1
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Schaupp S, Arriaza-Gallardo FJ, Paczia N, Ataka K, Shima S. Acyl and CO Ligands in the [Fe]-Hydrogenase Cofactor Scramble upon Photolysis. Angew Chem Int Ed Engl 2024; 63:e202316478. [PMID: 38100251 DOI: 10.1002/anie.202316478] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 12/15/2023] [Accepted: 12/15/2023] [Indexed: 12/17/2023]
Abstract
[Fe]-hydrogenase harbors the iron-guanylylpyridinol (FeGP) cofactor, in which the Fe(II) complex contains acyl-carbon, pyridinol-nitrogen, cysteine-thiolate and two CO as ligands. Irradiation with UV-A/blue light decomposes the FeGP cofactor to a 6-carboxymethyl-4-guanylyl-2-pyridone (GP) and other components. Previous in vitro biosynthesis experiments indicated that the acyl- and CO-ligands in the FeGP cofactor can scramble, but whether scrambling occurred during biosynthesis or photolysis was unclear. Here, we demonstrate that the [18 O1 -carboxy]-group of GP is incorporated into the FeGP cofactor by in vitro biosynthesis. MS/MS analysis of the 18 O-labeled FeGP cofactor revealed that the produced [18 O1 ]-acyl group is not exchanged with a CO ligand of the cofactor, indicating that the acyl and CO ligands are scrambled during photolysis rather than biosynthesis, which ruled out any biosynthesis mechanisms allowing acyl/CO ligands scrambling. Time-resolved infrared spectroscopy indicated that an acyl-Fe(CO)3 intermediate is formed during photolysis, in which scrambling of the CO and acyl ligands can occur. This finding also suggests that the light-excited FeGP cofactor has a higher affinity for external CO. These results contribute to our understanding of the biosynthesis and photosensitive properties of this unique H2 -activating natural complex.
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Affiliation(s)
- Sebastian Schaupp
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Straße 10, 35043, Marburg, Germany
| | | | - Nicole Paczia
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Straße 10, 35043, Marburg, Germany
| | - Kenichi Ataka
- Department of Physics, Freie Universität Berlin, Arnimallee 14, 14195 Berlin (Germany)
| | - Seigo Shima
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Straße 10, 35043, Marburg, Germany
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2
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Wang W, Tachibana R, Zou Z, Chen D, Zhang X, Lau K, Pojer F, Ward TR, Hu X. Manganese Transfer Hydrogenases Based on the Biotin-Streptavidin Technology. Angew Chem Int Ed Engl 2023; 62:e202311896. [PMID: 37671593 DOI: 10.1002/anie.202311896] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Revised: 09/03/2023] [Accepted: 09/06/2023] [Indexed: 09/07/2023]
Abstract
Artificial (transfer) hydrogenases have been developed for organic synthesis, but they rely on precious metals. Native hydrogenases use Earth-abundant metals, but these cannot be applied for organic synthesis due, in part, to their substrate specificity. Herein, we report the design and development of manganese transfer hydrogenases based on the biotin-streptavidin technology. By incorporating bio-mimetic Mn(I) complexes into the binding cavity of streptavidin, and through chemo-genetic optimization, we have obtained artificial enzymes that hydrogenate ketones with nearly quantitative yield and up to 98 % enantiomeric excess (ee). These enzymes exhibit broad substrate scope and high functional-group tolerance. According to QM/MM calculations and X-ray crystallography, the S112Y mutation, combined with the appropriate chemical structure of the Mn cofactor plays a critical role in the reactivity and enantioselectivity of the artificial metalloenzyme (ArMs). Our work highlights the potential of ArMs incorporating base-meal cofactors for enantioselective organic synthesis.
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Affiliation(s)
- Weijin Wang
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne ISIC-LSCI, BCH 3305, 1015, Lausanne, Switzerland
| | - Ryo Tachibana
- Department of Chemistry, University of Basel, Mattenstrasse 22, 4002, Basel, Switzerland
| | - Zhi Zou
- Department of Chemistry, University of Basel, Mattenstrasse 22, 4002, Basel, Switzerland
| | - Dongping Chen
- Department of Chemistry, University of Basel, Mattenstrasse 22, 4002, Basel, Switzerland
| | - Xiang Zhang
- Department of Chemistry, University of Basel, Mattenstrasse 22, 4002, Basel, Switzerland
| | - Kelvin Lau
- Protein Production and Structure Core Facility (PTPSP), School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Florence Pojer
- Protein Production and Structure Core Facility (PTPSP), School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Thomas R Ward
- Department of Chemistry, University of Basel, Mattenstrasse 22, 4002, Basel, Switzerland
- National Center of Competence in Research (NCCR) Catalysis, EPFL, 1015, Lausanne, Switzerland
| | - Xile Hu
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne ISIC-LSCI, BCH 3305, 1015, Lausanne, Switzerland
- National Center of Competence in Research (NCCR) Catalysis, EPFL, 1015, Lausanne, Switzerland
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3
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Liu F, He L, Dong S, Xuan J, Cui Q, Feng Y. Artificial Small Molecules as Cofactors and Biomacromolecular Building Blocks in Synthetic Biology: Design, Synthesis, Applications, and Challenges. Molecules 2023; 28:5850. [PMID: 37570818 PMCID: PMC10421094 DOI: 10.3390/molecules28155850] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 07/25/2023] [Accepted: 07/28/2023] [Indexed: 08/13/2023] Open
Abstract
Enzymes are essential catalysts for various chemical reactions in biological systems and often rely on metal ions or cofactors to stabilize their structure or perform functions. Improving enzyme performance has always been an important direction of protein engineering. In recent years, various artificial small molecules have been successfully used in enzyme engineering. The types of enzymatic reactions and metabolic pathways in cells can be expanded by the incorporation of these artificial small molecules either as cofactors or as building blocks of proteins and nucleic acids, which greatly promotes the development and application of biotechnology. In this review, we summarized research on artificial small molecules including biological metal cluster mimics, coenzyme analogs (mNADs), designer cofactors, non-natural nucleotides (XNAs), and non-natural amino acids (nnAAs), focusing on their design, synthesis, and applications as well as the current challenges in synthetic biology.
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Affiliation(s)
- Fenghua Liu
- CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 189 Songling Road, Qingdao 266101, China
- Shandong Energy Institute, 189 Songling Road, Qingdao 266101, China
- Qingdao New Energy Shandong Laboratory, 189 Songling Road, Qingdao 266101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Lingling He
- Department of Bioscience and Bioengineering, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing 100083, China
| | - Sheng Dong
- CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 189 Songling Road, Qingdao 266101, China
- Shandong Energy Institute, 189 Songling Road, Qingdao 266101, China
- Qingdao New Energy Shandong Laboratory, 189 Songling Road, Qingdao 266101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jinsong Xuan
- Department of Bioscience and Bioengineering, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing 100083, China
| | - Qiu Cui
- CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 189 Songling Road, Qingdao 266101, China
- Shandong Energy Institute, 189 Songling Road, Qingdao 266101, China
- Qingdao New Energy Shandong Laboratory, 189 Songling Road, Qingdao 266101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yingang Feng
- CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Synthetic Biology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 189 Songling Road, Qingdao 266101, China
- Shandong Energy Institute, 189 Songling Road, Qingdao 266101, China
- Qingdao New Energy Shandong Laboratory, 189 Songling Road, Qingdao 266101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
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4
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Hu H, Li Y, Li Y, Sun Y, Li Y. Carbamoyl Manganese Complexes for Epoxidation of Alkenes and Cycloaddition of Epoxides to Carbon Dioxide. J Catal 2023. [DOI: 10.1016/j.jcat.2023.02.016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/27/2023]
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5
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Xuan J, He L, Wen W, Feng Y. Hydrogenase and Nitrogenase: Key Catalysts in Biohydrogen Production. Molecules 2023; 28:molecules28031392. [PMID: 36771068 PMCID: PMC9919214 DOI: 10.3390/molecules28031392] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 01/28/2023] [Accepted: 01/29/2023] [Indexed: 02/05/2023] Open
Abstract
Hydrogen with high energy content is considered to be a promising alternative clean energy source. Biohydrogen production through microbes provides a renewable and immense hydrogen supply by utilizing raw materials such as inexhaustible natural sunlight, water, and even organic waste, which is supposed to solve the two problems of "energy supply and environment protection" at the same time. Hydrogenases and nitrogenases are two classes of key enzymes involved in biohydrogen production and can be applied under different biological conditions. Both the research on enzymatic catalytic mechanisms and the innovations of enzymatic techniques are important and necessary for the application of biohydrogen production. In this review, we introduce the enzymatic structures related to biohydrogen production, summarize recent enzymatic and genetic engineering works to enhance hydrogen production, and describe the chemical efforts of novel synthetic artificial enzymes inspired by the two biocatalysts. Continual studies on the two types of enzymes in the future will further improve the efficiency of biohydrogen production and contribute to the economic feasibility of biohydrogen as an energy source.
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Affiliation(s)
- Jinsong Xuan
- Department of Bioscience and Bioengineering, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing 100083, China
- Correspondence: (J.X.); (Y.F.)
| | - Lingling He
- Department of Bioscience and Bioengineering, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing 100083, China
| | - Wen Wen
- Department of Bioscience and Bioengineering, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing 100083, China
| | - Yingang Feng
- CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Synthetic Biology, Shandong Engineering Laboratory of Single Cell Oil, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 189 Songling Road, Qingdao 266101, China
- Shandong Energy Institute, 189 Songling Road, Qingdao 266101, China
- Qingdao New Energy Shandong Laboratory, 189 Songling Road, Qingdao 266101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Correspondence: (J.X.); (Y.F.)
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6
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Stepwise assembly of the active site of [NiFe]-hydrogenase. Nat Chem Biol 2023; 19:498-506. [PMID: 36702959 DOI: 10.1038/s41589-022-01226-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2022] [Accepted: 11/16/2022] [Indexed: 01/27/2023]
Abstract
[NiFe]-hydrogenases are biotechnologically relevant enzymes catalyzing the reversible splitting of H2 into 2e- and 2H+ under ambient conditions. Catalysis takes place at the heterobimetallic NiFe(CN)2(CO) center, whose multistep biosynthesis involves careful handling of two transition metals as well as potentially harmful CO and CN- molecules. Here, we investigated the sequential assembly of the [NiFe] cofactor, previously based on primarily indirect evidence, using four different purified maturation intermediates of the catalytic subunit, HoxG, of the O2-tolerant membrane-bound hydrogenase from Cupriavidus necator. These included the cofactor-free apo-HoxG, a nickel-free version carrying only the Fe(CN)2(CO) fragment, a precursor that contained all cofactor components but remained redox inactive and the fully mature HoxG. Through biochemical analyses combined with comprehensive spectroscopic investigation using infrared, electronic paramagnetic resonance, Mössbauer, X-ray absorption and nuclear resonance vibrational spectroscopies, we obtained detailed insight into the sophisticated maturation process of [NiFe]-hydrogenase.
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7
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Wang C, Lai Z, Huang G, Pan H. Current State of [Fe]‐Hydrogenase and Its Biomimetic Models. Chemistry 2022; 28:e202201499. [DOI: 10.1002/chem.202201499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2022] [Indexed: 11/11/2022]
Affiliation(s)
- Chao Wang
- Chemistry and Biomedicine Innovation Center (ChemBIC) State Key Laboratory of Coordination Chemistry School of Chemistry and Chemical Engineering Nanjing University 163 Xianlin Avenue 210023 Nanjing P. R. China
| | - Zhenli Lai
- Key Laboratory of Development and Application of Rural Renewable Energy Biogas Institute of Ministry of Agriculture and Rural Affairs Section 4–13, Renmin South Road 610041 Chengdu P. R. China
| | - Gangfeng Huang
- Key Laboratory of Development and Application of Rural Renewable Energy Biogas Institute of Ministry of Agriculture and Rural Affairs Section 4–13, Renmin South Road 610041 Chengdu P. R. China
| | - Hui‐Jie Pan
- Chemistry and Biomedicine Innovation Center (ChemBIC) State Key Laboratory of Coordination Chemistry School of Chemistry and Chemical Engineering Nanjing University 163 Xianlin Avenue 210023 Nanjing P. R. China
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8
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Das K, Waiba S, Jana A, Maji B. Manganese-catalyzed hydrogenation, dehydrogenation, and hydroelementation reactions. Chem Soc Rev 2022; 51:4386-4464. [PMID: 35583150 DOI: 10.1039/d2cs00093h] [Citation(s) in RCA: 44] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
The emerging field of organometallic catalysis has shifted towards research on Earth-abundant transition metals due to their ready availability, economic advantage, and novel properties. In this case, manganese, the third most abundant transition-metal in the Earth's crust, has emerged as one of the leading competitors. Accordingly, a large number of molecularly-defined Mn-complexes has been synthesized and employed for hydrogenation, dehydrogenation, and hydroelementation reactions. In this regard, catalyst design is based on three pillars, namely, metal-ligand bifunctionality, ligand hemilability, and redox activity. Indeed, the developed catalysts not only differ in the number of chelating atoms they possess but also their working principles, thereby leading to different turnover numbers for product molecules. Hence, the critical assessment of molecularly defined manganese catalysts in terms of chelating atoms, reaction conditions, mechanistic pathway, and product turnover number is significant. Herein, we analyze manganese complexes for their catalytic activity, versatility to allow multiple transformations and their routes to convert substrates to target molecules. This article will also be helpful to get significant insight into ligand design, thereby aiding catalysis design.
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Affiliation(s)
- Kuhali Das
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur, 741246, India.
| | - Satyadeep Waiba
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur, 741246, India.
| | - Akash Jana
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur, 741246, India.
| | - Biplab Maji
- Department of Chemical Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur, 741246, India.
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9
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Song LC, Zhang ZQ, Liu BB, Wang YP, Chen S. Biomimetic models of [Fe]-hydrogenase featuring a 2-acylphenylthiomethyl-6-R-pyridine (R = H or OMe) ligand. Chem Commun (Camb) 2022; 58:12168-12171. [DOI: 10.1039/d2cc04523k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A new flexible pyridine ligand (FPL)-based method is developed, by which two novel biomimetic models of [Fe]-H2ase are prepared and their enzyme-like H2/D2 activation functions are studied.
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Affiliation(s)
- Li-Cheng Song
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, Nankai University, Tianjin, 300071, China
| | - Zhen-Qing Zhang
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, Nankai University, Tianjin, 300071, China
| | - Bei-Bei Liu
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, Nankai University, Tianjin, 300071, China
| | - Yin-Peng Wang
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, Nankai University, Tianjin, 300071, China
| | - Shuai Chen
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, Nankai University, Tianjin, 300071, China
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10
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Goralski ST, Rose MJ. Emerging artificial metalloenzymes for asymmetric hydrogenation reactions. Curr Opin Chem Biol 2021; 66:102096. [PMID: 34879303 DOI: 10.1016/j.cbpa.2021.102096] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Revised: 09/24/2021] [Accepted: 10/04/2021] [Indexed: 01/26/2023]
Abstract
Artificial metalloenzymes (ArMs) utilize the best properties of homogenous transition metal catalysts and naturally occurring proteins. While synthetic metal complexes offer high tunability and broad-scope reactivity with a variety of substrates, enzymes further endow these complexes with enhanced aqueous stability and stereoselectivity. For these reasons, dozens of ArMs have been designed to perform catalytic asymmetric hydrogenation reactions, and hydrogenase ArMs are, in fact, the oldest class of ArMs. Herein, we report recent advances in the design of hydrogenase ArMs, including (i) the modification of natural [Fe]-hydrogenase by insertion of artificial metallocofactors, (ii) design of a novel ArM system from the tractable and inexpensive protein β-lactoglobulin to afford a high-performing transfer hydrogenase, and (iii) the design of chimeric streptavidin scaffolds that drastically alter the secondary coordination sphere of previously reported streptavidin/biotin transfer hydrogenase ArMs.
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Affiliation(s)
- Sean T Goralski
- Department of Chemistry, University of Texas at Austin, 105 E. 24th St. Stop A5300, Austin, TX, 78712, USA
| | - Michael J Rose
- Department of Chemistry, University of Texas at Austin, 105 E. 24th St. Stop A5300, Austin, TX, 78712, USA.
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11
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Kerns SA, Seo J, Lynch VM, Shearer J, Goralski ST, Sullivan ER, Rose MJ. Scaffold-based [Fe]-hydrogenase model: H 2 activation initiates Fe(0)-hydride extrusion and non-biomimetic hydride transfer. Chem Sci 2021; 12:12838-12846. [PMID: 34703571 PMCID: PMC8494020 DOI: 10.1039/d0sc03154b] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Accepted: 09/01/2021] [Indexed: 11/21/2022] Open
Abstract
We report the synthesis and reactivity of a model of [Fe]-hydrogenase derived from an anthracene-based scaffold that includes the endogenous, organometallic acyl(methylene) donor. In comparison to other non-scaffolded acyl-containing complexes, the complex described herein retains molecularly well-defined chemistry upon addition of multiple equivalents of exogenous base. Clean deprotonation of the acyl(methylene) C–H bond with a phenolate base results in the formation of a dimeric motif that contains a new Fe–C(methine) bond resulting from coordination of the deprotonated methylene unit to an adjacent iron center. This effective second carbanion in the ligand framework was demonstrated to drive heterolytic H2 activation across the Fe(ii) center. However, this process results in reductive elimination and liberation of the ligand to extrude a lower-valent Fe–carbonyl complex. Through a series of isotopic labelling experiments, structural characterization (XRD, XAS), and spectroscopic characterization (IR, NMR, EXAFS), a mechanistic pathway is presented for H2/hydride-induced loss of the organometallic acyl unit (i.e. pyCH2–C
Created by potrace 1.16, written by Peter Selinger 2001-2019
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O → pyCH3+C
Created by potrace 1.16, written by Peter Selinger 2001-2019
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O). The known reduced hydride species [HFe(CO)4]− and [HFe3(CO)11]− have been observed as products by 1H/2H NMR and IR spectroscopies, as well as independent syntheses of PNP[HFe(CO)4]. The former species (i.e. [HFe(CO)4]−) is deduced to be the actual hydride transfer agent in the hydride transfer reaction (nominally catalyzed by the title compound) to a biomimetic substrate ([TolIm](BArF) = fluorinated imidazolium as hydride acceptor). This work provides mechanistic insight into the reasons for lack of functional biomimetic behavior (hydride transfer) in acyl(methylene)pyridine based mimics of [Fe]-hydrogenase. We report the synthesis and reactivity of a model of [Fe]-hydrogenase derived from an anthracene-based scaffold that includes the endogenous, organometallic acyl(methylene) donor.![]()
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Affiliation(s)
- Spencer A Kerns
- Department of Chemistry, The University of Texas at Austin Austin Texas 78712 USA
| | - Junhyeok Seo
- Department of Chemistry, Gwangju Institute of Science and Technology Gwangju 61005 Republic of Korea
| | - Vincent M Lynch
- Department of Chemistry, The University of Texas at Austin Austin Texas 78712 USA
| | - Jason Shearer
- Department of Chemistry, Trinity University One Trinity Place San Antonio Texas 78212 USA
| | - Sean T Goralski
- Department of Chemistry, The University of Texas at Austin Austin Texas 78712 USA
| | - Eileen R Sullivan
- Department of Chemistry, The University of Texas at Austin Austin Texas 78712 USA
| | - Michael J Rose
- Department of Chemistry, The University of Texas at Austin Austin Texas 78712 USA
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12
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Wang CH, DeBeer S. Structure, reactivity, and spectroscopy of nitrogenase-related synthetic and biological clusters. Chem Soc Rev 2021; 50:8743-8761. [PMID: 34159992 DOI: 10.1039/d1cs00381j] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
The reduction of dinitrogen (N2) is essential for its incorporation into nucleic acids and amino acids, which are vital to life on earth. Nitrogenases convert atmospheric dinitrogen to two ammonia molecules (NH3) under ambient conditions. The catalytic active sites of these enzymes (known as FeM-cofactor clusters, where M = Mo, V, Fe) are the sites of N2 binding and activation and have been a source of great interest for chemists for decades. In this review, recent studies on nitrogenase-related synthetic molecular complexes and biological clusters are discussed, with a focus on their reactivity and spectroscopic characterization. The molecular models that are discussed span from simple mononuclear iron complexes to multinuclear iron complexes and heterometallic iron complexes. In addition, recent work on the extracted biological cofactors is discussed. An emphasis is placed on how these studies have contributed towards our understanding of the electronic structure and mechanism of nitrogenases.
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Affiliation(s)
- Chen-Hao Wang
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany.
| | - Serena DeBeer
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany.
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13
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Pan H, Huang G, Wodrich MD, Tirani FF, Ataka K, Shima S, Hu X. Diversifying Metal–Ligand Cooperative Catalysis in Semi‐Synthetic [Mn]‐Hydrogenases. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202100443] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Hui‐Jie Pan
- Laboratory of Inorganic Synthesis and Catalysis Institute of Chemical Sciences and Engineering Ecole Polytechnique Fédérale de Lausanne (EPFL) ISIC-LSCI, BCH 3305 1015 Lausanne Switzerland
| | - Gangfeng Huang
- Max Planck Institute for Terrestrial Microbiology Karl-von-Frisch-Straße 10 35043 Marburg Germany
| | - Matthew D. Wodrich
- Laboratory of Inorganic Synthesis and Catalysis Institute of Chemical Sciences and Engineering Ecole Polytechnique Fédérale de Lausanne (EPFL) ISIC-LSCI, BCH 3305 1015 Lausanne Switzerland
- Laboratory for Computational Molecular Design Institute of Chemical Science and Engineering Ecole Polytechnique Fédérale de Lausanne (EPFL) 1015 Lausanne Switzerland
| | - Farzaneh Fadaei Tirani
- Laboratory of Inorganic Synthesis and Catalysis Institute of Chemical Sciences and Engineering Ecole Polytechnique Fédérale de Lausanne (EPFL) ISIC-LSCI, BCH 3305 1015 Lausanne Switzerland
| | - Kenichi Ataka
- Department of Physics Freie Universität Berlin Arnimallee 14 14195 Berlin Germany
| | - Seigo Shima
- Max Planck Institute for Terrestrial Microbiology Karl-von-Frisch-Straße 10 35043 Marburg Germany
| | - Xile Hu
- Laboratory of Inorganic Synthesis and Catalysis Institute of Chemical Sciences and Engineering Ecole Polytechnique Fédérale de Lausanne (EPFL) ISIC-LSCI, BCH 3305 1015 Lausanne Switzerland
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14
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Pan H, Huang G, Wodrich MD, Tirani FF, Ataka K, Shima S, Hu X. Diversifying Metal-Ligand Cooperative Catalysis in Semi-Synthetic [Mn]-Hydrogenases. Angew Chem Int Ed Engl 2021; 60:13350-13357. [PMID: 33635597 PMCID: PMC8251902 DOI: 10.1002/anie.202100443] [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: 01/11/2021] [Revised: 02/19/2021] [Indexed: 12/25/2022]
Abstract
The reconstitution of [Mn]-hydrogenases using a series of MnI complexes is described. These complexes are designed to have an internal base or pro-base that may participate in metal-ligand cooperative catalysis or have no internal base or pro-base. Only MnI complexes with an internal base or pro-base are active for H2 activation; only [Mn]-hydrogenases incorporating such complexes are active for hydrogenase reactions. These results confirm the essential role of metal-ligand cooperation for H2 activation by the MnI complexes alone and by [Mn]-hydrogenases. Owing to the nature and position of the internal base or pro-base, the mode of metal-ligand cooperation in two active [Mn]-hydrogenases is different from that of the native [Fe]-hydrogenase. One [Mn]-hydrogenase has the highest specific activity of semi-synthetic [Mn]- and [Fe]-hydrogenases. This work demonstrates reconstitution of active artificial hydrogenases using synthetic complexes differing greatly from the native active site.
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Affiliation(s)
- Hui‐Jie Pan
- Laboratory of Inorganic Synthesis and CatalysisInstitute of Chemical Sciences and EngineeringEcole Polytechnique Fédérale de Lausanne (EPFL)ISIC-LSCI, BCH 33051015LausanneSwitzerland
| | - Gangfeng Huang
- Max Planck Institute for Terrestrial MicrobiologyKarl-von-Frisch-Straße 1035043MarburgGermany
| | - Matthew D. Wodrich
- Laboratory of Inorganic Synthesis and CatalysisInstitute of Chemical Sciences and EngineeringEcole Polytechnique Fédérale de Lausanne (EPFL)ISIC-LSCI, BCH 33051015LausanneSwitzerland
- Laboratory for Computational Molecular DesignInstitute of Chemical Science and EngineeringEcole Polytechnique Fédérale de Lausanne (EPFL)1015LausanneSwitzerland
| | - Farzaneh Fadaei Tirani
- Laboratory of Inorganic Synthesis and CatalysisInstitute of Chemical Sciences and EngineeringEcole Polytechnique Fédérale de Lausanne (EPFL)ISIC-LSCI, BCH 33051015LausanneSwitzerland
| | - Kenichi Ataka
- Department of PhysicsFreie Universität BerlinArnimallee 1414195BerlinGermany
| | - Seigo Shima
- Max Planck Institute for Terrestrial MicrobiologyKarl-von-Frisch-Straße 1035043MarburgGermany
| | - Xile Hu
- Laboratory of Inorganic Synthesis and CatalysisInstitute of Chemical Sciences and EngineeringEcole Polytechnique Fédérale de Lausanne (EPFL)ISIC-LSCI, BCH 33051015LausanneSwitzerland
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15
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Fan Q, Caserta G, Lorent C, Lenz O, Neubauer P, Gimpel M. Optimization of Culture Conditions for Oxygen-Tolerant Regulatory [NiFe]-Hydrogenase Production from Ralstonia eutropha H16 in Escherichia coli. Microorganisms 2021; 9:1195. [PMID: 34073092 PMCID: PMC8229454 DOI: 10.3390/microorganisms9061195] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 05/21/2021] [Accepted: 05/28/2021] [Indexed: 11/16/2022] Open
Abstract
Hydrogenases are abundant metalloenzymes that catalyze the reversible conversion of molecular H2 into protons and electrons. Important achievements have been made over the past two decades in the understanding of these highly complex enzymes. However, most hydrogenases have low production yields requiring many efforts and high costs for cultivation limiting their investigation. Heterologous production of these hydrogenases in a robust and genetically tractable expression host is an attractive strategy to make these enzymes more accessible. In the present study, we chose the oxygen-tolerant H2-sensing regulatory [NiFe]-hydrogenase (RH) from Ralstonia eutropha H16 owing to its relatively simple architecture compared to other [NiFe]-hydrogenases as a model to develop a heterologous hydrogenase production system in Escherichia coli. Using screening experiments in 24 deep-well plates with 3 mL working volume, we investigated relevant cultivation parameters, including inducer concentration, expression temperature, and expression time. The RH yield could be increased from 14 mg/L up to >250 mg/L by switching from a batch to an EnPresso B-based fed-batch like cultivation in shake flasks. This yield exceeds the amount of RH purified from the homologous host R. eutropha by several 100-fold. Additionally, we report the successful overproduction of the RH single subunits HoxB and HoxC, suitable for biochemical and spectroscopic investigations. Even though both RH and HoxC proteins were isolated in an inactive, cofactor free apo-form, the proposed strategy may powerfully accelerate bioprocess development and structural studies for both basic research and applied studies. These results are discussed in the context of the regulation mechanisms governing the assembly of large and small hydrogenase subunits.
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Affiliation(s)
- Qin Fan
- Institute of Biotechnology, Technische Universität Berlin, Chair of Bioprocess Engineering, Ackerstraße 76, D-13355 Berlin, Germany; (Q.F.); (P.N.)
| | - Giorgio Caserta
- Department of Chemistry, Technische Universität Berlin, Straße des 17. Juni 135, D-10623 Berlin, Germany; (G.C.); (C.L.); (O.L.)
| | - Christian Lorent
- Department of Chemistry, Technische Universität Berlin, Straße des 17. Juni 135, D-10623 Berlin, Germany; (G.C.); (C.L.); (O.L.)
| | - Oliver Lenz
- Department of Chemistry, Technische Universität Berlin, Straße des 17. Juni 135, D-10623 Berlin, Germany; (G.C.); (C.L.); (O.L.)
| | - Peter Neubauer
- Institute of Biotechnology, Technische Universität Berlin, Chair of Bioprocess Engineering, Ackerstraße 76, D-13355 Berlin, Germany; (Q.F.); (P.N.)
| | - Matthias Gimpel
- Institute of Biotechnology, Technische Universität Berlin, Chair of Bioprocess Engineering, Ackerstraße 76, D-13355 Berlin, Germany; (Q.F.); (P.N.)
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16
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Man Ngo F, Tse ECM. Bioinorganic Platforms for Sensing, Biomimicry, and Energy Catalysis. CHEM LETT 2021. [DOI: 10.1246/cl.200875] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Fung Man Ngo
- Department of Chemistry, CAS-HKU Joint Laboratory of Metallomics on Health and Environment, University of Hong Kong, Hong Kong SAR, P. R. China
- Advanced Functional Materials Laboratory, HKU Zhejiang Institute of Research and Innovation, Zhejiang 311305, P. R. China
| | - Edmund C. M. Tse
- Department of Chemistry, CAS-HKU Joint Laboratory of Metallomics on Health and Environment, University of Hong Kong, Hong Kong SAR, P. R. China
- Advanced Functional Materials Laboratory, HKU Zhejiang Institute of Research and Innovation, Zhejiang 311305, P. R. China
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17
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Abstract
The role of deuterium in disentangling key steps of the mechanisms of H2 activation by mimics of hydrogenases is presented. These studies have allowed to a better understanding of the mode of action of the natural enzymes and their mimics.
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Affiliation(s)
- Mar Gómez-Gallego
- Departamento de Química Orgánica I and Center for Innovation in Advanced Chemistry (ORFEO-CINQA). Facultad de Química
- Universidad Complutense
- 28040-Madrid
- Spain
| | - Miguel A. Sierra
- Departamento de Química Orgánica I and Center for Innovation in Advanced Chemistry (ORFEO-CINQA). Facultad de Química
- Universidad Complutense
- 28040-Madrid
- Spain
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18
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Barik CK, Ganguly R, Kwan JM, Lam Z, Wong SY, Leong WK. Ruthenacyclic carbamoyl mimics of the [Fe]-hydrogenase active site: Derivatisation at the 4-position of the pyridinyl ring. Polyhedron 2021. [DOI: 10.1016/j.poly.2020.114890] [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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19
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Crystal Structures of [Fe]-Hydrogenase from Methanolacinia paynteri Suggest a Path of the FeGP-Cofactor Incorporation Process. INORGANICS 2020. [DOI: 10.3390/inorganics8090050] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
[Fe]-hydrogenase (Hmd) catalyzes the reversible heterolytic cleavage of H2, and hydride transfer to methenyl-tetrahydromethanopterin (methenyl-H4MPT+). The iron-guanylylpyridinol (FeGP) cofactor, the prosthetic group of Hmd, can be extracted from the holoenzyme and inserted back into the protein. Here, we report the crystal structure of an asymmetric homodimer of Hmd from Methanolacinia paynteri (pHmd), which was composed of one monomer in the open conformation with the FeGP cofactor (holo-form) and a second monomer in the closed conformation without the cofactor (apo-form). In addition, we report the symmetric pHmd-homodimer structure in complex with guanosine monophosphate (GMP) or guanylylpyridinol (GP), in which each ligand was bound to the protein, where the GMP moiety of the FeGP-cofactor is bound in the holo-form. Binding of GMP and GP modified the local protein structure but did not induce the open conformation. The amino-group of the Lys150 appears to interact with the 2-hydroxy group of pyridinol ring in the pHmd–GP complex, which is not the case in the structure of the pHmd–FeGP complex. Lys150Ala mutation decreased the reconstitution rate of the active enzyme with the FeGP cofactor at the physiological pH. These results suggest that Lys150 might be involved in the FeGP-cofactor incorporation into the Hmd protein in vivo.
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20
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Barik CK, Chan XQ, Huynh HV, Li Y, Ganguly R, Leong WK. Ruthenium‐Based Structural Mimics of the Cofactor of [Fe]‐Hydrogenase: Replacement of the Acyl Moiety with an N‐Heterocyclic Carbene. ChemistrySelect 2020. [DOI: 10.1002/slct.202002889] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Chandan Kr Barik
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link Singapore
| | - Xian Qi Chan
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link Singapore
| | - Han Vinh Huynh
- Department of Chemistry National University of Singapore 3 Science Drive 3 Singapore 117543
| | - Yongxin Li
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link Singapore
| | - Rakesh Ganguly
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link Singapore
- Shiv Nadar University NH-91 Tehsil Dadri Gautam Buddha Nagar Uttar Pradesh 201314 India
| | - Weng Kee Leong
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link Singapore
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21
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Shima S, Huang G, Wagner T, Ermler U. Structural Basis of Hydrogenotrophic Methanogenesis. Annu Rev Microbiol 2020; 74:713-733. [DOI: 10.1146/annurev-micro-011720-122807] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Most methanogenic archaea use the rudimentary hydrogenotrophic pathway—from CO2and H2to methane—as the terminal step of microbial biomass degradation in anoxic habitats. The barely exergonic process that just conserves sufficient energy for a modest lifestyle involves chemically challenging reactions catalyzed by complex enzyme machineries with unique metal-containing cofactors. The basic strategy of the methanogenic energy metabolism is to covalently bind C1species to the C1carriers methanofuran, tetrahydromethanopterin, and coenzyme M at different oxidation states. The four reduction reactions from CO2to methane involve one molybdopterin-based two-electron reduction, two coenzyme F420–based hydride transfers, and one coenzyme F430–based radical process. For energy conservation, one ion-gradient-forming methyl transfer reaction is sufficient, albeit supported by a sophisticated energy-coupling process termed flavin-based electron bifurcation for driving the endergonic CO2reduction and fixation. Here, we review the knowledge about the structure-based catalytic mechanism of each enzyme of hydrogenotrophic methanogenesis.
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Affiliation(s)
- Seigo Shima
- Max Planck Institute for Terrestrial Microbiology, 35043 Marburg, Germany
| | - Gangfeng Huang
- Max Planck Institute for Terrestrial Microbiology, 35043 Marburg, Germany
| | - Tristan Wagner
- Max Planck Institute for Marine Microbiology, 28359 Bremen, Germany
| | - Ulrich Ermler
- Max Planck Institute of Biophysics, 60438 Frankfurt am Main, Germany
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22
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Kerns SA, Rose MJ. Scaffold-Based Functional Models of [Fe]-Hydrogenase (Hmd): Building the Bridge between Biological Structure and Molecular Function. Acc Chem Res 2020; 53:1637-1647. [PMID: 32786339 DOI: 10.1021/acs.accounts.0c00315] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The well-known dinuclear [FeFe] and [NiFe] hydrogenase enzymes are redox-based proton reduction and H2 oxidation catalysts. In comparison, the structural and functional aspects of the mononuclear nonredox hydrogenase, known as [Fe]-hydrogenase or Hmd, have been less explored because of the relatively recent crystallographic elucidation of the enzyme active site. Additionally, the synthetic challenges posed by the highly substituted and asymmetric coordination environment of the iron guanylylpyridinol (FeGP) cofactor have hampered functional biomimetic modeling studies to a large extent. The active site contains an octahedral low-spin Fe(II) center with the following coordination motifs: a bidentate acyl-pyridone moiety (C,N) and cysteinyl-S in a facial arrangement; two cis carbonyl ligands; and a H2O/H2 binding site. In [Fe]-hydrogenase, heterolytic H2 activation putatively by the pendant pyridone/pyridonate-O base serving as a proton acceptor. Following H2 cleavage, an intermediate Fe-H species is thought to stereoselectively transfer a hydride to the substrate methenyl-H4MPT+, thus forming methylene-H4MPT. In the past decade, chemists, inspired by the elegant organometallic chemistry inherent to the FeGP cofactor, have synthesized a number of faithful structural models. However, functional systems are still relatively limited and often rely on abiological ligands or metal centers that obfuscate a direct correlation to nature's design.Our group has developed a bioinspired suite of synthetic analogues of Hmd to better understand the effects of structure on the stability and functionality of the Hmd active site, with a special emphasis on using a scaffold-based ligand design. This systematic approach has contributed to a deeper understanding of the unique ligand array of [Fe]-hydrogenase in nature and has ultimately resulted in the first functional synthetic models without the aid of abiological ligands. This Account reviews the reactivity of the functional anthracene-scaffolded synthetic models developed by our group in the context of current mechanistic understanding drawn from both protein crystallography and computational studies. Furthermore, we introduce a novel thermodynamic framework to place the reactivity of our model systems in context and provide an outlook on the future study of [Fe]-hydrogenase synthetic models through both a structural and functional lens.
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Affiliation(s)
- Spencer A. Kerns
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Michael J. Rose
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
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23
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Song L, Liu B, Xu K. Synthetic and Structural Studies on a New Type of [Fe]‐Hydrogenase Mimics Each Containing One Hantzsch Ester Moiety. Eur J Inorg Chem 2020. [DOI: 10.1002/ejic.202000523] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Li‐Cheng Song
- Department of Chemistry State Key Laboratory of Elemento‐Organic Chemistry Nankai University 300071 Tianjin China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin) 300072 Tianjin China
| | - Bei‐Bei Liu
- Department of Chemistry State Key Laboratory of Elemento‐Organic Chemistry Nankai University 300071 Tianjin China
| | - Kai‐Kai Xu
- Department of Chemistry State Key Laboratory of Elemento‐Organic Chemistry Nankai University 300071 Tianjin China
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24
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Himiyama T, Okamoto Y. Artificial Metalloenzymes: From Selective Chemical Transformations to Biochemical Applications. Molecules 2020; 25:molecules25132989. [PMID: 32629938 PMCID: PMC7411666 DOI: 10.3390/molecules25132989] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 06/26/2020] [Accepted: 06/27/2020] [Indexed: 11/16/2022] Open
Abstract
Artificial metalloenzymes (ArMs) comprise a synthetic metal complex in a protein scaffold. ArMs display performances combining those of both homogeneous catalysts and biocatalysts. Specifically, ArMs selectively catalyze non-natural reactions and reactions inspired by nature in water under mild conditions. In the past few years, the construction of ArMs that possess a genetically incorporated unnatural amino acid and the directed evolution of ArMs have become of great interest in the field. Additionally, biochemical applications of ArMs have steadily increased, owing to the fact that compartmentalization within a protein scaffold allows the synthetic metal complex to remain functional in a sea of inactivating biomolecules. In this review, we present updates on: 1) the newly reported ArMs, according to their type of reaction, and 2) the unique biochemical applications of ArMs, including chemoenzymatic cascades and intracellular/in vivo catalysis. We believe that ArMs have great potential as catalysts for organic synthesis and as chemical biology tools for pharmaceutical applications.
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Affiliation(s)
- Tomoki Himiyama
- National Institute of Advanced Industrial Science and Technology, Ikeda, Osaka 563-8577, Japan;
- DBT-AIST International Laboratory for Advanced Biomedicine (DAILAB), Ikeda, Osaka 563-8577, Japan
| | - Yasunori Okamoto
- Frontier Research Institute for Interdisciplinary Sciences, Tohoku University, 6-3 Aramaki aza Aoba, Aoba-ku, Sendai 980-8578, Japan
- Correspondence: ; Tel.: +81-22-795-5264
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25
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Pan HJ, Hu X. Biomimetic Hydrogenation Catalyzed by a Manganese Model of [Fe]-Hydrogenase. Angew Chem Int Ed Engl 2020; 59:4942-4946. [PMID: 31820844 DOI: 10.1002/anie.201914377] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2019] [Indexed: 12/16/2022]
Abstract
[Fe]-hydrogenase is an efficient biological hydrogenation catalyst. Despite intense research, Fe complexes mimicking the active site of [Fe]-hydrogenase have not achieved turnovers in hydrogenation reactions. Herein, we describe the design and development of a manganese(I) mimic of [Fe]-hydrogenase. This complex exhibits the highest activity and broadest scope in catalytic hydrogenation among known mimics. Thanks to its biomimetic nature, the complex exhibits unique activity in the hydrogenation of compounds analogous to methenyl-H4 MPT+ , the natural substrate of [Fe]-hydrogenase. This activity enables asymmetric relay hydrogenation of benzoxazinones and benzoxazines, involving the hydrogenation of a chiral hydride transfer agent using our catalyst coupled to Lewis acid-catalyzed hydride transfer from this agent to the substrates.
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Affiliation(s)
- Hui-Jie Pan
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI, BCH 3305, Lausanne, 1015, Switzerland
| | - Xile Hu
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI, BCH 3305, Lausanne, 1015, Switzerland
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26
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Methanogenesis involves direct hydride transfer from H2 to an organic substrate. Nat Rev Chem 2020; 4:213-221. [PMID: 37128042 DOI: 10.1038/s41570-020-0167-2] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/27/2020] [Indexed: 01/02/2023]
Abstract
Certain anaerobic microorganisms evolved a mechanism to use H2 as a reductant in their energy metabolisms. For these purposes, the microorganisms developed H2-activating enzymes, which are aspirational catalysts in a sustainable hydrogen economy. In the case of the hydrogenotrophic pathway performed by methanogenic archaea, 8e- are extracted from 4H2 and used as reducing equivalents to convert CO2 into CH4. Under standard cultivation conditions, these archaea express [NiFe]-hydrogenases, which are Ni-dependent and Fe-dependent enzymes and heterolytically cleave H2 into 2H+ and 2e-, the latter being supplied into the central metabolism. Under Ni-limiting conditions, F420-reducing [NiFe]-hydrogenases are downregulated and their functions are predominantly taken over by an upregulated [Fe]-hydrogenase. Unique in biology, this Fe-dependent hydrogenase cleaves H2 and directly transfers H- to an imidazolium-containing substrate. [Fe]-hydrogenase activates H2 at an Fe cofactor ligated by two CO molecules, an acyl group, a pyridinol N atom and a cysteine thiolate as the central constituent. This Fe centre has inspired chemists to not only design synthetic mimics to catalytically cleave H2 in solution but also for incorporation into apo-[Fe]-hydrogenase to give semi-synthetic proteins. This Perspective describes the enzymes involved in hydrogenotrophic methanogenesis, with a focus on those performing the reduction steps. Of these, we describe [Fe]-hydrogenases in detail and cover recent progress in their synthetic modelling.
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27
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Xie ZL, Chai W, Kerns SA, Henkelman GA, Rose MJ. Bioinspired CNP Iron(II) Pincers Relevant to [Fe]-Hydrogenase (Hmd): Effect of Dicarbonyl versus Monocarbonyl Motifs in H 2 Activation and Transfer Hydrogenation. Inorg Chem 2020; 59:2548-2561. [DOI: 10.1021/acs.inorgchem.9b03476] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Zhu-Lin Xie
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Wenrui Chai
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Spencer A. Kerns
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Graeme A. Henkelman
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Michael J. Rose
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
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28
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Pan H, Hu X. Biomimetic Hydrogenation Catalyzed by a Manganese Model of [Fe]‐Hydrogenase. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201914377] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Hui‐Jie Pan
- Laboratory of Inorganic Synthesis and CatalysisInstitute of Chemical Sciences and EngineeringÉcole Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI BCH 3305 Lausanne 1015 Switzerland
| | - Xile Hu
- Laboratory of Inorganic Synthesis and CatalysisInstitute of Chemical Sciences and EngineeringÉcole Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI BCH 3305 Lausanne 1015 Switzerland
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29
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Song LC, Chen W, Zhu L, Hu FQ, Jiang KY. Synthesis, characterization, and some properties of two types of new [Fe]-H 2ase models containing a 4-phosphatopyridine or a 4-phosphatoguanosinepyridine moiety. NEW J CHEM 2020. [DOI: 10.1039/d0nj04194g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The novel [Fe]-H2ase active site framework-containing model 6 was first prepared and structurally characterized.
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Affiliation(s)
- Li-Cheng Song
- Department of Chemistry
- State Key Laboratory of Elemento-Organic Chemistry
- College of Chemistry
- Nankai University
- Tianjin 300071
| | - Wei Chen
- Department of Chemistry
- State Key Laboratory of Elemento-Organic Chemistry
- College of Chemistry
- Nankai University
- Tianjin 300071
| | - Liang Zhu
- Department of Chemistry
- State Key Laboratory of Elemento-Organic Chemistry
- College of Chemistry
- Nankai University
- Tianjin 300071
| | - Fu-Qiang Hu
- Department of Chemistry
- State Key Laboratory of Elemento-Organic Chemistry
- College of Chemistry
- Nankai University
- Tianjin 300071
| | - Kai-Yu Jiang
- Department of Chemistry
- State Key Laboratory of Elemento-Organic Chemistry
- College of Chemistry
- Nankai University
- Tianjin 300071
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30
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Song LC, Zhu L, Liu BB. A Biomimetic Model for the Active Site of [Fe]-H 2ase Featuring a 2-Methoxy-3,5-dimethyl-4-phosphato-6-acylmethylpyridine Ligand. Organometallics 2019. [DOI: 10.1021/acs.organomet.9b00635] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Li-Cheng Song
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, People’s Republic of China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin 300072, People’s Republic of China
| | - Liang Zhu
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, People’s Republic of China
| | - Bei-Bei Liu
- Department of Chemistry, State Key Laboratory of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, People’s Republic of China
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31
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Cho YI, Durgaprasad G, Rose MJ. CNS and CNP Iron(II) Mono-Iron Hydrogenase (Hmd) Mimics: Role of Deprotonated Methylene(acyl) and the trans-Acyl Site in H 2 Heterolysis. Inorg Chem 2019; 58:12689-12699. [PMID: 31497945 DOI: 10.1021/acs.inorgchem.9b01530] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report syntheses and H2 activation involving model complexes of mono-iron hydrogenase (Hmd) derived from acyl-containing pincer ligand precursors bearing thioether (CNSPre) or phosphine (CNPPre) donor sets. Both complexes feature pseudo-octahedral iron(II) dicarbonyl units. While the CNS pincer adopts the expected mer-CNS (pincer) geometry, the CNP ligand unexpectedly adopts the fac-CNP coordination geometry. Both complexes exhibit surprisingly acidic methylene C-H bond (reversibly de/protonated by a bulky phenolate), which affords a putative dearomatized pyridinate-bound intermediate. Such base treatment of Fe-CNS also results in deligation of the thioether sulfur donor, generating an open coordination site trans from the acyl unit. In contrast, Fe-CNP maintains a CO ligand trans from the acyl site both in the parent and dearomatized complexes (the -PPh2 donor is cis to acyl). The dearomatized mer-Fe-CNS was competent for H2 activation (5 atm D2(g) plus phenolate as base), which is attributed to both the basic site on the ligand framework and the open coordination site trans to the acyl donor. In contrast, the dearomatized fac-Fe-CNP was not competent for H2 activation, which is ascribed to the blocked coordination site trans from acyl (occupied by CO ligand). These results highlight the importance of both (i) the open coordination site trans to the organometallic acyl donor and (ii) a pendant base in the enzyme active site.
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Affiliation(s)
- Yae In Cho
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
| | - Gummadi Durgaprasad
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
| | - Michael J Rose
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
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32
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Zhang C, Hu B, Chen D, Xia H. Manganese(I)-Catalyzed Transfer Hydrogenation and Acceptorless Dehydrogenative Condensation: Promotional Influence of the Uncoordinated N-Heterocycle. Organometallics 2019. [DOI: 10.1021/acs.organomet.9b00475] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Chong Zhang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemical Engineering & Technology, Harbin Institute of Technology, Harbin 150001, People’s Republic of China
| | - Bowen Hu
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemical Engineering & Technology, Harbin Institute of Technology, Harbin 150001, People’s Republic of China
| | - Dafa Chen
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemical Engineering & Technology, Harbin Institute of Technology, Harbin 150001, People’s Republic of China
| | - Haiping Xia
- Shenzhen Grubbs Institute, Department of Chemistry, Southern University of Science and Technology, Shenzhen, People’s Republic of China
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33
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Barik CK, Tessensohn ME, Webster RD, Leong WK. Group VIII carbamoyl complexes as catalysts for alkyne hydrocarboxylation and electrochemical proton reduction. J Organomet Chem 2019. [DOI: 10.1016/j.jorganchem.2019.03.019] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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34
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Pan HJ, Huang G, Wodrich MD, Tirani FF, Ataka K, Shima S, Hu X. A catalytically active [Mn]-hydrogenase incorporating a non-native metal cofactor. Nat Chem 2019; 11:669-675. [PMID: 31110253 PMCID: PMC6591119 DOI: 10.1038/s41557-019-0266-1] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Accepted: 03/28/2019] [Indexed: 11/22/2022]
Abstract
Nature carefully selects specific metal ions for incorporation into the enzymes that catalyze the chemical reactions necessary for life. Hydrogenases, enzymes that activate molecular H2, exclusively utilize Ni and Fe in [NiFe]-, [FeFe]-, and [Fe]-hydrogeanses. However, other transition metals are known to activate or catalyze the production of hydrogen in synthetic systems. Here, we report the development of a biomimetic model complex of [Fe]-hydrogenase that incorporates a Mn, as opposed to a Fe, metal center. This Mn complex is able to heterolytically cleave H2 as well as catalyze hydrogenation reactions. Incorporation of the model into an apoenzyme of [Fe]-hydrogenase results in a [Mn]-hydrogenase with enhanced occupancy-normalized activity over an analogous semi-synthetic [Fe]-hydrogenase. These findings represent the first instance of a non-native metal hydrogenase showing catalytic functionality and demonstrate that hydrogenases based on a manganese active site are viable.
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Affiliation(s)
- Hui-Jie Pan
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI, Lausanne, Switzerland
| | - Gangfeng Huang
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Matthew D Wodrich
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI, Lausanne, Switzerland.,Laboratory for Computational Molecular Design, Institute of Chemical Science and Engineering, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Farzaneh Fadaei Tirani
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI, Lausanne, Switzerland
| | - Kenichi Ataka
- Department of Physics, Freie Universität Berlin, Berlin, Germany
| | - Seigo Shima
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.
| | - Xile Hu
- Laboratory of Inorganic Synthesis and Catalysis, Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne (EPFL), ISIC-LSCI, Lausanne, Switzerland.
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36
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Barik CK, Ganguly R, Li Y, Leong WK. Very strong trans effect in ruthenacyclic carbamoyl complexes leads to ligand redistribution in phosphine derivatives. J Organomet Chem 2019. [DOI: 10.1016/j.jorganchem.2019.02.022] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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37
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Watanabe T, Wagner T, Huang G, Kahnt J, Ataka K, Ermler U, Shima S. The Bacterial [Fe]-Hydrogenase Paralog HmdII Uses Tetrahydrofolate Derivatives as Substrates. Angew Chem Int Ed Engl 2019; 58:3506-3510. [PMID: 30600878 DOI: 10.1002/anie.201813465] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2018] [Indexed: 11/11/2022]
Abstract
[Fe]-hydrogenase (Hmd) catalyzes the reversible hydrogenation of methenyl-tetrahydromethanopterin (methenyl-H4 MPT+ ) with H2 . H4 MPT is a C1-carrier of methanogenic archaea. One bacterial genus, Desulfurobacterium, contains putative genes for the Hmd paralog, termed HmdII, and the HcgA-G proteins. The latter are required for the biosynthesis of the prosthetic group of Hmd, the iron-guanylylpyridinol (FeGP) cofactor. This finding is intriguing because Hmd and HmdII strictly use H4 MPT derivatives that are absent in most bacteria. We identified the presence of the FeGP cofactor in D. thermolithotrophum. The bacterial HmdII reconstituted with the FeGP cofactor catalyzed the hydrogenation of derivatives of tetrahydrofolate, the bacterial C1-carrier, albeit with low enzymatic activities. The crystal structures show how Hmd recognizes tetrahydrofolate derivatives. These findings have an impact on future biotechnology by identifying a bacterial Hmd paralog.
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Affiliation(s)
- Tomohiro Watanabe
- Microbial Protein Structure Group, Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch Straße 10, 35043, Marburg, Germany
| | - Tristan Wagner
- Microbial Protein Structure Group, Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch Straße 10, 35043, Marburg, Germany.,Current address: Microbial Metabolism group, Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359, Bremen, Germany
| | - Gangfeng Huang
- Microbial Protein Structure Group, Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch Straße 10, 35043, Marburg, Germany
| | - Jörg Kahnt
- Mass Spectrometry and Proteomics Unit, Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch Straße 10, 35043, Marburg, Germany
| | - Kenichi Ataka
- Department of Physics, Freie Universität Berlin, 14195, Berlin, Germany
| | - Ulrich Ermler
- Department of Max-Planck-Institut für Biophysik, Max-von-Laue-Straße 3, 60438, Frankfurt/Main, Germany
| | - Seigo Shima
- Microbial Protein Structure Group, Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch Straße 10, 35043, Marburg, Germany
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38
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Watanabe T, Wagner T, Huang G, Kahnt J, Ataka K, Ermler U, Shima S. The Bacterial [Fe]-Hydrogenase Paralog HmdII Uses Tetrahydrofolate Derivatives as Substrates. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201813465] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Tomohiro Watanabe
- Microbial Protein Structure Group; Max Planck Institute for Terrestrial Microbiology; Karl-von-Frisch Straße 10 35043 Marburg Germany
| | - Tristan Wagner
- Microbial Protein Structure Group; Max Planck Institute for Terrestrial Microbiology; Karl-von-Frisch Straße 10 35043 Marburg Germany
- Current address: Microbial Metabolism group; Max Planck Institute for Marine Microbiology; Celsiusstrasse 1 28359 Bremen Germany
| | - Gangfeng Huang
- Microbial Protein Structure Group; Max Planck Institute for Terrestrial Microbiology; Karl-von-Frisch Straße 10 35043 Marburg Germany
| | - Jörg Kahnt
- Mass Spectrometry and Proteomics Unit; Max Planck Institute for Terrestrial Microbiology; Karl-von-Frisch Straße 10 35043 Marburg Germany
| | - Kenichi Ataka
- Department of Physics; Freie Universität Berlin; 14195 Berlin Germany
| | - Ulrich Ermler
- Department of Max-Planck-Institut für Biophysik; Max-von-Laue-Straße 3 60438 Frankfurt/Main Germany
| | - Seigo Shima
- Microbial Protein Structure Group; Max Planck Institute for Terrestrial Microbiology; Karl-von-Frisch Straße 10 35043 Marburg Germany
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39
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New metal cofactors and recent metallocofactor insights. Curr Opin Struct Biol 2019; 59:1-8. [PMID: 30711735 DOI: 10.1016/j.sbi.2018.12.008] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2018] [Accepted: 12/20/2018] [Indexed: 11/23/2022]
Abstract
A vast array of metal cofactors are associated with the active sites of metalloenzymes. This Opinion describes the most recently discovered metal cofactor, a nickel-pincer nucleotide (NPN) coenzyme that is covalently tethered to lactate racemase from Lactobacillus plantarum. The enzymatic function of the NPN cofactor and its pathway for biosynthesis are reviewed. Furthermore, insights are summarized from recent advances involving other selected organometallic and inorganic-cluster cofactors including the lanthanide-pyrroloquinoline quinone found in certain alcohol dehydrogenases, tungsten-pyranopterins or molybdenum-pyranopterins in chosen enzymes, the iron-guanylylpyridinol cofactor of [Fe] hydrogenase, the nickel-tetrapyrrole coenzyme F430 of methyl coenzyme M reductase, the vanadium-iron cofactor of nitrogenase, redox-dependent rearrangements of the nickel-iron-sulfur C-cluster in carbon monoxide dehydrogenase, and light-dependent changes in the multi-manganese cluster of the oxygen-evolving complex.
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40
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Yang X, Gianetti TL, Wörle MD, van Leest NP, de Bruin B, Grützmacher H. A low-valent dinuclear ruthenium diazadiene complex catalyzes the oxidation of dihydrogen and reversible hydrogenation of quinones. Chem Sci 2019; 10:1117-1125. [PMID: 30774909 PMCID: PMC6346631 DOI: 10.1039/c8sc02864h] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2018] [Accepted: 11/01/2018] [Indexed: 12/27/2022] Open
Abstract
The dinuclear ruthenium complex [Ru2H(μ-H)(Me2dad)(dbcot)2] contains a 1,4-dimethyl-diazabuta-1,3-diene (Me2dad) as a non-innocent bridging ligand between the metal centers to give a [Ru2(Me2dad)] core. In addition, each ruthenium is bound to one dibenzo[a,e]cyclooctatetraene (dbcot) ligand. This Ru dimer converts H2 to protons and electrons. It also catalyzes reversibly under mild conditions the selective hydrogenation of vitamins K2 and K3 to their corresponding hydroquinone equivalents without affecting the C[double bond, length as m-dash]C double bonds. Mechanistic studies suggest that the [Ru2(Me2dad)] moiety, like hydrogenases, reacts with H2 and releases electrons and protons stepwise.
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Affiliation(s)
- Xiuxiu Yang
- Department of Chemistry and Applied Biosciences , ETH Zürich , Vladimir-Prelog-Weg 1 , 8093 Zürich , Switzerland .
| | - Thomas L Gianetti
- Department of Chemistry and Applied Biosciences , ETH Zürich , Vladimir-Prelog-Weg 1 , 8093 Zürich , Switzerland . .,Department of Chemistry and Biochemistry , The University of Arizona , Tucson , Arizona 85721 , USA .
| | - Michael D Wörle
- Department of Chemistry and Applied Biosciences , ETH Zürich , Vladimir-Prelog-Weg 1 , 8093 Zürich , Switzerland .
| | - Nicolaas P van Leest
- Van't Hoff Institute for Molecular Sciences (HIMS) , University of Amsterdam (UvA) , Science Park 904 , 1098 XH Amsterdam , The Netherlands
| | - Bas de Bruin
- Van't Hoff Institute for Molecular Sciences (HIMS) , University of Amsterdam (UvA) , Science Park 904 , 1098 XH Amsterdam , The Netherlands
| | - Hansjörg Grützmacher
- Department of Chemistry and Applied Biosciences , ETH Zürich , Vladimir-Prelog-Weg 1 , 8093 Zürich , Switzerland .
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Abstract
Hydrogenases catalyze the simple yet important interconversion between H2 and protons and electrons. Found throughout prokaryotes, lower eukaryotes, and archaea, hydrogenases are used for a variety of redox and signaling purposes and are found in many different forms. This diverse group of metalloenzymes is divided into [NiFe], [FeFe], and [Fe] variants, based on the transition metal contents of their active sites. A wide array of biochemical and spectroscopic methods has been used to elucidate hydrogenases, and this along with a general description of the main enzyme types and catalytic mechanisms is discussed in this chapter.
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42
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Barik CK, Ganguly R, Li Y, Leong WK. Ruthenacyclic Carbamoyl Complexes: Highly Efficient Catalysts for Organosilane Hydrolysis. Eur J Inorg Chem 2018. [DOI: 10.1002/ejic.201801012] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Chandan Kr Barik
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link 637371 Singapore
| | - Rakesh Ganguly
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link 637371 Singapore
| | - Yongxin Li
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link 637371 Singapore
| | - Weng Kee Leong
- Division of Chemistry & Biological Chemistry Nanyang Technological University 21 Nanyang Link 637371 Singapore
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43
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Pradeep T, Velusamy M, Mayilmurugan R. Novel iron(II)-N-heterocyclic carbene catalysts for efficient transfer hydrogenations under mild condition. MOLECULAR CATALYSIS 2018. [DOI: 10.1016/j.mcat.2018.08.017] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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44
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Doppert MT, van Overeem H, Mooibroek TJ. Intermolecular π-hole/n→π* interactions with carbon monoxide ligands in crystal structures. Chem Commun (Camb) 2018; 54:12049-12052. [PMID: 30294741 DOI: 10.1039/c8cc07557c] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
A thorough analysis of the Cambridge Structure Database reveals that intermolecular π-hole/n→π* interactions with carbon monoxide ligands are abundant in the solid state and somewhat directional, particularly with fac-like M(CO)3 fragments (P < 4.0). High level DFT calculations suggest interacting energies up to about -10 kcal mol-1 for adducts of charge neutral complexes.
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Affiliation(s)
- Michael Timothy Doppert
- van't Hoff Institute for Molecular Sciences, Universiteit van Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands.
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45
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Barik CK, Ganguly R, Li Y, Przybylski C, Salmain M, Leong WK. Embedding a Ruthenium-Based Structural Mimic of the [Fe]-Hydrogenase Cofactor into Papain. Inorg Chem 2018; 57:12206-12212. [PMID: 30198260 DOI: 10.1021/acs.inorgchem.8b01835] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We describe the synthesis of the ruthenacyclic carbamoyl complexes [Ru(2-NHC(O)C5H3NMe)(CO)2( o,o-Me2-C6H3S)(L)] (L = H2O or MeCN), which have a labile water or acetonitrile ligand at their sixth coordination sites. Steric bulk around the ruthenium center is essential in preventing isomerization and dimerization, and embedding within papain can be achieved via coordination of its sole free cysteine residue. The observed chemistry parallels that of the natural [Fe]-hydrogenase.
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Affiliation(s)
- Chandan Kr Barik
- Division of Chemistry & Biological Chemistry , Nanyang Technological University , 21 Nanyang Link , Singapore 637371 , Singapore
| | - Rakesh Ganguly
- Division of Chemistry & Biological Chemistry , Nanyang Technological University , 21 Nanyang Link , Singapore 637371 , Singapore
| | - Yongxin Li
- Division of Chemistry & Biological Chemistry , Nanyang Technological University , 21 Nanyang Link , Singapore 637371 , Singapore
| | - Cédric Przybylski
- Sorbonne Université, CNRS, Institut Parisien de Chimie Moléculaire (IPCM) , 4 place Jussieu , F-75005 Paris , France
| | - Michèle Salmain
- Sorbonne Université, CNRS, Institut Parisien de Chimie Moléculaire (IPCM) , 4 place Jussieu , F-75005 Paris , France
| | - Weng Kee Leong
- Division of Chemistry & Biological Chemistry , Nanyang Technological University , 21 Nanyang Link , Singapore 637371 , Singapore
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46
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Whittaker T, Kumar KBS, Peterson C, Pollock MN, Grabow LC, Chandler BD. H2 Oxidation over Supported Au Nanoparticle Catalysts: Evidence for Heterolytic H2 Activation at the Metal–Support Interface. J Am Chem Soc 2018; 140:16469-16487. [DOI: 10.1021/jacs.8b04991] [Citation(s) in RCA: 79] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Todd Whittaker
- Department of Chemistry, Trinity University, San Antonio, Texas 78212-7200, United States
| | - K. B. Sravan Kumar
- Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas 77204-4004, United States
| | - Christine Peterson
- Department of Chemistry, Trinity University, San Antonio, Texas 78212-7200, United States
| | - Meagan N. Pollock
- Department of Chemistry, Trinity University, San Antonio, Texas 78212-7200, United States
| | - Lars C. Grabow
- Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas 77204-4004, United States
| | - Bert D. Chandler
- Department of Chemistry, Trinity University, San Antonio, Texas 78212-7200, United States
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47
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Rong B, Zhong W, Gu E, Long L, Song L, Liu X. Probing the electron transfer mechanism of the half-sandwich iron(II)-carbonyl complexes and their catalysis on proton reduction. Electrochim Acta 2018. [DOI: 10.1016/j.electacta.2018.06.144] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
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48
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Hemschemeier A, Happe T. The plasticity of redox cofactors: from metalloenzymes to redox-active DNA. Nat Rev Chem 2018. [DOI: 10.1038/s41570-018-0029-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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49
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Hartmann S, Frielingsdorf S, Ciaccafava A, Lorent C, Fritsch J, Siebert E, Priebe J, Haumann M, Zebger I, Lenz O. O2-Tolerant H2 Activation by an Isolated Large Subunit of a [NiFe] Hydrogenase. Biochemistry 2018; 57:5339-5349. [DOI: 10.1021/acs.biochem.8b00760] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sven Hartmann
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Stefan Frielingsdorf
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Alexandre Ciaccafava
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Christian Lorent
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Johannes Fritsch
- Department of Biology, Humboldt-Universität zu Berlin, 10115 Berlin, Germany
| | - Elisabeth Siebert
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Jacqueline Priebe
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Michael Haumann
- Department of Physics, Freie Universität Berlin, 14195 Berlin, Germany
| | - Ingo Zebger
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
| | - Oliver Lenz
- Department of Chemistry, Sekr. PC14, Technische Universität Berlin, 10623 Berlin, Germany
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50
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Xie ZL, Pennington DL, Boucher DG, Lo J, Rose MJ. Effects of Thiolate Ligation in Monoiron Hydrogenase (Hmd): Stability of the {Fe(CO) 2} 2+ Core with NNS Ligands. Inorg Chem 2018; 57:10028-10039. [PMID: 30070112 DOI: 10.1021/acs.inorgchem.8b01185] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
In this work, we report the effects of NNS-thiolate ligands and nuclearity (monomer, dimer) on the stability of iron complexes related to the active site of monoiron hydrogenase (Hmd). A thermally stable iron(II) dicarbonyl motif is the core feature of the active site, but the coordination features that lead to this property have not been independently evaluated for their contributions to the {Fe(CO)2}2+ stability. As such, non-bulky and bulky benzothiazoline ligands (thiolate precursors) were synthesized and their iron(II) complexes characterized. The use of non-bulky thiolate ligands and low-temperature crystallizations result in isolation of the dimeric species [(NNS)2Fe2(CO)2(I)2] (1), [(NPhNS)2Fe2(CO)2(I)2] (2), and [(MeNNS)2Fe2(CO)2(I)2] (3), which exhibit dimerization via thiolato (μ2-S)2 bridges. In one particular case (unsubstituted NNS ligand), the pathway of decarbonylation and oxidation from 1 was crystallographically elucidated, via isolation of the half-bis-ligated monocarbonyl dimer [(NNS)3Fe2(CO)]I (4) and the fully decarbonylated and oxidized mononuclear [(NNS)2Fe]I (5). The transformations of dicarbonyl complexes (1, 2, and 3) to monocarbonyl complexes (4, 6, and 7) were monitored by UV/vis, demonstrating that 1 and 3 exhibit longer t1/2 (80 and 75 min, respectively) than 2 (30 min), which is attributed to distortion of the ligand backbone. Density functional theory calculations of isolated complexes and putative intermediates were used to corroborate the experimentally observed IR spectra. Finally, dimerization was prevented using a bulky ligand featuring a 2,6-dimethylphenyl substituent, which affords mononuclear iron dicarbonyl complex, [(NPhNSDMPh)Fe(CO)2Br] (8), identified by IR and NMR spectroscopies. The dicarbonyl complex decomposes to the decarbonylated [(NPhNSDMPh)2Fe] (9) within minutes at room temperature. Overall, the work herein demonstrates that the thiolate moiety does not impart thermal stability to the {Fe(CO)2}2+ unit formed in the active site, further indicating the importance of the organometallic Fe-C(acyl) bond in the enzyme.
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Affiliation(s)
- Zhu-Lin Xie
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
| | - Doran L Pennington
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
| | - Dylan G Boucher
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
| | - James Lo
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
| | - Michael J Rose
- Department of Chemistry , The University of Texas at Austin , Austin , Texas 78712 , United States
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