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Yaraki MT, Zahed Nasab S, Zare I, Dahri M, Moein Sadeghi M, Koohi M, Tan YN. Biomimetic Metallic Nanostructures for Biomedical Applications, Catalysis, and Beyond. Ind Eng Chem Res 2022. [DOI: 10.1021/acs.iecr.2c00285] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
| | - Shima Zahed Nasab
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran 143951561, Iran
| | - Iman Zare
- Research and Development Department, Sina Medical Biochemistry Technologies Co. Ltd., Shiraz 7178795844, Iran
| | - Mohammad Dahri
- Student Research Committee, School of Pharmacy, Shiraz University of Medical Sciences, Shiraz 71345, Iran
| | - Mohammad Moein Sadeghi
- Student Research Committee, School of Pharmacy, Shiraz University of Medical Sciences, Shiraz 71345, Iran
| | - Maedeh Koohi
- Department of Chemistry, Faculty of Science, University of Zanjan, Zanjan 45371-38791, Islamic Republic of Iran
| | - Yen Nee Tan
- Faculty of Science, Agriculture and Engineering, Newcastle University, Newcastle Upon Tyne NE1 7RU, U.K
- Newcastle Research and Innovation Institute, Newcastle University in Singapore, 80 Jurong East Street 21, No. 05-04, 609607, Singapore
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2
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Garcia AK, Kolaczkowski B, Kaçar B. Reconstruction of nitrogenase predecessors suggests origin from maturase-like proteins. Genome Biol Evol 2022; 14:6531971. [PMID: 35179578 PMCID: PMC8890362 DOI: 10.1093/gbe/evac031] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 02/14/2022] [Indexed: 11/17/2022] Open
Abstract
The evolution of biological nitrogen fixation, uniquely catalyzed by nitrogenase enzymes, has been one of the most consequential biogeochemical innovations over life’s history. Though understanding the early evolution of nitrogen fixation has been a longstanding goal from molecular, biogeochemical, and planetary perspectives, its origins remain enigmatic. In this study, we reconstructed the evolutionary histories of nitrogenases, as well as homologous maturase proteins that participate in the assembly of the nitrogenase active-site cofactor but are not able to fix nitrogen. We combined phylogenetic and ancestral sequence inference with an analysis of predicted functionally divergent sites between nitrogenases and maturases to infer the nitrogen-fixing capabilities of their shared ancestors. Our results provide phylogenetic constraints to the emergence of nitrogen fixation and are consistent with a model wherein nitrogenases emerged from maturase-like predecessors. Though the precise functional role of such a predecessor protein remains speculative, our results highlight evolutionary contingency as a significant factor shaping the evolution of a biogeochemically essential enzyme.
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Affiliation(s)
- Amanda K Garcia
- Department of Bacteriology, University of Wisconsin - Madison, USA
| | - Bryan Kolaczkowski
- Department of Microbiology and Cell Science, University of Florida, Gainesville, Florida, USA
| | - Betül Kaçar
- Department of Bacteriology, University of Wisconsin - Madison, USA
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3
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Joseph C, Cobb CR, Rose MJ. Single-Step Sulfur Insertions into Iron Carbide Carbonyl Clusters: Unlocking the Synthetic Door to FeMoco Analogues. Angew Chem Int Ed Engl 2021; 60:3433-3437. [PMID: 33089646 DOI: 10.1002/anie.202011517] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Revised: 10/09/2020] [Indexed: 11/09/2022]
Abstract
The one-step syntheses, X-ray structures, and spectroscopic characterization of synthetic iron clusters, bearing either inorganic sulfides or thiolate with interstitial carbide motifs, are reported. Treatment of iron carbide carbonyl clusters [Fen (μn -C)(CO)m ]x (n=5,6; m=15,16; x=0,-2) with electrophilic sulfur sources (S2 Cl2 , S8 ) results in the formation of several μ4 -S dimers of clusters, and moreover, iron-sulfide-(sulfocarbide) clusters. The core sulfocarbide unit {C-S}4- serves as a structural model for a proposed intermediate in the radical S-adenosyl-L-methionine biogenesis of the M-cluster. Furthermore, the electrophilic sulfur strategy has been extended to provide the first ever thiolato-iron-carbide complex: an analogous reaction with toluylsulfenyl chloride affords the cluster [Fe5 (μ5 -C)(SC7 H7 )(CO)13 ]- . The strategy described herein provides a breakthrough towards developing syntheses of biomimetic iron-sulfur-carbide clusters like FeMoco.
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Affiliation(s)
- Chris Joseph
- Department of Chemistry, The University of Texas at Austin, Austin, TX, 78712, USA
| | - Caitlyn R Cobb
- Department of Chemistry, The University of Texas at Austin, Austin, TX, 78712, USA
| | - Michael J Rose
- Department of Chemistry, The University of Texas at Austin, Austin, TX, 78712, USA
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4
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Joseph C, Cobb CR, Rose MJ. Single‐Step Sulfur Insertions into Iron Carbide Carbonyl Clusters: Unlocking the Synthetic Door to FeMoco Analogues. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202011517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Chris Joseph
- Department of Chemistry The University of Texas at Austin Austin TX 78712 USA
| | - Caitlyn R. Cobb
- Department of Chemistry The University of Texas at Austin Austin TX 78712 USA
| | - Michael J. Rose
- Department of Chemistry The University of Texas at Austin Austin TX 78712 USA
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5
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Lee CC, Tanifuji K, Newcomb M, Liedtke J, Hu Y, Ribbe MW. A Comparative Analysis of the CO-Reducing Activities of MoFe Proteins Containing Mo- and V-Nitrogenase Cofactors. Chembiochem 2018; 19:649-653. [PMID: 29363247 DOI: 10.1002/cbic.201800035] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2018] [Indexed: 11/12/2022]
Abstract
The Mo and V nitrogenases are structurally homologous yet catalytically distinct in their abilities to reduce CO to hydrocarbons. Here we report a comparative analysis of the CO-reducing activities of the Mo- and V-nitrogenase cofactors (i.e., the M and V clusters) upon insertion of the respective cofactor into the same, cofactor-deficient MoFe protein scaffold. Our data reveal a combined contribution from the protein environment and cofactor properties to the reactivity of nitrogenase toward CO, thus laying a foundation for further mechanistic investigation of the enzymatic CO reduction, while suggesting the potential of targeting both the protein scaffold and the cofactor species for nitrogenase-based applications in the future.
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Affiliation(s)
- Chi Chung Lee
- Department of Molecular Biology and Biochemistry, University of California, 2230/2236 McGaugh Hall, Irvine, CA, 92697-3900, USA
| | - Kazuki Tanifuji
- Department of Molecular Biology and Biochemistry, University of California, 2230/2236 McGaugh Hall, Irvine, CA, 92697-3900, USA
| | - Megan Newcomb
- Department of Molecular Biology and Biochemistry, University of California, 2230/2236 McGaugh Hall, Irvine, CA, 92697-3900, USA.,Department of Chemistry, University of California, 2236 McGaugh Hall, Irvine, CA, 92697-2025, USA
| | - Jasper Liedtke
- Department of Molecular Biology and Biochemistry, University of California, 2230/2236 McGaugh Hall, Irvine, CA, 92697-3900, USA
| | - Yilin Hu
- Department of Molecular Biology and Biochemistry, University of California, 2230/2236 McGaugh Hall, Irvine, CA, 92697-3900, USA
| | - Markus W Ribbe
- Department of Molecular Biology and Biochemistry, University of California, 2230/2236 McGaugh Hall, Irvine, CA, 92697-3900, USA.,Department of Chemistry, University of California, 2236 McGaugh Hall, Irvine, CA, 92697-2025, USA
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6
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Ohki Y, Araki Y, Tada M, Sakai Y. Synthesis and Characterization of Bioinspired [Mo
2
Fe
2
]–Hydride Cluster Complexes and Their Application in the Catalytic Silylation of N
2. Chemistry 2017; 23:13240-13248. [DOI: 10.1002/chem.201702925] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2017] [Indexed: 11/06/2022]
Affiliation(s)
- Yasuhiro Ohki
- Department of Chemistry, Graduate School of Science and Research Center for Materials Science Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8602 Japan
| | - Yuna Araki
- Department of Chemistry, Graduate School of Science and Research Center for Materials Science Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8602 Japan
| | - Mizuki Tada
- Department of Chemistry, Graduate School of Science and Research Center for Materials Science Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8602 Japan
- Research Center for Materials Science (RCMS) and Integrated Research Consortium on Chemical Sciences (IRCCS) Nagoya University Furo-cho, Chikusa-ku Nagoya 464-8602 Japan
| | - Yoichi Sakai
- Department of Chemistry Daido University Takiharu-cho, Minami-ku Nagoya 457-8530 Japan
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7
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Sickerman NS, Tanifuji K, Hu Y, Ribbe MW. Synthetic Analogues of Nitrogenase Metallocofactors: Challenges and Developments. Chemistry 2017; 23:12425-12432. [DOI: 10.1002/chem.201702496] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2017] [Indexed: 11/11/2022]
Affiliation(s)
- Nathaniel S. Sickerman
- Department of Molecular Biology and Biochemistry University of California, Irvine Irvine CA 92697-3900 USA
| | - Kazuki Tanifuji
- Department of Molecular Biology and Biochemistry University of California, Irvine Irvine CA 92697-3900 USA
| | - Yilin Hu
- Department of Molecular Biology and Biochemistry University of California, Irvine Irvine CA 92697-3900 USA
| | - Markus W. Ribbe
- Department of Molecular Biology and Biochemistry University of California, Irvine Irvine CA 92697-3900 USA
- Department of Chemistry University of California, Irvine Irvine CA 92697-2025 USA
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8
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Djurdjevic I, Einsle O, Decamps L. Nitrogenase Cofactor: Inspiration for Model Chemistry. Chem Asian J 2017; 12:1447-1455. [PMID: 28425208 DOI: 10.1002/asia.201700478] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2017] [Indexed: 11/09/2022]
Affiliation(s)
- Ivana Djurdjevic
- Institute for Biochemistry; Albert-Ludwigs-University Freiburg; Albertstrasse 21 79104 Freiburg im Breisgau Germany
| | - Oliver Einsle
- Institute for Biochemistry; Albert-Ludwigs-University Freiburg; Albertstrasse 21 79104 Freiburg im Breisgau Germany
- BIOSS Centre for Biological Signalling Studies; Albert-Ludwigs-University Freiburg; Schänzlestrasse 1 79104 Freiburg im Breisgau Germany
| | - Laure Decamps
- Institute for Biochemistry; Albert-Ludwigs-University Freiburg; Albertstrasse 21 79104 Freiburg im Breisgau Germany
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9
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Rittle J, Peters JC. Proton‐Coupled Reduction of an Iron Cyanide Complex to Methane and Ammonia. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201606366] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Jonathan Rittle
- Division of Chemistry and Chemical Engineering California Institute of Technology USA
| | - Jonas C. Peters
- Division of Chemistry and Chemical Engineering California Institute of Technology USA
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10
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Rittle J, Peters JC. Proton-Coupled Reduction of an Iron Cyanide Complex to Methane and Ammonia. Angew Chem Int Ed Engl 2016; 55:12262-5. [PMID: 27607732 PMCID: PMC5065330 DOI: 10.1002/anie.201606366] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2016] [Indexed: 11/11/2022]
Abstract
Nitrogenase enzymes mediate the six-electron reductive cleavage of cyanide to CH4 and NH3 . Herein we demonstrate for the first time the liberation of CH4 and NH3 from a well-defined iron cyanide coordination complex, [SiP(iPr) 3 ]Fe(CN) (where [SiP(iPr) 3 ] represents a tris(phosphine)silyl ligand), on exposure to proton and electron equivalents. [SiP(iPr) 3 ]Fe(CN) additionally serves as a useful entry point to rare examples of terminally-bound Fe(CNH) and Fe(CNH2 ) species that, in accord with preliminary mechanistic studies, are plausible intermediates of the cyanide reductive protonation to generate CH4 and NH3 . Comparative studies with a related [SiP(iPr) 3 ]Fe(CNMe2 ) complex suggests the possibility of multiple, competing mechanisms for cyanide activation and reduction.
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Affiliation(s)
- Jonathan Rittle
- Division of Chemistry and Chemical Engineering, California Institute of Technology, USA
| | - Jonas C Peters
- Division of Chemistry and Chemical Engineering, California Institute of Technology, USA.
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