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Zhang X, Jiang X, Zhao Q, Li Y, Feng L, Ye S, Tung CH, Wang W. Synthesis and Characterization of Bridging-Diazene Diiron Half-Sandwich Complexes: The Role of Sulfur Hydrogen Bonding. Inorg Chem 2024. [PMID: 39007501 DOI: 10.1021/acs.inorgchem.4c01783] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/16/2024]
Abstract
We report two bridging-diazene diiron complexes [Cp*Fe(8-quinolinethiolate)]2(μ-N2H2) (1-N2H2) and [Cp*Fe(1,2-Cy2PC6H4S)]2(μ-N2H2) (2-N2H2), synthesized by the reaction of hydrazine with the corresponding thiolate-based iron half-sandwich complex, [Cp*Fe(8-quinolinethiolate)]2 (1) and Cp*Fe(1,2-Cy2PC6H4S) (2). Crystallographic analysis reveals that the thiolate sites in 1-N2H2 and 2-N2H2 can engage in N-H···S hydrogen bonding with the diazene protons. 1-N2H2 is thermally stable in both solid and solution states, allowing for one-electron oxidation to afford a cationic diazene radical complex [1-N2H2]+ at room temperature. In contrast, 2-N2H2 tends to undergo N2H2/N2 transformation, leading to the formation of a Fe(III)-H species by the loss of N2. In addition to stabilizing HN=NH species through the hydrogen bonding, the thiolate-based ligands also seem to facilitate proton-coupled electron transfer, thereby promoting N-H cleavage.
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Affiliation(s)
- Xin Zhang
- School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, China
| | - Xuebin Jiang
- State Key Laboratory of Catalysis, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qiuting Zhao
- College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Yongxian Li
- College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Lei Feng
- School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, China
| | - Shengfa Ye
- State Key Laboratory of Catalysis, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Chen-Ho Tung
- School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, China
| | - Wenguang Wang
- School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, China
- College of Chemistry, Beijing Normal University, Beijing 100875, China
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2
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Wang RZ, Lonergan ZR, Wilbert SA, Eiler JM, Newman DK. Widespread detoxifying NO reductases impart a distinct isotopic fingerprint on N 2O under anoxia. Proc Natl Acad Sci U S A 2024; 121:e2319960121. [PMID: 38865268 PMCID: PMC11194513 DOI: 10.1073/pnas.2319960121] [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: 11/13/2023] [Accepted: 05/10/2024] [Indexed: 06/14/2024] Open
Abstract
Nitrous oxide (N2O), a potent greenhouse gas, can be generated by multiple biological and abiotic processes in diverse contexts. Accurately tracking the dominant sources of N2O has the potential to improve our understanding of N2O fluxes from soils as well as inform the diagnosis of human infections. Isotopic "Site Preference" (SP) values have been used toward this end, as bacterial and fungal nitric oxide reductases (NORs) produce N2O with different isotopic fingerprints, spanning a large range. Here, we show that flavohemoglobin (Fhp), a hitherto biogeochemically neglected yet widely distributed detoxifying bacterial NO reductase, imparts a distinct SP value onto N2O under anoxic conditions (~+10‰) that correlates with typical environmental N2O SP measurements. Using Pseudomonas aeruginosa as a model organism, we generated strains that only contained Fhp or the dissimilatory NOR, finding that in vivo N2O SP values imparted by these enzymes differ by over 10‰. Depending on the cellular physiological state, the ratio of Fhp:NOR varies significantly in wild-type cells and controls the net N2O SP biosignature: When cells grow anaerobically under denitrifying conditions, NOR dominates; when cells experience rapid, increased nitric oxide concentrations under anoxic conditions but are not growing, Fhp dominates. Other bacteria that only make Fhp generate similar N2O SP biosignatures to those measured from our P. aeruginosa Fhp-only strain. Fhp homologs in sequenced bacterial genomes currently exceed NOR homologs by nearly a factor of four. Accordingly, we suggest a different framework to guide the attribution of N2O biological sources in nature and disease.
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Affiliation(s)
- Renée Z. Wang
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA91101
| | | | - Steven A. Wilbert
- Division of Biology and Biological Engineering, Caltech, Pasadena, CA91101
| | - John M. Eiler
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA91101
| | - Dianne K. Newman
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA91101
- Division of Biology and Biological Engineering, Caltech, Pasadena, CA91101
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3
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He D, Adachi K, Hashizume D, Nakamura R. Copper sulfide mineral performs non-enzymatic anaerobic ammonium oxidation through a hydrazine intermediate. Nat Chem 2024:10.1038/s41557-024-01537-6. [PMID: 38789556 DOI: 10.1038/s41557-024-01537-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 04/16/2024] [Indexed: 05/26/2024]
Abstract
Anaerobic ammonium oxidation (anammox)-the biological process that activates ammonium with nitrite-is responsible for a significant fraction of N2 production in marine environments. Despite decades of biochemical research, however, no synthetic models capable of anammox have been identified. Here we report that a copper sulfide mineral replicates the entire biological anammox pathway catalysed by three metalloenzymes. We identified a copper-nitrosonium {CuNO}10 complex, formed by nitrite reduction, as the oxidant for ammonium oxidation that leads to heterolytic N-N bond formation from nitrite and ammonium. Similar to the biological process, N2 production was mediated by the highly reactive intermediate hydrazine, one of the most potent reductants in nature. We also found another pathway involving N-N bond heterocoupling for the formation of hybrid N2O, a potent greenhouse gas with a unique isotope composition. Our study represents a rare example of non-enzymatic anammox reaction that interconnects six redox states in the abiotic nitrogen cycle.
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Affiliation(s)
- Daoping He
- Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo, Japan.
- Biofunctional Catalyst Research Team, RIKEN Center for Sustainable Resource Science, Saitama, Japan.
| | - Kiyohiro Adachi
- Materials Characterization Support Team, RIKEN Center for Emergent Matter Science, Saitama, Japan
| | - Daisuke Hashizume
- Materials Characterization Support Team, RIKEN Center for Emergent Matter Science, Saitama, Japan
| | - Ryuhei Nakamura
- Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo, Japan.
- Biofunctional Catalyst Research Team, RIKEN Center for Sustainable Resource Science, Saitama, Japan.
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4
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Matsuda K, Wakimoto T. Bacterial Hydrazine Biosynthetic Pathways Featuring Cupin/Methionyl tRNA Synthetase-like Enzymes. Chembiochem 2024; 25:e202300874. [PMID: 38458972 DOI: 10.1002/cbic.202300874] [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: 12/30/2023] [Revised: 02/26/2024] [Accepted: 03/08/2024] [Indexed: 03/10/2024]
Abstract
Nitrogen-Nitrogen (N-N) bond-containing functional groups in natural products and synthetic drugs play significant roles in exerting biological activities. The mechanisms of N-N bond formation in natural organic molecules have garnered increasing attention over the decades. Recent advances have illuminated various enzymatic and nonenzymatic strategies, and our understanding of natural N-N bond construction is rapidly expanding. A group of didomain proteins with zinc-binding cupin/methionyl-tRNA synthetase (MetRS)-like domains, also known as hydrazine synthetases, generates amino acid-based hydrazines, which serve as key biosynthetic precursors of diverse N-N bond-containing functionalities such as hydrazone, diazo, triazene, pyrazole, and pyridazinone groups. In this review, we summarize the current knowledge on hydrazine synthetase mechanisms and the various pathways employing this unique bond-forming machinery.
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Affiliation(s)
- Kenichi Matsuda
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Toshiyuki Wakimoto
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
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5
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Matsuda K, Nakahara Y, Choirunnisa AR, Arima K, Wakimoto T. Phylogeny-guided Characterization of Bacterial Hydrazine Biosynthesis Mediated by Cupin/methionyl tRNA Synthetase-like Enzymes. Chembiochem 2024; 25:e202300838. [PMID: 38403952 DOI: 10.1002/cbic.202300838] [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: 12/12/2023] [Revised: 01/27/2024] [Accepted: 02/25/2024] [Indexed: 02/27/2024]
Abstract
Cupin/methionyl-tRNA synthetase (MetRS)-like didomain enzymes catalyze nitrogen-nitrogen (N-N) bond formation between Nω-hydroxylamines and amino acids to generate hydrazines, key biosynthetic intermediates of various natural products containing N-N bonds. While the combination of these two building blocks leads to the creation of diverse hydrazine products, the full extent of their structural diversity remains largely unknown. To explore this, we herein conducted phylogeny-guided genome-mining of related hydrazine biosynthetic pathways consisting of two enzymes: flavin-dependent Nω-hydroxylating monooxygenases (NMOs) that produce Nω-hydroxylamine precursors and cupin/MetRS-like enzymes that couple the Nω-hydroxylamines with amino acids via N-N bonds. A phylogenetic analysis identified the largely unexplored sequence spaces of these enzyme families. The biochemical characterization of NMOs demonstrated their capabilities to produce various Nω-hydroxylamines, including those previously not known as precursors of N-N bonds. Furthermore, the characterization of cupin/MetRS-like enzymes identified five new hydrazine products with novel combinations of building blocks, including one containing non-amino acid building blocks: 1,3-diaminopropane and putrescine. This study substantially expanded the variety of N-N bond forming pathways mediated by cupin/MetRS-like enzymes.
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Affiliation(s)
- Kenichi Matsuda
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Yuto Nakahara
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Atina Rizkiya Choirunnisa
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Kuga Arima
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Toshiyuki Wakimoto
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
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6
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Mankad NP. Triazenide-supported [Cu 4S] structural mimics of Cu Z that mediate N 2O disproportionation rather than reduction. Chem Sci 2024; 15:1820-1828. [PMID: 38303935 PMCID: PMC10829023 DOI: 10.1039/d3sc05451a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2023] [Accepted: 12/22/2023] [Indexed: 02/03/2024] Open
Abstract
As part of the nitrogen cycle, environmental nitrous oxide (N2O) undergoes the N2O reduction reaction (N2ORR) catalyzed by nitrous oxide reductase, a metalloenzyme whose catalytic active site is a tetranuclear copper-sulfide cluster (CuZ). On the other hand, heterogeneous Cu catalysts on oxide supports are known to mediate decomposition of N2O (deN2O) by disproportionation. In this study, a CuZ model system supported by triazenide ligands is characterized by X-ray crystallography, NMR and EPR spectroscopies, and electronic structure calculations. Although the triazenide-ligated Cu4(μ4-S) clusters are closely related to previous formamidinate derivatives, which differ only in replacement of a remote N atom for a CH group, divergent reactivity with N2O is observed. Whereas the formamidinate-ligated clusters were previously shown to mediate single-turnover N2ORR, the triazenide-ligated clusters are found to mediate deN2O, behavior that was previously unknown to natural or synthetic copper-sulfide clusters. The reaction pathway for deN2O by this model system, including previously unidentified transition state models for N2O activation in N-O cleavage and O-O coupling steps, are included. The divergent reactivity of these two related but subtly different systems point to key factors influencing behavior of Cu-based catalysts for N2ORR (i.e., CuZ) and deN2O (e.g., CuO/CeO2).
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Affiliation(s)
- Neal P Mankad
- Department of Chemistry, University of Illinois Chicago Chicago IL 60607 USA
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7
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Gulyaeva ES, Osipova ES, Kovalenko SA, Filippov OA, Belkova NV, Vendier L, Canac Y, Shubina ES, Valyaev DA. Two active species from a single metal halide precursor: a case study of highly productive Mn-catalyzed dehydrogenation of amine-boranes via intermolecular bimetallic cooperation. Chem Sci 2024; 15:1409-1417. [PMID: 38274083 PMCID: PMC10806649 DOI: 10.1039/d3sc05356c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 12/06/2023] [Indexed: 01/27/2024] Open
Abstract
Metal-metal cooperation for inert bond activation is a ubiquitous concept in coordination chemistry and catalysis. While the great majority of such transformations proceed via intramolecular mode in binuclear complexes, to date only a few examples of intermolecular small molecule activation using usually bimetallic frustrated Lewis pairs (Mδ+⋯M'δ-) have been reported. We introduce herein an alternative approach for the intermolecular bimetallic cooperativity observed in the catalytic dehydrogenation of amine-boranes, in which the concomitant activation of N-H and B-H bonds of the substrate via the synergetic action of Lewis acidic (M+) and basic hydride (M-H) metal species derived from the same mononuclear complex (M-Br). It was also demonstrated that this system generated in situ from the air-stable Mn(i) complex fac-[(CO)3(bis(NHC))MnBr] and NaBPh4 shows high activity for H2 production from several substrates (Me2NHBH3, tBuNH2BH3, MeNH2BH3, NH3BH3) at low catalyst loading (0.1% to 50 ppm), providing outstanding efficiency for Me2NHBH3 (TON up to 18 200) that is largely superior to all known 3d-, s-, p-, f-block metal derivatives and frustrated Lewis pairs (FLPs). These results represent a step forward towards more extensive use of intermolecular bimetallic cooperation concepts in modern homogeneous catalysis.
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Affiliation(s)
- Ekaterina S Gulyaeva
- LCC-CNRS, Université de Toulouse, CNRS, UPS 205 Route de Narbonne 31077 Toulouse Cedex 4 France
- A. N. Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences 28/1 Vavilov Str., GSP-1, B-334 Moscow 119334 Russia
| | - Elena S Osipova
- A. N. Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences 28/1 Vavilov Str., GSP-1, B-334 Moscow 119334 Russia
| | - Sergey A Kovalenko
- A. N. Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences 28/1 Vavilov Str., GSP-1, B-334 Moscow 119334 Russia
| | - Oleg A Filippov
- A. N. Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences 28/1 Vavilov Str., GSP-1, B-334 Moscow 119334 Russia
| | - Natalia V Belkova
- A. N. Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences 28/1 Vavilov Str., GSP-1, B-334 Moscow 119334 Russia
| | - Laure Vendier
- LCC-CNRS, Université de Toulouse, CNRS, UPS 205 Route de Narbonne 31077 Toulouse Cedex 4 France
| | - Yves Canac
- LCC-CNRS, Université de Toulouse, CNRS, UPS 205 Route de Narbonne 31077 Toulouse Cedex 4 France
| | - Elena S Shubina
- A. N. Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences 28/1 Vavilov Str., GSP-1, B-334 Moscow 119334 Russia
| | - Dmitry A Valyaev
- LCC-CNRS, Université de Toulouse, CNRS, UPS 205 Route de Narbonne 31077 Toulouse Cedex 4 France
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8
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Manickas EC, LaLonde AB, Hu MY, Alp EE, Lehnert N. Stabilization of a Heme-HNO Model Complex Using a Bulky Bis-Picket Fence Porphyrin and Reactivity Studies with NO. J Am Chem Soc 2023; 145:23014-23026. [PMID: 37824502 DOI: 10.1021/jacs.3c05333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2023]
Abstract
Nitroxyl, HNO/NO-, the one-electron reduced form of NO, is suggested to take part in distinct signaling pathways in mammals and is also a key intermediate in various heme-catalyzed NOx interconversions in the nitrogen cycle. Cytochrome P450nor (Cyt P450nor) is a heme-containing enzyme that performs NO reduction to N2O in fungal denitrification. The reactive intermediate in this enzyme, termed "Intermediate I", is proposed to be an Fe-NHO/Fe-NHOH type species, but it is difficult to study its electronic structure and exact protonation state due to its instability. Here, we utilize a bulky bis-picket fence porphyrin to obtain the first stable heme-HNO model complex, [Fe(3,5-Me-BAFP)(MI)(NHO)], as a model for Intermediate I, and more generally HNO adducts of heme proteins. Due to the steric hindrance of the bis-picket fence porphyrin, [Fe(3,5-Me-BAFP)(MI)(NHO)] is stable (τ1/2 = 56 min at -30 °C), can be isolated as a solid, and is available for thorough spectroscopic characterization. In particular, we were able to solve a conundrum in the literature and provide the first full vibrational characterization of a heme-HNO complex using IR and nuclear resonance vibrational spectroscopy (NRVS). Reactivity studies of [Fe(3,5-Me-BAFP)(MI)(NHO)] with NO gas show a 91 ± 10% yield for N2O formation, demonstrating that heme-HNO complexes are catalytically competent intermediates for NO reduction to N2O in Cyt P450nor. The implications of these results for the mechanism of Cyt P450nor are further discussed.
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Affiliation(s)
- Elizabeth C Manickas
- Department of Chemistry and Department of Biophysics, The University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Ashley B LaLonde
- Department of Chemistry and Department of Biophysics, The University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Michael Y Hu
- Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, Illinois 60439, United States
| | - E Ercan Alp
- Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, Illinois 60439, United States
| | - Nicolai Lehnert
- Department of Chemistry and Department of Biophysics, The University of Michigan, Ann Arbor, Michigan 48109-1055, United States
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9
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Wang RZ, Lonergan ZR, Wilbert SA, Eiler JM, Newman DK. Widespread detoxifying NO reductases impart a distinct isotopic fingerprint on N 2O under anoxia. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.10.13.562248. [PMID: 37873075 PMCID: PMC10592819 DOI: 10.1101/2023.10.13.562248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Nitrous oxide (N2O), a potent greenhouse gas, can be generated by compositionally complex microbial populations in diverse contexts. Accurately tracking the dominant biological sources of N2O has the potential to improve our understanding of N2O fluxes from soils as well as inform the diagnosis of human infections. Isotopic "Site Preference" (SP) values have been used towards this end, as bacterial and fungal nitric oxide reductases produce N2O with different isotopic fingerprints. Here we show that flavohemoglobin, a hitherto biogeochemically neglected yet widely distributed detoxifying bacterial NO reductase, imparts a distinct SP value onto N2O under anoxic conditions that correlates with typical environmental N2O SP measurements. We suggest a new framework to guide the attribution of N2O biological sources in nature and disease.
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Affiliation(s)
- Renée Z. Wang
- Division of Geological and Planetary Sciences, Caltech; Pasadena, 91101, USA
| | - Zachery R. Lonergan
- Division of Biology and Biological Engineering, Caltech; Pasadena, 91101, USA
| | - Steven A. Wilbert
- Division of Biology and Biological Engineering, Caltech; Pasadena, 91101, USA
- Current Address: Department of Environmental Health and Engineering, Johns Hopkins; Baltimore, 21218, USA
| | - John M. Eiler
- Division of Geological and Planetary Sciences, Caltech; Pasadena, 91101, USA
| | - Dianne K. Newman
- Division of Geological and Planetary Sciences, Caltech; Pasadena, 91101, USA
- Division of Biology and Biological Engineering, Caltech; Pasadena, 91101, USA
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10
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Fujisawa K, Kataoka T, Terashima K, Kurihara H, de Santis Gonçalves F, Lehnert N. Coordinatively Unsaturated Nickel Nitroxyl Complex: Structure, Physicochemical Properties, and Reactivity toward Dioxygen. Molecules 2023; 28:6206. [PMID: 37687034 PMCID: PMC10489029 DOI: 10.3390/molecules28176206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 08/17/2023] [Accepted: 08/21/2023] [Indexed: 09/10/2023] Open
Abstract
For its important roles in biology, nitrogen monoxide (·NO) has become one of the most studied and fascinating molecules in chemistry. ·NO itself acts as a "noninnocent" or "redox active" ligand to transition metal ions to give metal-NO (M-NO) complexes. Because of this uncertainty due to redox chemistry, the real description of the electronic structure of the M-NO unit requires extensive spectroscopic and theoretical studies. We previously reported the Ni-NO complex with a hindered N3 type ligand [Ni(NO)(L3)] (L3- denotes hydrotris(3-tertiary butyl-5-isopropyl-1-pyrazolyl)borate anion), which contains a high-spin (hs) nickel(II) center and a coordinated 3NO-. This complex is very stable toward dioxygen due to steric protection of the nickel(II) center. Here, we report the dioxygen reactivity of a new Ni-NO complex, [Ni(NO)(I)(L1″)], with a less hindered N2 type bis(pyrazolyl)methane ligand, which creates a coordinatively unsaturated ligand environment about the nickel center. Here, L1″ denotes bis(3,5-diisopropyl-1-pyrazolyl)methane. This complex is also described as a hs-nickel(II) center with a bound 3NO-, based on spectroscopic and theoretical studies. Unexpectedly, the reaction of [Ni(NO)(I)(L1″)] with O2 yielded [Ni(κ2-O2N)(L1″)2](I3), with the oxidation of both 3NO- and the I- ion to yield NO2- and I3-. Both complexes were characterized by X-ray crystallography, IR, and UV-Vis spectroscopy and theoretical calculations.
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Affiliation(s)
- Kiyoshi Fujisawa
- Department of Chemistry, Ibaraki University, Mito 310-8512, Ibaraki, Japan
| | - Taisei Kataoka
- Department of Chemistry, Ibaraki University, Mito 310-8512, Ibaraki, Japan
| | - Kohei Terashima
- Department of Chemistry, Ibaraki University, Mito 310-8512, Ibaraki, Japan
| | - Haruka Kurihara
- Department of Chemistry, Ibaraki University, Mito 310-8512, Ibaraki, Japan
| | - Felipe de Santis Gonçalves
- Department of Chemistry and Department of Biophysics, University of Michigan, 930 N. University Avenue, Ann Arbor, MI 48109, USA;
| | - Nicolai Lehnert
- Department of Chemistry and Department of Biophysics, University of Michigan, 930 N. University Avenue, Ann Arbor, MI 48109, USA;
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11
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Harland JB, Samanta S, Lehnert N. Bacterial nitric oxide reductase (NorBC) models employing click chemistry. J Inorg Biochem 2023; 246:112280. [PMID: 37352656 DOI: 10.1016/j.jinorgbio.2023.112280] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2023] [Revised: 05/15/2023] [Accepted: 05/30/2023] [Indexed: 06/25/2023]
Abstract
Bacterial NO Reductase (NorBC or cNOR) is a membrane-bound enzyme found in denitrifying bacteria that catalyzes the two-electron reduction of NO to N2O and water. The mechanism by which NorBC operates is highly debated, due to the fact that this enzyme is difficult to work with, and no intermediates of the NO reduction reaction could have been identified so far. The unique active site of NorBC consists of a heme b3/non-heme FeB diiron center. Synthetic model complexes provide the opportunity to obtain insight into possible mechanistic alternatives for this enzyme. In this paper, we present three new synthetic model systems for NorBC, consisting of a tetraphenylporphyrin-derivative clicked to modified BMPA-based ligands (BMPA = bis(methylpyridyl)amine) that model the non-heme site in the enzyme. These complexes have been characterized by EPR, IR and UV-Vis spectroscopy. The reactivity with NO was then investigated, and it was found that the complex with the BMPA-carboxylate ligand as the non-heme component has a very low affinity for NO at the non-heme iron site. If the carboxylate functional group is replaced with a phenolate or pyridine group, reactivity is restored and formation of a diiron dinitrosyl complex was observed. Upon one-electron reduction of the nitrosylated complexes, following the semireduced pathway for NO reduction, formation of dinitrosyl iron complexes (DNICs) was observed in all three cases, but no N2O could be detected.
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Affiliation(s)
- Jill B Harland
- Department of Chemistry, The University of Michigan, Ann Arbor, MI 48109-1055, United States
| | - Subhra Samanta
- Department of Chemistry, The University of Michigan, Ann Arbor, MI 48109-1055, United States
| | - Nicolai Lehnert
- Department of Chemistry, The University of Michigan, Ann Arbor, MI 48109-1055, United States.
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12
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Tao W, Carter S, Trevino R, Zhang W, Shafaat HS, Zhang S. Reductive NO Coupling at Dicopper Center via a [Cu 2(NO) 2] 2+ Diamond-Core Intermediate. J Am Chem Soc 2022; 144:22633-22640. [PMID: 36469729 DOI: 10.1021/jacs.2c09523] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Treatment of a dicopper(I,I) complex with excess amounts of NO leads to the formation of a dicopper dinitrosyl [Cu2(NO)2]2+ complex capable of (i) releasing two equivalents of NO reversibly in 90% yield and (ii) reacting with another equivalent of NO to afford N2O and dicopper nitrosyl oxo species [Cu2(NO)(O)]2+. Resonance Raman characterization of the [Cu2(NO)2]2+ complex shows a 15N-sensitive N═O stretch at 1527.6 cm-1 and two Cu-N stretches at 390.6 and 414.1 cm-1, supporting a symmetric diamond-core structure with bis-μ-NO ligands. The conversion of [Cu2(NO)2]2+ to [Cu2(NO)O]2+ occurs via a rate-limiting reaction with NO and bypasses the dicopper oxo intermediate, a mechanism distinct from that of diFe-mediated NO reduction to N2O.
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Affiliation(s)
- Wenjie Tao
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, United States
| | - Samantha Carter
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, United States
| | - Regina Trevino
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, United States
| | - Weiyao Zhang
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, United States
| | - Hannah S Shafaat
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, United States
| | - Shiyu Zhang
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, United States
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13
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Aryal B, Gurung R, Camargo AF, Fongaro G, Treichel H, Mainali B, Angove MJ, Ngo HH, Guo W, Puadel SR. Nitrous oxide emission in altered nitrogen cycle and implications for climate change. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 314:120272. [PMID: 36167167 DOI: 10.1016/j.envpol.2022.120272] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2022] [Revised: 08/28/2022] [Accepted: 09/21/2022] [Indexed: 06/16/2023]
Abstract
Natural processes and human activities play a crucial role in changing the nitrogen cycle and increasing nitrous oxide (N2O) emissions, which are accelerating at an unprecedented rate. N2O has serious global warming potential (GWP), about 310 times higher than that of carbon dioxide. The food production, transportation, and energy required to sustain a world population of seven billion have required dramatic increases in the consumption of synthetic nitrogen (N) fertilizers and fossil fuels, leading to increased N2O in air and water. These changes have radically disturbed the nitrogen cycle and reactive nitrogen species, such as nitrous oxide (N2O), and have impacted the climatic system. Yet, systematic and comprehensive studies on various underlying processes and parameters in the altered nitrogen cycle, and their implications for the climatic system are still lacking. This paper reviews how the nitrogen cycle has been disturbed and altered by anthropogenic activities, with a central focus on potential pathways of N2O generation. The authors also estimate the N2O-N emission mainly due to anthropogenic activities will be around 8.316 Tg N2O-N yr-1 in 2050. In order to minimize and tackle the N2O emissions and its consequences on the global ecosystem and climate change, holistic mitigation strategies and diverse adaptations, policy reforms, and public awareness are suggested as vital considerations. This study concludes that rapidly increasing anthropogenic perturbations, the identification of new microbial communities, and their role in mediating biogeochemical processes now shape the modern nitrogen cycle.
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Affiliation(s)
- Babita Aryal
- Naaya Aayam Multidisciplinary Institute, NAMI, University of Northampton, Jorpati, Kathmandu, Nepal
| | - Roshni Gurung
- Naaya Aayam Multidisciplinary Institute, NAMI, University of Northampton, Jorpati, Kathmandu, Nepal
| | - Aline F Camargo
- Federal University of Santa Catarina, Post-graduation Program in Biotechnology and Biosciences, Florianopólis, Brazil; Laboratory of Microbiology and Bioprocesses, Federal University of Fronteira Sul, Erechim, Brazil
| | - Gislaine Fongaro
- Laboratory of Applied Virology, Department of Microbiology, Immunology and Parasitology, Federal University of Santa Catarina, 88040-900, Florianópolis, SC, Brazil
| | - Helen Treichel
- Laboratory of Microbiology and Bioprocesses, Federal University of Fronteira Sul, Erechim, Brazil
| | - Bandita Mainali
- School of Engineering and Mathematical Sciences, La Trobe University, Bendigo, VIC, 3550, Australia; School of Engineering, Macquarie University, Sydney, Australia
| | - Michael J Angove
- Department of Pharmacy and Biomedical Science, La Trobe Institute for Molecular Science (LIMS), La Trobe University, Bendigo, VIC-3550, Australia
| | - Huu Hao Ngo
- Faculty of Engineering, University of Technology Sydney (UTS), PO Box 123, Broadway, NSW, 2007, Australia
| | - Wenshan Guo
- Faculty of Engineering, University of Technology Sydney (UTS), PO Box 123, Broadway, NSW, 2007, Australia
| | - Shukra Raj Puadel
- Department of Civil Engineering, Pulchowk Campus, Institute of Engineering, Tribhuwan University, Pulchowk, Lalitpur, 44700, Nepal; Department of Environmental Engineering, College of Science and Technology, Korea University, Sejong, Republic of Korea.
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14
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Dey A, Albert T, Kong RY, Macmillan SN, Moënne-Loccoz P, Lancaster KM, Goldberg DP. Direct Reduction of NO to N 2O by a Mononuclear Nonheme Thiolate Ligated Iron(II) Complex via Formation of a Metastable {FeNO} 7 Complex. Inorg Chem 2022; 61:14909-14917. [PMID: 36107151 PMCID: PMC9555345 DOI: 10.1021/acs.inorgchem.2c02383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Addition of NO to a nonheme dithiolate-ligated iron(II) complex, FeII(Me3TACN)(S2SiMe2) (1), results in the generation of N2O. Low-temperature spectroscopic studies reveal a metastable six-coordinate {FeNO}7 intermediate (S = 3/2) that was trapped at -135 °C and was characterized by low-temperature UV-vis, resonance Raman, EPR, Mössbauer, XAS, and DFT studies. Thermal decay of the {FeNO}7 species leads to the evolution of N2O, providing a rare example of a mononuclear thiolate-ligated {FeNO}7 that mediates NO reduction to N2O without the requirement of any exogenous electron or proton sources.
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Affiliation(s)
- Aniruddha Dey
- Department of Chemistry, The Johns Hopkins University, Baltimore, MD 21218, United States
| | - Therese Albert
- Department of Chemical Physiology and Biochemistry, Oregon Health & Science University, Portland, OR 97239, Unites States
| | - Richard Y. Kong
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853, Unites States
| | - Samantha N. Macmillan
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853, Unites States
| | - Pierre Moënne-Loccoz
- Department of Chemical Physiology and Biochemistry, Oregon Health & Science University, Portland, OR 97239, Unites States
| | - Kyle M. Lancaster
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853, Unites States
| | - David P. Goldberg
- Department of Chemistry, The Johns Hopkins University, Baltimore, MD 21218, United States
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15
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Ghosh P, Stauffer M, Hosseininasab V, Kundu S, Bertke JA, Cundari TR, Warren TH. NO Coupling at Copper to cis-Hyponitrite: N 2O Formation via Protonation and H-Atom Transfer. J Am Chem Soc 2022; 144:15093-15099. [PMID: 35948086 PMCID: PMC9536194 DOI: 10.1021/jacs.2c04033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Copper nitrite reductases (CuNIRs) convert NO2- to NO as well as NO to N2O under high NO flux at a mononuclear type 2 Cu center. While model complexes illustrate N-N coupling from NO that results in symmetric trans-hyponitrite [CuII]-ONNO-[CuII] complexes, we report NO assembly at a single Cu site in the presence of an external reductant Cp*2M (M = Co, Fe) to give the first copper cis-hyponitrites [Cp*2M]{[CuII](κ2-O2N2)[CuI]}. Importantly, the κ1-N-bound [CuI] fragment may be easily removed by the addition of mild Lewis bases such as CNAr or pyridine to form the spectroscopically similar anion {[CuII](κ2-O2N2)}-. The addition of electrophiles such as H+ to these anionic copper(II) cis-hyponitrites leads to N2O generation with the formation of the dicopper(II)-bis-μ-hydroxide [CuII]2(μ-OH)2. One-electron oxidation of the {[CuII](κ2-O2N2)}- core turns on H-atom transfer reactivity, enabling the oxidation of 9,10-dihydroanthracene to anthracene with concomitant formation of N2O and [CuII]2(μ-OH)2. These studies illustrate both the reductive coupling of NO at a single copper center and a way to harness the strong oxidizing power of nitric oxide via the neutral cis-hyponitrite [Cu](κ2-O2N2).
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Affiliation(s)
- Pokhraj Ghosh
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
- Department of Chemistry, Georgetown University, Washington, D. C. 20057, United States
| | - Molly Stauffer
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
- Department of Chemistry, Georgetown University, Washington, D. C. 20057, United States
| | | | - Subrata Kundu
- Department of Chemistry, Georgetown University, Washington, D. C. 20057, United States
- School of Chemistry, Indian Institute of Science Education and Research Thiruvananthapuram, Kerala 695551, India
| | - Jeffery A. Bertke
- Department of Chemistry, Georgetown University, Washington, D. C. 20057, United States
| | - Thomas R. Cundari
- Department of Chemistry, University of North Texas, Denton, Texas 76203, United States
| | - Timothy H. Warren
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
- Department of Chemistry, Georgetown University, Washington, D. C. 20057, United States
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16
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Van Stappen C, Deng Y, Liu Y, Heidari H, Wang JX, Zhou Y, Ledray AP, Lu Y. Designing Artificial Metalloenzymes by Tuning of the Environment beyond the Primary Coordination Sphere. Chem Rev 2022; 122:11974-12045. [PMID: 35816578 DOI: 10.1021/acs.chemrev.2c00106] [Citation(s) in RCA: 32] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Metalloenzymes catalyze a variety of reactions using a limited number of natural amino acids and metallocofactors. Therefore, the environment beyond the primary coordination sphere must play an important role in both conferring and tuning their phenomenal catalytic properties, enabling active sites with otherwise similar primary coordination environments to perform a diverse array of biological functions. However, since the interactions beyond the primary coordination sphere are numerous and weak, it has been difficult to pinpoint structural features responsible for the tuning of activities of native enzymes. Designing artificial metalloenzymes (ArMs) offers an excellent basis to elucidate the roles of these interactions and to further develop practical biological catalysts. In this review, we highlight how the secondary coordination spheres of ArMs influence metal binding and catalysis, with particular focus on the use of native protein scaffolds as templates for the design of ArMs by either rational design aided by computational modeling, directed evolution, or a combination of both approaches. In describing successes in designing heme, nonheme Fe, and Cu metalloenzymes, heteronuclear metalloenzymes containing heme, and those ArMs containing other metal centers (including those with non-native metal ions and metallocofactors), we have summarized insights gained on how careful controls of the interactions in the secondary coordination sphere, including hydrophobic and hydrogen bonding interactions, allow the generation and tuning of these respective systems to approach, rival, and, in a few cases, exceed those of native enzymes. We have also provided an outlook on the remaining challenges in the field and future directions that will allow for a deeper understanding of the secondary coordination sphere a deeper understanding of the secondary coordintion sphere to be gained, and in turn to guide the design of a broader and more efficient variety of ArMs.
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Affiliation(s)
- Casey Van Stappen
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States
| | - Yunling Deng
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States
| | - Yiwei Liu
- Department of Chemistry, University of Illinois, Urbana-Champaign, 505 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Hirbod Heidari
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States
| | - Jing-Xiang Wang
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States
| | - Yu Zhou
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States
| | - Aaron P Ledray
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States
| | - Yi Lu
- Department of Chemistry, University of Texas at Austin, 105 East 24th Street, Austin, Texas 78712, United States.,Department of Chemistry, University of Illinois, Urbana-Champaign, 505 South Mathews Avenue, Urbana, Illinois 61801, United States
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17
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Kametani Y, Abe T, Yoshizawa K, Shiota Y. Mechanistic study on reduction of nitric oxide to nitrous oxide using a dicopper complex. Dalton Trans 2022; 51:5399-5403. [PMID: 35316312 DOI: 10.1039/d2dt00275b] [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 density functional theory study was carried out to investigate the reduction mechanisms of NO to N2O using a dicopper complex reported by Zhang and coworkers (J. Am. Chem. Soc., 2019, 141, 10159-10164). The reaction mechanism consists of three steps: N-N bond formation, isomerization of the resultant N2O2 moiety, and cleavage of the N-O bond.
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Affiliation(s)
- Yohei Kametani
- Institute for Materials Chemistry and Engineering and IRCCS, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, Japan.
| | - Tsukasa Abe
- Department of Basic Science, Graduate School of Arts and Sciences, The University of Tokyo, 3-8-1 Komaba, Meguro-ku, Tokyo 153-8902, Japan
| | - Kazunari Yoshizawa
- Institute for Materials Chemistry and Engineering and IRCCS, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, Japan.
| | - Yoshihito Shiota
- Institute for Materials Chemistry and Engineering and IRCCS, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, Japan.
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18
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He HY, Niikura H, Du YL, Ryan KS. Synthetic and biosynthetic routes to nitrogen-nitrogen bonds. Chem Soc Rev 2022; 51:2991-3046. [PMID: 35311838 DOI: 10.1039/c7cs00458c] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The nitrogen-nitrogen bond is a core feature of diverse functional groups like hydrazines, nitrosamines, diazos, and pyrazoles. Such functional groups are found in >300 known natural products. Such N-N bond-containing functional groups are also found in significant percentage of clinical drugs. Therefore, there is wide interest in synthetic and enzymatic methods to form nitrogen-nitrogen bonds. In this review, we summarize synthetic and biosynthetic approaches to diverse nitrogen-nitrogen-bond-containing functional groups, with a focus on biosynthetic pathways and enzymes.
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Affiliation(s)
- Hai-Yan He
- Department of Chemistry, University of British Columbia, Vancouver, Canada. .,Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Haruka Niikura
- Department of Chemistry, University of British Columbia, Vancouver, Canada.
| | - Yi-Ling Du
- Institute of Pharmaceutical Biotechnology, Zhejiang University School of Medicine, Hangzhou, China
| | - Katherine S Ryan
- Department of Chemistry, University of British Columbia, Vancouver, Canada.
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19
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Interactions of N-hydroxyamphetamine with an iron porphyrin: A unique intramolecular H-bond probed by DFT calculations. J Inorg Biochem 2022; 231:111779. [DOI: 10.1016/j.jinorgbio.2022.111779] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 02/03/2022] [Accepted: 02/22/2022] [Indexed: 11/18/2022]
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20
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Alig L, Eisenlohr KA, Zelenkova Y, Rosendahl S, Herbst‐Irmer R, Demeshko S, Holthausen MC, Schneider S. Rhenium‐Mediated Conversion of Dinitrogen and Nitric Oxide to Nitrous Oxide. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202113340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Lukas Alig
- Georg-August-Universität Göttingen Institut für Anorganische Chemie Tammannstrasse 4 37077 Göttingen Germany
| | - Kim A. Eisenlohr
- Goethe-Universität Frankfurt Institut für Anorganische und Analytische Chemie Max-von-Laue-Straße 7 60438 Frankfurt am Main Germany
| | - Yaroslava Zelenkova
- Georg-August-Universität Göttingen Institut für Anorganische Chemie Tammannstrasse 4 37077 Göttingen Germany
| | - Sven Rosendahl
- Georg-August-Universität Göttingen Institut für Anorganische Chemie Tammannstrasse 4 37077 Göttingen Germany
| | - Regine Herbst‐Irmer
- Georg-August-Universität Göttingen Institut für Anorganische Chemie Tammannstrasse 4 37077 Göttingen Germany
| | - Serhiy Demeshko
- Georg-August-Universität Göttingen Institut für Anorganische Chemie Tammannstrasse 4 37077 Göttingen Germany
| | - Max C. Holthausen
- Goethe-Universität Frankfurt Institut für Anorganische und Analytische Chemie Max-von-Laue-Straße 7 60438 Frankfurt am Main Germany
| | - Sven Schneider
- Georg-August-Universität Göttingen Institut für Anorganische Chemie Tammannstrasse 4 37077 Göttingen Germany
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21
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Lehnert N, Kim E, Dong HT, Harland JB, Hunt AP, Manickas EC, Oakley KM, Pham J, Reed GC, Alfaro VS. The Biologically Relevant Coordination Chemistry of Iron and Nitric Oxide: Electronic Structure and Reactivity. Chem Rev 2021; 121:14682-14905. [PMID: 34902255 DOI: 10.1021/acs.chemrev.1c00253] [Citation(s) in RCA: 92] [Impact Index Per Article: 30.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
Nitric oxide (NO) is an important signaling molecule that is involved in a wide range of physiological and pathological events in biology. Metal coordination chemistry, especially with iron, is at the heart of many biological transformations involving NO. A series of heme proteins, nitric oxide synthases (NOS), soluble guanylate cyclase (sGC), and nitrophorins, are responsible for the biosynthesis, sensing, and transport of NO. Alternatively, NO can be generated from nitrite by heme- and copper-containing nitrite reductases (NIRs). The NO-bearing small molecules such as nitrosothiols and dinitrosyl iron complexes (DNICs) can serve as an alternative vehicle for NO storage and transport. Once NO is formed, the rich reaction chemistry of NO leads to a wide variety of biological activities including reduction of NO by heme or non-heme iron-containing NO reductases and protein post-translational modifications by DNICs. Much of our understanding of the reactivity of metal sites in biology with NO and the mechanisms of these transformations has come from the elucidation of the geometric and electronic structures and chemical reactivity of synthetic model systems, in synergy with biochemical and biophysical studies on the relevant proteins themselves. This review focuses on recent advancements from studies on proteins and model complexes that not only have improved our understanding of the biological roles of NO but also have provided foundations for biomedical research and for bio-inspired catalyst design in energy science.
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Affiliation(s)
- Nicolai Lehnert
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Eunsuk Kim
- Department of Chemistry, Brown University, Providence, Rhode Island 02912, United States
| | - Hai T Dong
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Jill B Harland
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Andrew P Hunt
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Elizabeth C Manickas
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Kady M Oakley
- Department of Chemistry, Brown University, Providence, Rhode Island 02912, United States
| | - John Pham
- Department of Chemistry, Brown University, Providence, Rhode Island 02912, United States
| | - Garrett C Reed
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Victor Sosa Alfaro
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
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22
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Zhao G, Peng W, Song K, Shi J, Lu X, Wang B, Du YL. Molecular basis of enzymatic nitrogen-nitrogen formation by a family of zinc-binding cupin enzymes. Nat Commun 2021; 12:7205. [PMID: 34893622 PMCID: PMC8664883 DOI: 10.1038/s41467-021-27523-x] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Accepted: 11/19/2021] [Indexed: 11/26/2022] Open
Abstract
Molecules with a nitrogen-nitrogen (N-N) bond in their structures exhibit various biological activities and other unique properties. A few microbial proteins are recently emerging as dedicated N-N bond forming enzymes in natural product biosynthesis. However, the details of these biochemical processes remain largely unknown. Here, through in vitro biochemical characterization and computational studies, we report the molecular basis of hydrazine bond formation by a family of di-domain enzymes. These enzymes are widespread in bacteria and sometimes naturally exist as two standalone enzymes. We reveal that the methionyl-tRNA synthase-like domain/protein catalyzes ATP-dependent condensation of two amino acids substrates to form a highly unstable ester intermediate, which is subsequently captured by the zinc-binding cupin domain/protein and undergoes redox-neutral intramolecular rearrangement to give the N-N bond containing product. These results provide important mechanistic insights into enzymatic N-N bond formation and should facilitate future development of novel N-N forming biocatalyst.
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Affiliation(s)
- Guiyun Zhao
- grid.13402.340000 0004 1759 700XState Key Laboratory for Diagnosis and Treatment of Infectious Diseases, The First Affiliated Hospital, School of Medicine, Zhejiang University, 310003 Hangzhou, China ,grid.13402.340000 0004 1759 700XInstitute of Pharmaceutical Biotechnology, School of Medicine, Zhejiang University, 310058 Hangzhou, China
| | - Wei Peng
- grid.12955.3a0000 0001 2264 7233State Key Laboratory of Physical Chemistry of Solid Surfaces and Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, 361005 Xiamen, China
| | - Kaihui Song
- grid.13402.340000 0004 1759 700XInstitute of Pharmaceutical Biotechnology, School of Medicine, Zhejiang University, 310058 Hangzhou, China
| | - Jingkun Shi
- grid.13402.340000 0004 1759 700XInstitute of Pharmaceutical Biotechnology, School of Medicine, Zhejiang University, 310058 Hangzhou, China
| | - Xingyu Lu
- grid.494629.40000 0004 8008 9315Key Laboratory of Precise Synthesis of Functional Molecules of Zhejiang Province, School of Science, Instrumentation and Service Center for Molecular Sciences, Westlake University, 310024 Hangzhou, China
| | - Binju Wang
- State Key Laboratory of Physical Chemistry of Solid Surfaces and Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, 361005, Xiamen, China.
| | - Yi-Ling Du
- State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, The First Affiliated Hospital, School of Medicine, Zhejiang University, 310003, Hangzhou, China. .,Institute of Pharmaceutical Biotechnology, School of Medicine, Zhejiang University, 310058, Hangzhou, China.
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23
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Kroneck PMH. Nature's nitrite-to-ammonia expressway, with no stop at dinitrogen. J Biol Inorg Chem 2021; 27:1-21. [PMID: 34865208 PMCID: PMC8840924 DOI: 10.1007/s00775-021-01921-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2021] [Accepted: 11/22/2021] [Indexed: 12/26/2022]
Abstract
Since the characterization of cytochrome c552 as a multiheme nitrite reductase, research on this enzyme has gained major interest. Today, it is known as pentaheme cytochrome c nitrite reductase (NrfA). Part of the NH4+ produced from NO2- is released as NH3 leading to nitrogen loss, similar to denitrification which generates NO, N2O, and N2. NH4+ can also be used for assimilatory purposes, thus NrfA contributes to nitrogen retention. It catalyses the six-electron reduction of NO2- to NH4+, hosting four His/His ligated c-type hemes for electron transfer and one structurally differentiated active site heme. Catalysis occurs at the distal side of a Fe(III) heme c proximally coordinated by lysine of a unique CXXCK motif (Sulfurospirillum deleyianum, Wolinella succinogenes) or, presumably, by the canonical histidine in Campylobacter jejeuni. Replacement of Lys by His in NrfA of W. succinogenes led to a significant loss of enzyme activity. NrfA forms homodimers as shown by high resolution X-ray crystallography, and there exist at least two distinct electron transfer systems to the enzyme. In γ-proteobacteria (Escherichia coli) NrfA is linked to the menaquinol pool in the cytoplasmic membrane through a pentaheme electron carrier (NrfB), in δ- and ε-proteobacteria (S. deleyianum, W. succinogenes), the NrfA dimer interacts with a tetraheme cytochrome c (NrfH). Both form a membrane-associated respiratory complex on the extracellular side of the cytoplasmic membrane to optimize electron transfer efficiency. This minireview traces important steps in understanding the nature of pentaheme cytochrome c nitrite reductases, and discusses their structural and functional features.
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Affiliation(s)
- Peter M H Kroneck
- Department of Biology, University of Konstanz, Universitätsstrasse 10, 78457, Konstanz, Germany.
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24
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Marks WR, Reinheimer EW, Seda T, Zakharov LN, Gilbertson JD. NO Coupling by Nonclassical Dinuclear Dinitrosyliron Complexes to Form N 2O Dictated by Hemilability. Inorg Chem 2021; 60:15901-15909. [PMID: 34514780 DOI: 10.1021/acs.inorgchem.1c02285] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Selective coupling of NO by a nonclassical dinuclear dinitrosyliron complex (D-DNIC) to form N2O is reported. The coupling is facilitated by the pyridinediimine (PDI) ligand scaffold, which enables the necessary denticity changes to produce mixed-valent, electron-deficient tethered DNICs. One-electron oxidation of the [{Fe(NO)2}]210/10 complex Fe2(PyrrPDI)(NO)4 (4) results in NO coupling to form N2O via the mixed-valent {[Fe(NO)2]2}9/10 species, which possesses an electron-deficient four-coordinate {Fe(NO)2}10 site, crucial in N-N bond formation. The hemilability of the PDI scaffold dictates the selectivity in N-N bond formation because stabilization of the five-coordinate {Fe(NO)2}9 site in the mixed-valent [{Fe(NO)2}]29/10 species, [Fe2(Pyr2PDI)(NO)4][PF6] (6), does not result in an electron-deficient, four-coordinate {Fe(NO)2}10 site, and hence no N-N coupling is observed.
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Affiliation(s)
- Walker R Marks
- Department of Chemistry, Western Washington University, Bellingham, Washington 98225, United States
| | | | - Takele Seda
- Department of Physics, Western Washington University, Bellingham, Washington 98225, United States
| | - Lev N Zakharov
- Department of Chemistry, University of Oregon, Eugene, Oregon 97403, United States
| | - John D Gilbertson
- Department of Chemistry, Western Washington University, Bellingham, Washington 98225, United States
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25
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Alig L, Eisenlohr KA, Zelenkova Y, Rosendahl S, Herbst-Irmer R, Demeshko S, Holthausen MC, Schneider S. Rhenium-Mediated Conversion of Dinitrogen and Nitric Oxide to Nitrous Oxide. Angew Chem Int Ed Engl 2021; 61:e202113340. [PMID: 34714956 PMCID: PMC9299976 DOI: 10.1002/anie.202113340] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Indexed: 11/28/2022]
Abstract
Reductive splitting of N2 is an attractive strategy towards nitrogen fixation beyond ammonia at ambient conditions. However, the resulting nitride complexes often suffer from thermodynamic overstabilization hampering functionalization. Furthermore, oxidative nitrogen atom transfer of N2 derived nitrides remains unknown. We here report a ReIV pincer platform that mediates N2 splitting upon chemical reduction or electrolysis with unprecedented yield. The N2 derived ReV nitrides undergo facile nitrogen atom transfer to nitric oxide, giving nitrous oxide nearly quantitatively. Experimental and computational results indicate that outer‐sphere ReN/NO radical coupling is facilitated by the activation of the nitride via initial coordination of NO.
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Affiliation(s)
- Lukas Alig
- Georg-August-Universität Göttingen, Institut für Anorganische Chemie, Tammannstrasse 4, 37077, Göttingen, Germany
| | - Kim A Eisenlohr
- Goethe-Universität Frankfurt, Institut für Anorganische und Analytische Chemie, Max-von-Laue-Straße 7, 60438, Frankfurt am Main, Germany
| | - Yaroslava Zelenkova
- Georg-August-Universität Göttingen, Institut für Anorganische Chemie, Tammannstrasse 4, 37077, Göttingen, Germany
| | - Sven Rosendahl
- Georg-August-Universität Göttingen, Institut für Anorganische Chemie, Tammannstrasse 4, 37077, Göttingen, Germany
| | - Regine Herbst-Irmer
- Georg-August-Universität Göttingen, Institut für Anorganische Chemie, Tammannstrasse 4, 37077, Göttingen, Germany
| | - Serhiy Demeshko
- Georg-August-Universität Göttingen, Institut für Anorganische Chemie, Tammannstrasse 4, 37077, Göttingen, Germany
| | - Max C Holthausen
- Goethe-Universität Frankfurt, Institut für Anorganische und Analytische Chemie, Max-von-Laue-Straße 7, 60438, Frankfurt am Main, Germany
| | - Sven Schneider
- Georg-August-Universität Göttingen, Institut für Anorganische Chemie, Tammannstrasse 4, 37077, Göttingen, Germany
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26
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Dey A, Gordon JB, Albert T, Sabuncu S, Siegler MA, MacMillan SN, Lancaster KM, Moënne‐Loccoz P, Goldberg DP. A Nonheme Mononuclear {FeNO}
7
Complex that Produces N
2
O in the Absence of an Exogenous Reductant. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202109062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Aniruddha Dey
- Department of Chemistry The Johns Hopkins University Baltimore MD 21218 USA
| | - Jesse B. Gordon
- Department of Chemistry The Johns Hopkins University Baltimore MD 21218 USA
| | - Therese Albert
- Department of Chemical Physiology and Biochemistry Oregon Health & Science University Portland OR 97239 USA
| | - Sinan Sabuncu
- Department of Chemical Physiology and Biochemistry Oregon Health & Science University Portland OR 97239 USA
| | - Maxime A. Siegler
- Department of Chemistry The Johns Hopkins University Baltimore MD 21218 USA
| | | | - Kyle M. Lancaster
- Department of Chemistry and Chemical Biology Cornell University Ithaca NY 14853 USA
| | - Pierre Moënne‐Loccoz
- Department of Chemical Physiology and Biochemistry Oregon Health & Science University Portland OR 97239 USA
| | - David P. Goldberg
- Department of Chemistry The Johns Hopkins University Baltimore MD 21218 USA
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27
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Dey A, Gordon JB, Albert T, Sabuncu S, Siegler MA, MacMillan SN, Lancaster KM, Moënne-Loccoz P, Goldberg DP. A Nonheme Mononuclear {FeNO} 7 Complex that Produces N 2 O in the Absence of an Exogenous Reductant. Angew Chem Int Ed Engl 2021; 60:21558-21564. [PMID: 34415659 DOI: 10.1002/anie.202109062] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Indexed: 11/09/2022]
Abstract
A new nonheme iron(II) complex, FeII (Me3 TACN)((OSiPh2 )2 O) (1), is reported. Reaction of 1 with NO(g) gives a stable mononitrosyl complex Fe(NO)(Me3 TACN)((OSiPh2 )2 O) (2), which was characterized by Mössbauer (δ=0.52 mm s-1 , |ΔEQ |=0.80 mm s-1 ), EPR (S=3/2), resonance Raman (RR) and Fe K-edge X-ray absorption spectroscopies. The data show that 2 is an {FeNO}7 complex with an S=3/2 spin ground state. The RR spectrum (λexc =458 nm) of 2 combined with isotopic labeling (15 N, 18 O) reveals ν(N-O)=1680 cm-1 , which is highly activated, and is a nearly identical match to that seen for the reactive mononitrosyl intermediate in the nonheme iron enzyme FDPnor (ν(NO)=1681 cm-1 ). Complex 2 reacts rapidly with H2 O in THF to produce the N-N coupled product N2 O, providing the first example of a mononuclear nonheme iron complex that is capable of converting NO to N2 O in the absence of an exogenous reductant.
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Affiliation(s)
- Aniruddha Dey
- Department of Chemistry, The Johns Hopkins University, Baltimore, MD, 21218, USA
| | - Jesse B Gordon
- Department of Chemistry, The Johns Hopkins University, Baltimore, MD, 21218, USA
| | - Therese Albert
- Department of Chemical Physiology and Biochemistry, Oregon Health & Science University, Portland, OR, 97239, USA
| | - Sinan Sabuncu
- Department of Chemical Physiology and Biochemistry, Oregon Health & Science University, Portland, OR, 97239, USA
| | - Maxime A Siegler
- Department of Chemistry, The Johns Hopkins University, Baltimore, MD, 21218, USA
| | - Samantha N MacMillan
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA
| | - Kyle M Lancaster
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA
| | - Pierre Moënne-Loccoz
- Department of Chemical Physiology and Biochemistry, Oregon Health & Science University, Portland, OR, 97239, USA
| | - David P Goldberg
- Department of Chemistry, The Johns Hopkins University, Baltimore, MD, 21218, USA
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28
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Beagan DM, Cabelof AC, Pink M, Carta V, Gao X, Caulton KG. Nickel-mediated N-N bond formation and N 2O liberation via nitrogen oxyanion reduction. Chem Sci 2021; 12:10664-10672. [PMID: 34447560 PMCID: PMC8356809 DOI: 10.1039/d1sc02846d] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Accepted: 07/13/2021] [Indexed: 12/26/2022] Open
Abstract
The syntheses of (DIM)Ni(NO3)2 and (DIM)Ni(NO2)2, where DIM is a 1,4-diazadiene bidentate donor, are reported to enable testing of bis boryl reduced N-heterocycles for their ability to carry out stepwise deoxygenation of coordinated nitrate and nitrite, forming O(Bpin)2. Single deoxygenation of (DIM)Ni(NO2)2 yields the tetrahedral complex (DIM)Ni(NO)(ONO), with a linear nitrosyl and κ1-ONO. Further deoxygenation of (DIM)Ni(NO)(ONO) results in the formation of dimeric [(DIM)Ni(NO)]2, where the dimer is linked through a Ni–Ni bond. The lost reduced nitrogen byproduct is shown to be N2O, indicating N–N bond formation in the course of the reaction. Isotopic labelling studies establish that the N–N bond of N2O is formed in a bimetallic Ni2 intermediate and that the two nitrogen atoms of (DIM)Ni(NO)(ONO) become symmetry equivalent prior to N–N bond formation. The [(DIM)Ni(NO)]2 dimer is susceptible to oxidation by AgX (X = NO3−, NO2−, and OTf−) as well as nitric oxide, the latter of which undergoes nitric oxide disproportionation to yield N2O and (DIM)Ni(NO)(ONO). We show that the first step in the deoxygenation of (DIM)Ni(NO)(ONO) to liberate N2O is outer sphere electron transfer, providing insight into the organic reductants employed for deoxygenation. Lastly, we show that at elevated temperatures, deoxygenation is accompanied by loss of DIM to form either pyrazine or bipyridine bridged polymers, with retention of a BpinO− bridging ligand. Deoxygenation of nitrogen oxyanions coordinated to nickel using reduced borylated heterocycles leads to N–N bond formation and N2O liberation. The nickel dimer product facilitates NO disproportionation, leading to a synthetic cycle.![]()
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Affiliation(s)
- Daniel M Beagan
- Indiana University, Department of Chemistry 800 E. Kirkwood Ave. Bloomington IN 47401 USA
| | - Alyssa C Cabelof
- Indiana University, Department of Chemistry 800 E. Kirkwood Ave. Bloomington IN 47401 USA
| | - Maren Pink
- Indiana University, Department of Chemistry 800 E. Kirkwood Ave. Bloomington IN 47401 USA
| | - Veronica Carta
- Indiana University, Department of Chemistry 800 E. Kirkwood Ave. Bloomington IN 47401 USA
| | - Xinfeng Gao
- Indiana University, Department of Chemistry 800 E. Kirkwood Ave. Bloomington IN 47401 USA
| | - Kenneth G Caulton
- Indiana University, Department of Chemistry 800 E. Kirkwood Ave. Bloomington IN 47401 USA
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29
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Pal N, Jana M, Majumdar A. Reduction of NO by diiron complexes in relation to flavodiiron nitric oxide reductases. Chem Commun (Camb) 2021; 57:8682-8698. [PMID: 34373873 DOI: 10.1039/d1cc03149j] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Reduction of nitric oxide (NO) to nitrous oxide (N2O) is associated with immense biological and health implications. Flavodiiron nitric oxide reductases (FNORs) are diiron containing enzymes that catalyze the two electron reduction of NO to N2O and help certain pathogenic bacteria to survive under "nitrosative stress" in anaerobic growth conditions. Consequently, invading bacteria can proliferate inside the body of mammals by bypassing the immune defense mechanism involving NO and may thus lead to harmful infections. Various mechanisms, namely the direct reduction, semireduction, superreduction and hyponitrite mechanisms, have been proposed over time for catalytic NO reduction by FNORs. Model studies in relation to the diiron active site of FNORs have immensely helped to replicate the minimal structure-reactivity relationship and to understand the mechanism of NO reduction. A brief overview of the FNOR activity and the proposed reaction mechanisms followed by a systematic description and detailed analysis of the model studies is presented, which describes the development in the area of NO reduction by diiron complexes and its implications. A great deal of successful modeling chemistry as well as the shortcomings related to the synthesis and reactivity studies is discussed in detail. Finally, future prospects in this particular area of research are proposed, which in due course may bring more clarity in the understanding of this important redox reaction.
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Affiliation(s)
- Nabhendu Pal
- School of Chemical Sciences, Indian Association for the Cultivation of Science, 2A & 2B Raja S. C. Mullick Road, Kolkata 700032, India.
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30
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Tao W, Moore CE, Zhang S. Redox-Neutral S-nitrosation Mediated by a Dicopper Center. Angew Chem Int Ed Engl 2021; 60:15980-15987. [PMID: 33913605 DOI: 10.1002/anie.202102589] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2021] [Revised: 04/18/2021] [Indexed: 11/08/2022]
Abstract
A redox-neutral S-nitrosation of thiol has been achieved at a dicopper(I,I) center. Treatment of dicopper (I,I) complex with excess NO. and thiol generates a dicopper (I,I) di-S-nitrosothiol complex [CuI CuI (RSNO)2 ]2+ or dicopper (I,I) mono-S-nitrosothiol complex [CuI CuI (RSNO)]2+ , which readily release RSNO in 88-94 % yield. The S-nitrosation proceeds by a mixed-valence [CuII CuIII (μ-O)(μ-NO)]2+ species, which deprotonates RS-H at the basic μ-O site and nitrosates RS- at the μ-NO site. The [CuII CuIII (μ-O)(μ-NO)]2+ complex is also competent for O-nitrosation of MeOH. A rare [CuII CuII (μ-NO)(OMe)]2+ intermediate was isolated and fully characterized, suggesting the S-nitrosation may proceed through the intermediary of analogous [CuII CuII (μ-NO)(SR)]2+ species. This redox- and proton-neutral S-nitrosation process is the first functional model of ceruloplasmin in mediating S-nitrosation of external thiols, with implications for biological copper sites in the interconversion of NO. /RSNO.
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Affiliation(s)
- Wenjie Tao
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, OH, 43210, USA
| | - Curtis E Moore
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, OH, 43210, USA
| | - Shiyu Zhang
- Department of Chemistry & Biochemistry, The Ohio State University, 100 West 18th Avenue, Columbus, OH, 43210, USA
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31
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Tao W, Moore CE, Zhang S. Redox‐Neutral
S
‐nitrosation Mediated by a Dicopper Center. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202102589] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Wenjie Tao
- Department of Chemistry & Biochemistry The Ohio State University 100 West 18th Avenue Columbus OH 43210 USA
| | - Curtis E. Moore
- Department of Chemistry & Biochemistry The Ohio State University 100 West 18th Avenue Columbus OH 43210 USA
| | - Shiyu Zhang
- Department of Chemistry & Biochemistry The Ohio State University 100 West 18th Avenue Columbus OH 43210 USA
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32
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Wu WY, Tsai ML, Lai YA, Hsieh CH, Liaw WF. NO Reduction to N2O Triggered by a Dinuclear Dinitrosyl Iron Complex via the Associated Pathways of Hyponitrite Formation and NO Disproportionation. Inorg Chem 2021; 60:15874-15889. [DOI: 10.1021/acs.inorgchem.1c00541] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Wun-Yan Wu
- Department of Chemistry and Frontier Research Center of Fundamental and Applied Science of Matters, National Tsing Hua University, Hsinchu 30013, Taiwan
| | - Ming-Li Tsai
- Department of Chemistry, National Sun Yat-sen University, Kaohsiung 80424, Taiwan
| | - Yi-An Lai
- Department of Chemistry and Frontier Research Center of Fundamental and Applied Science of Matters, National Tsing Hua University, Hsinchu 30013, Taiwan
| | - Chieh-Hsin Hsieh
- Department of Chemistry and Frontier Research Center of Fundamental and Applied Science of Matters, National Tsing Hua University, Hsinchu 30013, Taiwan
| | - Wen-Feng Liaw
- Department of Chemistry and Frontier Research Center of Fundamental and Applied Science of Matters, National Tsing Hua University, Hsinchu 30013, Taiwan
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33
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Ropponen HK, Bader CD, Diamanti E, Illarionov B, Rottmann M, Fischer M, Witschel M, Müller R, Hirsch AKH. Search for the Active Ingredients from a 2-Aminothiazole DMSO Stock Solution with Antimalarial Activity. ChemMedChem 2021; 16:2089-2093. [PMID: 33844432 PMCID: PMC8360061 DOI: 10.1002/cmdc.202100067] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 03/17/2021] [Indexed: 12/31/2022]
Abstract
Chemical decomposition of DMSO stock solutions is a common incident that can mislead biological screening campaigns. Here, we share our case study of 2‐aminothiazole 1, originating from an antimalarial class that undergoes chemical decomposition in DMSO at room temperature. As previously measured biological activities observed against Plasmodium falciparum NF54 and for the target enzyme PfIspE were not reproducible for a fresh batch, we tackled the challenge to understand where the activity originated from. Solvent‐ and temperature‐dependent studies using HRMS and NMR spectroscopy to monitor the decomposition led to the isolation and in vitro evaluation of several fractions against PfIspE. After four days of decomposition, we successfully isolated the oxygenated and dimerised compounds using SFC purification and correlated the observed activities to them. Due to the unstable nature of the two isolates, it is likely that they undergo further decomposition contributing to the overall instability of the compound.
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Affiliation(s)
- Henni-Karoliina Ropponen
- Helmholtz-Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz-Centre for Infection Research (HZI), Campus E8.1, 66123, Saarbrücken, Germany.,Department of Pharmacy, Saarland University, Campus E8.1, 66123, Saarbrücken, Germany
| | - Chantal D Bader
- Helmholtz-Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz-Centre for Infection Research (HZI), Campus E8.1, 66123, Saarbrücken, Germany.,Department of Pharmacy, Saarland University, Campus E8.1, 66123, Saarbrücken, Germany
| | - Eleonora Diamanti
- Helmholtz-Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz-Centre for Infection Research (HZI), Campus E8.1, 66123, Saarbrücken, Germany.,Department of Pharmacy, Saarland University, Campus E8.1, 66123, Saarbrücken, Germany.,Helmholtz International Lab for Anti-Infectives, Campus E8.1, 66123, Saarbrücken, Germany
| | - Boris Illarionov
- Hamburg School of Food Science, University of Hamburg, Grindelallee 117, 20146, Hamburg, Germany
| | - Matthias Rottmann
- Swiss Tropical and Public Health Institute, Socinstrasse 57, 4002, Basel, Switzerland.,Universität Basel, Petersplatz 1, 4003, Basel, Switzerland
| | - Markus Fischer
- Hamburg School of Food Science, University of Hamburg, Grindelallee 117, 20146, Hamburg, Germany
| | | | - Rolf Müller
- Helmholtz-Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz-Centre for Infection Research (HZI), Campus E8.1, 66123, Saarbrücken, Germany.,Department of Pharmacy, Saarland University, Campus E8.1, 66123, Saarbrücken, Germany.,Helmholtz International Lab for Anti-Infectives, Campus E8.1, 66123, Saarbrücken, Germany
| | - Anna K H Hirsch
- Helmholtz-Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz-Centre for Infection Research (HZI), Campus E8.1, 66123, Saarbrücken, Germany.,Department of Pharmacy, Saarland University, Campus E8.1, 66123, Saarbrücken, Germany.,Helmholtz International Lab for Anti-Infectives, Campus E8.1, 66123, Saarbrücken, Germany
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34
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Chen L, Deng Z, Zhao C. Nitrogen-Nitrogen Bond Formation Reactions Involved in Natural Product Biosynthesis. ACS Chem Biol 2021; 16:559-570. [PMID: 33721494 DOI: 10.1021/acschembio.1c00052] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Construction of nitrogen-nitrogen bonds involves sophisticated biosynthetic mechanisms to overcome the difficulties inherent to the nucleophilic nitrogen atom of amine. Over the past decade, a multitude of reactions responsible for nitrogen-nitrogen bond formation in natural product biosynthesis have been uncovered. On the basis of the intrinsic properties of these reactions, this Review classifies these reactions into three categories: comproportionation, rearrangement, and radical recombination reactions. To expound the metallobiochemistry underlying nitrogen-nitrogen bond formation reactions, we discuss the enzymatic mechanisms in comparison to well characterized canonical heme-dependent enzymes, mononuclear nonheme iron-dependent enzymes, and nonheme di-iron enzymes. We also illuminate the intermediary properties of nitrogen oxide species NO2-, NO+, and N2O3 in nitrogen-nitrogen bond formation reactions with clues derived from inorganic nitrogen metabolism driven by anammox bacteria and nitrifying bacteria. These multidimentional discussions will provide further insights into the mechanistic proposals of nitrogen-nitrogen bond formation in natural product biosynthesis.
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Affiliation(s)
- Linyue Chen
- Key Laboratory of Combinatory Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, School of Pharmaceutical Sciences, Wuhan University, Hubei 430072, People’s Republic of China
| | - Zixin Deng
- Key Laboratory of Combinatory Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, School of Pharmaceutical Sciences, Wuhan University, Hubei 430072, People’s Republic of China
| | - Changming Zhao
- Key Laboratory of Combinatory Biosynthesis and Drug Discovery (Wuhan University), Ministry of Education, School of Pharmaceutical Sciences, Wuhan University, Hubei 430072, People’s Republic of China
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35
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Nitrogen isotope effects can be used to diagnose N transformations in wastewater anammox systems. Sci Rep 2021; 11:7850. [PMID: 33846510 PMCID: PMC8041819 DOI: 10.1038/s41598-021-87184-0] [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: 12/23/2020] [Accepted: 03/22/2021] [Indexed: 11/08/2022] Open
Abstract
Anaerobic ammonium oxidation (anammox) plays an important role in aquatic systems as a sink of bioavailable nitrogen (N), and in engineered processes by removing ammonium from wastewater. The isotope effects anammox imparts in the N isotope signatures (15N/14N) of ammonium, nitrite, and nitrate can be used to estimate its role in environmental settings, to describe physiological and ecological variations in the anammox process, and possibly to optimize anammox-based wastewater treatment. We measured the stable N-isotope composition of ammonium, nitrite, and nitrate in wastewater cultivations of anammox bacteria. We find that the N isotope enrichment factor 15ε for the reduction of nitrite to N2 is consistent across all experimental conditions (13.5‰ ± 3.7‰), suggesting it reflects the composition of the anammox bacteria community. Values of 15ε for the oxidation of nitrite to nitrate (inverse isotope effect, - 16 to - 43‰) and for the reduction of ammonium to N2 (normal isotope effect, 19-32‰) are more variable, and likely controlled by experimental conditions. We argue that the variations in the isotope effects can be tied to the metabolism and physiology of anammox bacteria, and that the broad range of isotope effects observed for anammox introduces complications for analyzing N-isotope mass balances in natural systems.
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36
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Sun C, Yang L, Ortuño MA, Wright AM, Chen T, Head AR, López N, Dincă M. Spectroscopic Evidence of Hyponitrite Radical Intermediate in NO Disproportionation at a MOF-Supported Mononuclear Copper Site. Angew Chem Int Ed Engl 2021; 60:7845-7850. [PMID: 33645907 DOI: 10.1002/anie.202015359] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2020] [Indexed: 12/11/2022]
Abstract
Dianionic hyponitrite (N2 O2 2- ) is often proposed, based on model complexes, as the key intermediate in reductive coupling of nitric oxide to nitrous oxide at the bimetallic active sites of heme-copper oxidases and nitric oxide reductases. In this work, we examine the gas-solid reaction of nitric oxide with the metal-organic framework CuI -ZrTpmC* with a suite of in situ spectroscopies and density functional theory simulations, and identify an unusual chelating N2 O2 .- intermediate. These results highlight the advantage provided by site-isolation in metal-organic frameworks (MOFs) for studying important reaction intermediates, and provide a mechanistic scenario compatible with the proposed one-electron couple in these enzymes.
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Affiliation(s)
- Chenyue Sun
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
| | - Luming Yang
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
| | - Manuel A Ortuño
- Institute of Chemical Research of Catalonia, The Barcelona Institute of Science and Technology, Av. Països Catalans 16, 43007, Tarragona, Spain
| | - Ashley M Wright
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
| | - Tianyang Chen
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
| | - Ashley R Head
- Center for Functional Nanomaterials, Brookhaven National Laboratory, Upton, NY, 11973, USA
| | - Núria López
- Institute of Chemical Research of Catalonia, The Barcelona Institute of Science and Technology, Av. Països Catalans 16, 43007, Tarragona, Spain
| | - Mircea Dincă
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
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37
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Sun C, Yang L, Ortuño MA, Wright AM, Chen T, Head AR, López N, Dincă M. Spectroscopic Evidence of Hyponitrite Radical Intermediate in NO Disproportionation at a MOF‐Supported Mononuclear Copper Site. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202015359] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Chenyue Sun
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
| | - Luming Yang
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
| | - Manuel A. Ortuño
- Institute of Chemical Research of Catalonia The Barcelona Institute of Science and Technology Av. Països Catalans 16 43007 Tarragona Spain
| | - Ashley M. Wright
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
| | - Tianyang Chen
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
| | - Ashley R. Head
- Center for Functional Nanomaterials Brookhaven National Laboratory Upton NY 11973 USA
| | - Núria López
- Institute of Chemical Research of Catalonia The Barcelona Institute of Science and Technology Av. Països Catalans 16 43007 Tarragona Spain
| | - Mircea Dincă
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
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38
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Abstract
In this Viewpoint, we address some of the limitations within our current understanding of the complex chemistry of the enzymes used in the Nitrogen Cycle. Further understanding of these chemical processes will play a large role in limiting the anthropogenic effects on our environment.
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Affiliation(s)
- Nicolai Lehnert
- Department of Chemistry and Department of Biophysics, The University of Michigan, Ann Arbor, MI 48109-1055, USA.
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39
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Reed CJ, Lam QN, Mirts EN, Lu Y. Molecular understanding of heteronuclear active sites in heme-copper oxidases, nitric oxide reductases, and sulfite reductases through biomimetic modelling. Chem Soc Rev 2021; 50:2486-2539. [PMID: 33475096 PMCID: PMC7920998 DOI: 10.1039/d0cs01297a] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Heme-copper oxidases (HCO), nitric oxide reductases (NOR), and sulfite reductases (SiR) catalyze the multi-electron and multi-proton reductions of O2, NO, and SO32-, respectively. Each of these reactions is important to drive cellular energy production through respiratory metabolism and HCO, NOR, and SiR evolved to contain heteronuclear active sites containing heme/copper, heme/nonheme iron, and heme-[4Fe-4S] centers, respectively. The complexity of the structures and reactions of these native enzymes, along with their large sizes and/or membrane associations, make it challenging to fully understand the crucial structural features responsible for the catalytic properties of these active sites. In this review, we summarize progress that has been made to better understand these heteronuclear metalloenzymes at the molecular level though study of the native enzymes along with insights gained from biomimetic models comprising either small molecules or proteins. Further understanding the reaction selectivity of these enzymes is discussed through comparisons of their similar heteronuclear active sites, and we offer outlook for further investigations.
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Affiliation(s)
- Christopher J Reed
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urban, IL 61801, USA.
| | - Quan N Lam
- Department of Biochemistry, University of Illinois at Urbana-Champaign, Urban, IL 61801, USA
| | - Evan N Mirts
- Center for Biophysics and Quantitative Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA and Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Yi Lu
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urban, IL 61801, USA. and Department of Biochemistry, University of Illinois at Urbana-Champaign, Urban, IL 61801, USA and Center for Biophysics and Quantitative Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA and Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
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40
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Rathnayaka SC, Mankad NP. Coordination chemistry of the Cu Z site in nitrous oxide reductase and its synthetic mimics. Coord Chem Rev 2021; 429:213718. [PMID: 33692589 PMCID: PMC7939133 DOI: 10.1016/j.ccr.2020.213718] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Atmospheric nitrous oxide (N2O) has garnered significant attention recently due to its dual roles as an ozone depletion agent and a potent greenhouse gas. Anthropogenic N2O emissions occur primarily through agricultural disruption of nitrogen homeostasis causing N2O to build up in the atmosphere. The enzyme responsible for N2O fixation within the geochemical nitrogen cycle is nitrous oxide reductase (N2OR), which catalyzes 2H+/2e- reduction of N2O to N2 and H2O at a tetranuclear active site, CuZ. In this review, the coordination chemistry of CuZ is reviewed. Recent advances in the understanding of biological CuZ coordination chemistry is discussed, as are significant breakthroughs in synthetic modeling of CuZ that have emerged in recent years. The latter topic includes both structurally faithful, synthetic [Cu4(µ4-S)] clusters that are able to reduce N2O, as well as dicopper motifs that shed light on reaction pathways available to the critical CuI-CuIV cluster edge of CuZ. Collectively, these advances in metalloenzyme studies and synthetic model systems provide meaningful knowledge about the physiologically relevant coordination chemistry of CuZ but also open new questions that will pose challenges in the near future.
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Affiliation(s)
- Suresh C. Rathnayaka
- Department of Chemistry, University of Illinois at Chicago, 845 W. Taylor St., Chicago, IL 60607, United States
| | - Neal P. Mankad
- Department of Chemistry, University of Illinois at Chicago, 845 W. Taylor St., Chicago, IL 60607, United States
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41
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Zhang L, Bill E, Kroneck PMH, Einsle O. Histidine-Gated Proton-Coupled Electron Transfer to the CuA Site of Nitrous Oxide Reductase. J Am Chem Soc 2020; 143:830-838. [DOI: 10.1021/jacs.0c10057] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Lin Zhang
- Institut für Biochemie, Albert-Ludwigs-Universität Freiburg, Albertstraße 21, 79104 Freiburg im Breisgau, Germany
| | - Eckhard Bill
- Max-Planck-Institut für Chemische Energiekonversion, Stiftstraße 34-36, D-45470 Mülheim an der Ruhr, Germany
| | | | - Oliver Einsle
- Institut für Biochemie, Albert-Ludwigs-Universität Freiburg, Albertstraße 21, 79104 Freiburg im Breisgau, Germany
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42
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Nurdin L, Yang Y, Neate PGN, Piers WE, Maron L, Neidig ML, Lin JB, Gelfand BS. Activation of ammonia and hydrazine by electron rich Fe(ii) complexes supported by a dianionic pentadentate ligand platform through a common terminal Fe(iii) amido intermediate. Chem Sci 2020; 12:2231-2241. [PMID: 34163989 PMCID: PMC8179247 DOI: 10.1039/d0sc06466a] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Abstract
We report the use of electron rich iron complexes supported by a dianionic diborate pentadentate ligand system, B2Pz4Py, for the coordination and activation of ammonia (NH3) and hydrazine (NH2NH2). For ammonia, coordination to neutral (B2Pz4Py)Fe(ii) or cationic [(B2Pz4Py)Fe(iii)]+ platforms leads to well characterized ammine complexes from which hydrogen atoms or protons can be removed to generate, fleetingly, a proposed (B2Pz4Py)Fe(iii)–NH2 complex (3Ar-NH2). DFT computations suggest a high degree of spin density on the amido ligand, giving it significant aminyl radical character. It rapidly traps the H atom abstracting agent 2,4,6-tri-tert-butylphenoxy radical (ArO˙) to form a C–N bond in a fully characterized product (2Ar), or scavenges hydrogen atoms to return to the ammonia complex (B2Pz4Py)Fe(ii)–NH3 (1Ar-NH3). Interestingly, when (B2Pz4Py)Fe(ii) is reacted with NH2NH2, a hydrazine bridged dimer, (B2Pz4Py)Fe(ii)–NH2NH2–Fe(ii)(B2Pz4Py) ((1Ar)2-NH2NH2), is observed at −78 °C and converts to a fully characterized bridging diazene complex, 4Ar, along with ammonia adduct 1Ar-NH3 as it is allowed to warm to room temperature. Experimental and computational evidence is presented to suggest that (B2Pz4Py)Fe(ii) induces reductive cleavage of the N–N bond in hydrazine to produce the Fe(iii)–NH2 complex 3Ar-NH2, which abstracts H˙ atoms from (1Ar)2-NH2NH2 to generate the observed products. All of these transformations are relevant to proposed steps in the ammonia oxidation reaction, an important process for the use of nitrogen-based fuels enabled by abundant first row transition metals. Synopsis: a highly reactive Fe(iii)–NH2 complex is generated via activation of ammonia or hydrazine in reactions of relevance to fundamental steps in ammonia oxidation processes mediated by an abundant, first row transition metal.![]()
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Affiliation(s)
- Lucie Nurdin
- Department of Chemistry, University of Calgary 2500 University Drive NW Calgary Alberta T2N 1N4 Canada
| | - Yan Yang
- LPCNO, Université de Toulouse, INSA, UPS Toulouse France
| | - Peter G N Neate
- Department of Chemistry, University of Rochester Rochester New York 14627 USA
| | - Warren E Piers
- Department of Chemistry, University of Calgary 2500 University Drive NW Calgary Alberta T2N 1N4 Canada
| | - Laurent Maron
- LPCNO, Université de Toulouse, INSA, UPS Toulouse France
| | - Michael L Neidig
- Department of Chemistry, University of Rochester Rochester New York 14627 USA
| | - Jian-Bin Lin
- Department of Chemistry, University of Calgary 2500 University Drive NW Calgary Alberta T2N 1N4 Canada
| | - Benjamin S Gelfand
- Department of Chemistry, University of Calgary 2500 University Drive NW Calgary Alberta T2N 1N4 Canada
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43
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Abstract
Ammonia-oxidizing bacteria (AOB) convert ammonia (NH3) to nitrite (NO2-) as their primary metabolism and thus provide a blueprint for the use of NH3 as a chemical fuel. The first energy-producing step involves the homotrimeric enzyme hydroxylamine oxidoreductase (HAO), which was originally reported to oxidize hydroxylamine (NH2OH) to NO2-. HAO uses the heme P460 cofactor as the site of catalysis. This heme is supported by seven other c hemes in each monomer that mediate electron transfer. Heme P460 cofactors are c-heme-based cofactors that have atypical protein cross-links between the peptide backbone and the porphyrin macrocycle. This cofactor has been observed in both the HAO and cytochrome (cyt) P460 protein families. However, there are differences; specifically, HAO uses a single tyrosine residue to form two covalent attachments to the macrocycle whereas cyt P460 uses a lysine residue to form one. In Nitrosomonas europaea, which expresses both HAO and cyt P460, these enzymes achieve the oxidation of NH2OH and were both originally reported to produce NO2-. Each can inspire means to effect controlled release of chemical energy.Spectroscopically studying the P460 cofactors of HAO is complicated by the 21 non-P460 heme cofactors, which obscure the active site. However, monoheme cyt P460 is more approachable biochemically and spectroscopically. Thus, we have used cyt P460 to study biological NH2OH oxidation. Under aerobic conditions substoichiometric production of NO2- was observed along with production of nitrous oxide (N2O). Under anaerobic conditions, however, N2O was the exclusive product of NH2OH oxidation. We have advanced our understanding of the mechanism of this enzyme and have showed that a key intermediate is a ferric nitrosyl that can dissociate the bound nitric oxide (NO) molecule and react with O2, thus producing NO2- abiotically. Because N2O was the true product of one P460 cofactor-containing enzyme, this prompted us to reinvestigate whether NO2- is enzymatically generated from HAO catalysis. Like cyt P460, we showed that HAO does not produce NO2- enzymatically, but unlike cyt P460, its final product is NO, establishing it as an intermediate of nitrification. More broadly, NO can be recognized as a molecule common to the primary metabolisms of all organisms involved in nitrogen "defixation".Delving deeper into cyt P460 yielded insights broadly applicable to controlled biochemical redox processes. Studies of an inactive cyt P460 from Nitrosomonas sp. AL212 showed that this enzyme was unable to oxidize NH2OH because it lacked a glutamate residue in its secondary coordination sphere that was present in the active N. europaea cyt P460 variant. Restoring the Glu residue imbued activity, revealing that a second-sphere base is Nature's key to controlled oxidation of NH2OH. A key lesson of bioinorganic chemistry is reinforced: the polypeptide matrix is an essential part of dictating function. Our work also exposed some key functional contributions of noncanonical heme-protein cross-links. The heme-Lys cross-link of cyt P460 enforces the relative position of the cofactor and second-sphere residues. Moreover, the cross-link prevents the dissociation of the axial histidine residue, which stops catalysis, emphasizing the importance of this unique post-translational modification.
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Affiliation(s)
- Rachael E. Coleman
- Baker Laboratory, Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, United States
| | - Kyle M. Lancaster
- Baker Laboratory, Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, United States
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44
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Dong HT, Chalkley MJ, Oyala PH, Zhao J, Alp EE, Hu MY, Peters JC, Lehnert N. Exploring the Limits of Dative Boratrane Bonding: Iron as a Strong Lewis Base in Low-Valent Non-Heme Iron-Nitrosyl Complexes. Inorg Chem 2020; 59:14967-14982. [PMID: 32989992 PMCID: PMC7640944 DOI: 10.1021/acs.inorgchem.0c01686] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
We previously reported the synthesis and preliminary characterization of a unique series of low-spin (ls) {FeNO}8-10 complexes supported by an ambiphilic trisphosphineborane ligand, [Fe(TPB)(NO)]+/0/-. Herein, we use advanced spectroscopic techniques and density functional theory (DFT) calculations to extract detailed information as to how the bonding changes across the redox series. We find that, in spite of the highly reduced nature of these complexes, they feature an NO+ ligand throughout with strong Fe-NO π-backbonding and essentially closed-shell electronic structures of their FeNO units. This is enabled by an Fe-B interaction that is present throughout the series. In particular, the most reduced [Fe(TPB)(NO)]- complex, an example of a ls-{FeNO}10 species, features a true reverse dative Fe → B bond where the Fe center acts as a strong Lewis-base. Hence, this complex is in fact electronically similar to the ls-{FeNO}8 system, with two additional electrons "stored" on site in an Fe-B single bond. The outlier in this series is the ls-{FeNO}9 complex, due to spin polarization (quantified by pulse EPR spectroscopy), which weakens the Fe-NO bond. These data are further contextualized by comparison with a related N2 complex, [Fe(TPB)(N2)]-, which is a key intermediate in Fe(TPB)-catalyzed N2 fixation. Our present study finds that the Fe → B interaction is key for storing the electrons needed to achieve a highly reduced state in these systems, and highlights the pitfalls associated with using geometric parameters to try to evaluate reverse dative interactions, a finding with broader implications to the study of transition metal complexes with boratrane and related ligands.
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Affiliation(s)
- Hai T. Dong
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
| | - Matthew J. Chalkley
- Department of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Paul H. Oyala
- Department of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Jiyong Zhao
- Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, Illinois 60439, United States
| | - E. Ercan Alp
- Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, Illinois 60439, United States
| | - Michael Y. Hu
- Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, Illinois 60439, United States
| | - Jonas C. Peters
- Department of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | - Nicolai Lehnert
- Department of Chemistry and Department of Biophysics, University of Michigan, Ann Arbor, Michigan 48109-1055, United States
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45
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Dunn PL, Cook BJ, Johnson SI, Appel AM, Bullock RM. Oxidation of Ammonia with Molecular Complexes. J Am Chem Soc 2020; 142:17845-17858. [PMID: 32977718 DOI: 10.1021/jacs.0c08269] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Oxidation of ammonia by molecular complexes is a burgeoning area of research, with critical scientific challenges that must be addressed. A fundamental understanding of individual reaction steps is needed, particularly for cleavage of N-H bonds and formation of N-N bonds. This Perspective evaluates the challenges of designing molecular catalysts for oxidation of ammonia and highlights recent key contributions to realizing the goals of viable energy storage and retrieval based on the N-H bonds of ammonia in a carbon-free energy cycle.
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Affiliation(s)
- Peter L Dunn
- Center for Molecular Electrocatalysis, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Brian J Cook
- Center for Molecular Electrocatalysis, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Samantha I Johnson
- Center for Molecular Electrocatalysis, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Aaron M Appel
- Center for Molecular Electrocatalysis, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - R Morris Bullock
- Center for Molecular Electrocatalysis, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
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46
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Melin F, Hellwig P. Redox Properties of the Membrane Proteins from the Respiratory Chain. Chem Rev 2020; 120:10244-10297. [DOI: 10.1021/acs.chemrev.0c00249] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Frederic Melin
- Chimie de la Matière Complexe UMR 7140, Laboratoire de Bioelectrochimie et Spectroscopie, CNRS-Université de Strasbourg, 1 rue Blaise Pascal, 67070 Strasbourg, France
| | - Petra Hellwig
- Chimie de la Matière Complexe UMR 7140, Laboratoire de Bioelectrochimie et Spectroscopie, CNRS-Université de Strasbourg, 1 rue Blaise Pascal, 67070 Strasbourg, France
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47
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Coleman RE, Vilbert AC, Lancaster KM. The Heme-Lys Cross-Link in Cytochrome P460 Promotes Catalysis by Enforcing Secondary Coordination Sphere Architecture. Biochemistry 2020; 59:2289-2298. [PMID: 32525655 DOI: 10.1021/acs.biochem.0c00261] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Cytochrome (cyt) P460 is a c-type monoheme enzyme found in ammonia-oxidizing bacteria (AOB) and methanotrophs; additionally, genes encoding it have been found in some pathogenic bacteria. Cyt P460 is defined by a unique post-translational modification to the heme macrocycle, where a lysine (Lys) residue covalently attaches to the 13' meso carbon of the porphyrin, modifying this heme macrocycle into the enzyme's eponymous P460 cofactor, similar to the cofactor found in the enzyme hydroxylamine oxidoreductase. This cross-link imbues the protein with unique spectroscopic properties, the most obvious of which is the enzyme's green color in solution. Cyt P460 from the AOB Nitrosomonas europaea is a homodimeric redox enzyme that produces nitrous oxide (N2O) from 2 equiv of hydroxylamine. Mutation of the Lys cross-link results in spectroscopic features that are more similar to those of standard cyt c' proteins and renders the enzyme catalytically incompetent for NH2OH oxidation. Recently, the necessity of a second-sphere glutamate (Glu) residue for redox catalysis was established; it plausibly serves as proton relay during the first oxidative half of the catalytic cycle. Herein, we report the first crystal structure of a cross-link deficient cyt P460. This structure shows that the positioning of the catalytically essential Glu changes by approximately 0.8 Å when compared to a cross-linked, catalytically competent cyt P460. It appears that the heme-Lys cross-link affects the relative position of the P460 cofactor with respect to the second-sphere Glu residue, therefore dictating the catalytic competency of the enzyme.
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Affiliation(s)
- Rachael E Coleman
- Baker Laboratory, Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, United States
| | - Avery C Vilbert
- Baker Laboratory, Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, United States
| | - Kyle M Lancaster
- Baker Laboratory, Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, United States
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