov A, Reijerse EJ, Lubitz W. Unraveling the Electronic Properties of the Photoinduced States of the H-Cluster in the [FeFe] Hydrogenase from D. desulfuricans. Eur J Inorg Chem 2011. [DOI: 10.1002/ejic.201001080] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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43
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Abstract
Although DFT calculations have provided a first-order electronic-structural description for Roussin's red and black salts, a detailed study of spin coupling in these species has yet to be reported. Such an analysis is presented here for the first time, based on broken-symmetry density functional theory (DFT, chiefly OLYP/STO-TZP) calculations. Both the Noodleman and Yamaguchi formulas were used to evaluate the Heisenberg coupling constants (J). Three nitrosylated binuclear clusters were studied: [Fe(2)(NO)(2)(Et-HPTB)(O(2)CPh)](2+) (1; Et-HPTB=N,N,N',N'-tetrakis-(N-ethyl-2-benzimidazolylmethyl)-2-hydroxy-1,3-diaminopropane), [Fe(NO)(2){Fe(NO)(NS(3))}-S,S'] (2), and Roussin's red salt anion [Fe(2)(NO)(4)(μ-S)(2)](2-) (3). Although the Heisenberg J for 1 is small (≈10(2) cm(-1)), 2 and 3 exhibit J values that are at least an order of magnitude higher (≈10(3) cm(-1)), where the J values refer to the following Heisenberg spin Hamiltonian: ℋ=JS(A)⋅S(B). For Roussin's black salt anion, [Fe(4)(NO)(7)(μ(3)-S)(3)](-) (4), the Heisenberg spin Hamiltonian describing spin coupling between the {FeNO}(7) unit (S(A)=3/2) and the three {Fe(NO)(2)}(9) units (S(B)=S(C)=S(D)=1/2) in [Fe(4)(NO)(7)(μ(3)-S)(3)](-) was assumed to have the form: ℋ=J(12)(S(A)⋅S(B)+S(A)⋅S(C)+S(A)⋅S(D))+J(22)(S(B)⋅S(C)+S(B)⋅S(D)+S(C)⋅S(D)), in which J(12) corresponds to the interaction between the apical iron and a basal iron, and J(22) refers to that between any two basal iron centers. Although the basal-basal coupling constant J(22) was found to be small (≈10(2) cm(-1)), the apical-basal coupling constant J(12) is some forty times higher (≈4000 cm(-1)). Thus, the nitrosylated iron-sulfur clusters feature some exceptionally high J values relative to the non-nitrosylated {2Fe2S} and {4Fe4S} clusters. An analysis of spin-dependent bonding energies shed light on this curious feature. In essence, the energy difference between the high-spin (i.e., ferromagnetically coupled iron sites) and low-spin (i.e., maximum spin coupling) states of Roussin's salts are indeed rather similar to those of analogous non-nitrosylated iron-sulfur clusters. However, the individual Fe(NO)(x) (x=1, 2) site spins are lower in the nitrosylated systems, resulting in a smaller denominator in both the Noodleman and Yamaguchi formulas for J, which in turn translates into the very high J values.
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Affiliation(s)
- Kathrin H Hopmann
- Center for Theoretical and Computational Chemistry and Department of Chemistry, University of Tromsø, 9037 Tromsø, Norway
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44
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Silakov A, Shaw JL, Reijerse EJ, Lubitz W. Advanced Electron Paramagnetic Resonance and Density Functional Theory Study of a {2Fe3S} Cluster Mimicking the Active Site of [FeFe] Hydrogenase. J Am Chem Soc 2010; 132:17578-87. [DOI: 10.1021/ja107793e] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Alexey Silakov
- Max-Planck-Institut für Bioanorganische Chemie, Stiftstrasse 34-36, Mülheim an der Ruhr, 45470, Germany
| | - Jennifer L. Shaw
- Max-Planck-Institut für Bioanorganische Chemie, Stiftstrasse 34-36, Mülheim an der Ruhr, 45470, Germany
| | - Eduard J. Reijerse
- Max-Planck-Institut für Bioanorganische Chemie, Stiftstrasse 34-36, Mülheim an der Ruhr, 45470, Germany
| | - Wolfgang Lubitz
- Max-Planck-Institut für Bioanorganische Chemie, Stiftstrasse 34-36, Mülheim an der Ruhr, 45470, Germany
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45
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Zipoli F, Car R, Cohen MH, Selloni A. Simulation of Electrocatalytic Hydrogen Production by a Bioinspired Catalyst Anchored to a Pyrite Electrode. J Am Chem Soc 2010; 132:8593-601. [DOI: 10.1021/ja910694p] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Federico Zipoli
- Department of Chemistry, Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Roberto Car
- Department of Chemistry, Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Morrel H. Cohen
- Department of Chemistry, Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Annabella Selloni
- Department of Chemistry, Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
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46
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McGuinness ET. Some Molecular Moments of the Hadean and Archaean Aeons: A Retrospective Overview from the Interfacing Years of the Second to Third Millennia. Chem Rev 2010; 110:5191-215. [DOI: 10.1021/cr050061l] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Eugene T. McGuinness
- Department of Chemistry & Biochemistry, Seton Hall University, South Orange, New Jersey 07079-2690
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47
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Bertini L, Greco C, Bruschi M, Fantucci P, De Gioia L. CO Affinity and Bonding Properties of [FeFe] Hydrogenase Active Site Models. A DFT Study. Organometallics 2010. [DOI: 10.1021/om900658b] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Luca Bertini
- Department of Biotechnology and Biosciences, Università degli Studi di Milano-Bicocca, Piazza della Scienza, 2, 20126 Milan, Italy
| | - Claudio Greco
- Department of Biotechnology and Biosciences, Università degli Studi di Milano-Bicocca, Piazza della Scienza, 2, 20126 Milan, Italy
| | - Maurizio Bruschi
- Department of Environmental Sciences, Università degli Studi di Milano-Bicocca, Piazza della Scienza, 1, 20126 Milan, Italy
| | - Piercarlo Fantucci
- Department of Biotechnology and Biosciences, Università degli Studi di Milano-Bicocca, Piazza della Scienza, 2, 20126 Milan, Italy
| | - Luca De Gioia
- Department of Biotechnology and Biosciences, Università degli Studi di Milano-Bicocca, Piazza della Scienza, 2, 20126 Milan, Italy
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48
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Galinato MGI, Whaley CM, Lehnert N. Vibrational analysis of the model complex (mu-edt)[Fe(CO)(3)](2) and comparison to iron-only hydrogenase: the activation scale of hydrogenase model systems. Inorg Chem 2010; 49:3201-15. [PMID: 20225804 PMCID: PMC2860110 DOI: 10.1021/ic9022135] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Research on simple [FeFe] hydrogenase model systems of type (mu-S(2)R)[Fe(CO)(3)](2) (R = C(2)H(4) (edt), C(3)H(6) (pdt)) which have been shown to function as robust electrocatalysts for proton reduction, provides a reference to understand the electronic and vibrational properties of the active site of [FeFe] hydrogenases and of more sophisticated model systems. In this study, the solution and solid state Raman spectra of (mu-edt)[Fe(CO)(3)](2) and of the corresponding (13)CO-labeled complex are presented and analyzed in detail, with focus on the nu(C=O) and nu(Fe-CO)/delta(Fe-C=O) vibrational regions. These regions are specifically important as vibrations involving CO ligands serve as probes for the "electron richness" of low-valent transition metal centers and the geometric structures of the complexes. The obtained vibrational spectra have been completely assigned in terms of the nu(C=O), nu(Fe-CO), and delta(Fe-C=O) modes, and the force constants of the important C=O and Fe-CO bonds have been determined using our Quantum Chemistry Centered Normal Coordinate Analysis (QCC-NCA). In the 400-650 cm(-1) region, fifteen mixed nu(Fe-CO)/delta(Fe-C=O) modes have been identified. The most prominent Raman peaks at 454, 456, and 483 cm(-1) correspond to a combination of nu(Fe-CO) stretching and delta(Fe-C=O) linear bending modes. The less intense peaks at 416 cm(-1) and 419 cm(-1) correspond to pure delta(Fe-C=O) linear bends. In the nu(C=O) region, the nu(C=O) normal modes at lower energy (1968 and 1964 cm(-1)) are almost pure equatorial (eq) nu(C=O)(eq) stretching vibrations, whereas the remaining four nu(C=O) normal modes show dominant (C=O)(eq) (2070 and 1961 cm(-1)) and (C=O)(ax) (2005 and 1979 cm(-1); ax = axial) contributions. Importantly, an inverse correlation between the f(C=O)(ax/eq) and f(Fe-CO)(ax/eq) force constants is obtained, in agreement with the idea that the Fe(I)-CO bond in these types of complexes is dominated by pi-backdonation. Compared to the reduced form of [FeFe] hydrogenase (H(red)), the nu(C=O) vibrational frequencies of (mu-edt)[Fe(CO)(3)](2) are higher in energy, indicating that the dinuclear iron core in (mu-edt)[Fe(CO)(3)](2) is less electron rich compared to H(red) in the actual enzyme. Finally, quantum yields for the photodecomposition of (mu-edt)[Fe(CO)(3)](2) have been determined.
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Affiliation(s)
| | - C. Matthew Whaley
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Nicolai Lehnert
- Department of Chemistry, University of Michigan, Ann Arbor, MI 48109, USA
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49
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Thakurta S, Roy P, Butcher RJ, Salah El Fallah M, Tercero J, Garribba E, Mitra S. Ferromagnetic Coupling in a New Copper(II) Schiff Base Complex with Cubane Core: Structure, Magnetic Properties, DFT Study and Catalytic Activity. Eur J Inorg Chem 2009. [DOI: 10.1002/ejic.200900493] [Citation(s) in RCA: 54] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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50
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Zipoli F, Car R, Cohen MH, Selloni A. Hydrogen Production by the Naked Active Site of the Di-iron Hydrogenases in Water. J Phys Chem B 2009; 113:13096-106. [DOI: 10.1021/jp9059328] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Federico Zipoli
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Roberto Car
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Morrel H. Cohen
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
| | - Annabella Selloni
- Department of Chemistry and Princeton Institute for the Science and Technology of Materials, Princeton University, Princeton, New Jersey 08544, and Department of Physics and Astronomy, Rutgers University, Piscataway, New Jersey 08854
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