1
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Werncke CG, Müller I, Weißer K, Limberg C. Divergent Interaction of (Iso)nitriles with a Linear Iron(I) Silylamide─A Combined Structural, Spectroscopic, and Computational Study. Inorg Chem 2024. [PMID: 39066707 DOI: 10.1021/acs.inorgchem.4c02882] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/30/2024]
Abstract
Nitriles and isonitriles are important σ-donor ligands in coordination chemistry. Isonitriles also function in low-valent complexes as π-acceptor ligands similar to CO. Herein we present the unusual behavior of the highly reducing, high-spin iron(I) complex [Fe(hmds)2]- toward these compound classes. Rare examples of side-on coordination of nitriles to the metal center are observed. Insights gained by 57Fe Mössbauer spectroscopy as well as DFT and CASSCF calculations give an interplay between the resonance structures of not only an iron(I) π-complex and an iron(III) metallacycle but also point to the importance of an iron(II) nitrile radical anion. For an aromatic isonitrile end-on coordination is observed, which is best described as an iron(I) complex with only minor unpaired spin transfer onto the isonitrile. For aliphatic isonitriles, the selective R-CN bond cleavage occurs and yields stoichiometric mixtures of alkyl iron(II) and cyanido iron(II) complexes. Attempts to isolate presumed (iso)nitrile radical anions void of 3d-metal coordination give for the reaction of an aromatic isonitrile with KC8 facile reductive coupling to the corresponding diamido acetylene.
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Affiliation(s)
- C Gunnar Werncke
- Chemistry Department, Philipps-University Marburg, Hans-Meerwein-Straße 4, D-35043 Marburg, Germany
| | - Igor Müller
- Chemistry Department, Philipps-University Marburg, Hans-Meerwein-Straße 4, D-35043 Marburg, Germany
| | - Kilian Weißer
- Institute of Chemistry, Humboldt-University Berlin, Brook-Taylor-Str. 2, D-13089 Berlin, Germany
| | - Christian Limberg
- Institute of Chemistry, Humboldt-University Berlin, Brook-Taylor-Str. 2, D-13089 Berlin, Germany
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2
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Fraker A, Linn BN, McSkimming A. Low-Coordinate Iron Hydride Chemistry at an N,N,C-Heteroscorpionate Platform. Inorg Chem 2024. [PMID: 39037731 DOI: 10.1021/acs.inorgchem.4c01596] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/23/2024]
Abstract
Locally high-spin iron hydrides are proposed to play a critical role as intermediates in iron-molybdenum cofactor (FeMoco)-catalyzed N2 fixation. Inspired by these biological systems, we report herein our initial investigations into low-coordinate iron hydride chemistry supported by our N,N,C-heteroscorpionate ligands. Those ligands with smaller steric profiles are unable to completely suppress the formation of a binuclear [Fe(μ2-H)]2 complex; however, the incorporation of more substantial steric bulk allows for the isolation of a rare example of a terminal, high-spin (S = 2) Fe2+ hydride. Fourier transform infrared spectroscopy suggests an unusually weak Fe-H bond in the latter molecule. Mössbauer spectroscopies, coupled with density functional theory calculations, highlights the substantial influence of the terminal hydride ligand on 57Fe isomer shift.
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Affiliation(s)
- Addison Fraker
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118, United States
| | - Brittany N Linn
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Alex McSkimming
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118, United States
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3
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Jiang H, Ryde U. Putative reaction mechanism of nitrogenase with a half-dissociated S2B ligand. Dalton Trans 2024; 53:11500-11513. [PMID: 38916132 DOI: 10.1039/d4dt00937a] [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: 06/26/2024]
Abstract
We have studied whether dissociation of the S2B sulfide ligand from one of its two coordinating Fe ions may affect the later parts of the reaction mechanism of nitrogenase. Such dissociation has been shown to be favourable for the E2-E4 states in the reaction mechanism, but previous studies have assumed that S2B either remains bridging or has fully dissociated from the active-site FeMo cluster. We employ combined quantum mechanical and molecular mechanical (QM/MM) calculations with two density-functional theory methods, r2SCAN and TPSSh. To make dissociation of S2B possible, we have added a proton to this group throughout the reaction. We study the reaction starting from the E4 state with N2H2 bound to the cluster. Our results indicate that half-dissociation of S2B is unfavourable in most steps of the reaction mechanism. We observe favourable half-dissociation of S2B only when NH or NH2 is bound to the cluster, bridging Fe2 and Fe6. However, the former state is most likely not involved in the reaction mechanism and the latter state is only an intermittent intermediate of the E7 state. Therefore, half-dissociation of S2B seems to play only a minor role in the later parts of the reaction mechanism of nitrogenase. Our suggested mechanism with a protonated S2B is alternating (the two N atoms of the substrate is protonated in an alternating manner) and the substrate prefers to bind to Fe2, in contrast to the preferred binding to Fe6 observed when S2B is unprotonated and bridging Fe2 and Fe6.
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Affiliation(s)
- Hao Jiang
- Department of Computational Chemistry, Lund University, Chemical Centre, P. O. Box 124, SE-221 00 Lund, Sweden.
| | - Ulf Ryde
- Department of Computational Chemistry, Lund University, Chemical Centre, P. O. Box 124, SE-221 00 Lund, Sweden.
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4
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Leyser da Costa Gouveia T, Maganas D, Neese F. Restricted Open-Shell Hartree-Fock Method for a General Configuration State Function Featuring Arbitrarily Complex Spin-Couplings. J Phys Chem A 2024; 128:5041-5053. [PMID: 38886177 PMCID: PMC11215774 DOI: 10.1021/acs.jpca.4c00688] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Revised: 05/30/2024] [Accepted: 05/30/2024] [Indexed: 06/20/2024]
Abstract
In this work, we present a general spin restricted open-shell Hartree-Fock (ROHF) implementation that is able to generate self-consistent field (SCF) wave functions for an arbitrary configuration state function (CSF). These CSFs can contain an arbitrary number of unpaired electrons in arbitrary spin-couplings. The resulting method is named CSF-ROHF. We demonstrate that starting from the ROHF energy expression, for example, the one given by Edwards and Zerner, it is possible to obtain the values of the ROHF vector-coupling coefficients by setting up an open-shell for each group of consecutive parallel-coupled spins dictated by the unique spin-coupling pattern of any given CSF. To achieve this important and nontrivial goal, we employ the machinery of the iterative configuration expansion configuration interaction (ICE-CI) method, which is able to tackle general CI problems on the basis of spin-adapted CSFs. This development allows for the efficient generation of SCF spin-eigenfunctions for systems with complex spin-coupling patterns, such as polymetallic chains and metal clusters, while maintaining SCF scaling with system size (quadratic or less, depending on the specific algorithm and approximations chosen).
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Affiliation(s)
| | - Dimitrios Maganas
- Max-Planck-Institut für
Kohlenforschung, Kaiser-Wilhelm-Platz 1, Mülheim an der Ruhr 45470, Germany
| | - Frank Neese
- Max-Planck-Institut für
Kohlenforschung, Kaiser-Wilhelm-Platz 1, Mülheim an der Ruhr 45470, Germany
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5
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Zhang B, Joyce JP, Wolford NJ, Brennessel WW, DeBeer S, Neidig ML. Unusual S=1 Four-Coordinate Fe(IV) Complexes Supported by Bisamide Ligands: Syntheses, Characterization, and Electronic Structures. Angew Chem Int Ed Engl 2024:e202405113. [PMID: 38864588 DOI: 10.1002/anie.202405113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2024] [Revised: 06/11/2024] [Accepted: 06/12/2024] [Indexed: 06/13/2024]
Abstract
The catalytic relevance of Fe(IV) species in non-heme iron catalysis has motivated synthetic advances in well-defined five- and six-coordinate Fe(IV) complexes for a better understanding of their fundamental electronic structures and reactivities. Herein, we report the syntheses of FeDipp2 and FeMes2, a pair of unusual four-coordinate non-heme formally Fe(IV) complexes with S=1 ground states supported by strongly donating bisamide ligands. By combining spectroscopic characterization and computational modeling, we found that small variations in ligand aryl substituents resulted in substantial changes in both structures and bonding. This work highlights the strong donor capabilities and modularity of the bisamide ligand set. More broadly, it is a critical contribution to the utilization of ligand design to modulate molecular geometries and electronic structures of low-coordinate, high-valent iron complexes.
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Affiliation(s)
- Bufan Zhang
- Department of Chemistry, University of Rochester, Hutchison Hall, 120 Trustee Road, 14627, Rochester, NY, United States
- Department of Inorganic Spectroscopy, Max Planck Institute for Chemical Energy Conversion, Stiftstraße 34-36, 45470, Mülheim an der Ruhr, Germany
| | - Justin P Joyce
- Department of Inorganic Spectroscopy, Max Planck Institute for Chemical Energy Conversion, Stiftstraße 34-36, 45470, Mülheim an der Ruhr, Germany
| | - Nikki J Wolford
- Department of Chemistry, University of Rochester, Hutchison Hall, 120 Trustee Road, 14627, Rochester, NY, United States
| | - William W Brennessel
- Department of Chemistry, University of Rochester, Hutchison Hall, 120 Trustee Road, 14627, Rochester, NY, United States
| | - Serena DeBeer
- Department of Inorganic Spectroscopy, Max Planck Institute for Chemical Energy Conversion, Stiftstraße 34-36, 45470, Mülheim an der Ruhr, Germany
| | - Michael L Neidig
- Department of Chemistry, University of Oxford, Inorganic Chemistry Laboratory, South Parks Road, OX1 3QR, Oxford, United Kingdom
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6
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Gigli L, Silva JM, Cerofolini L, Macedo AL, Geraldes CFGC, Suturina EA, Calderone V, Fragai M, Parigi G, Ravera E, Luchinat C. Machine Learning-Enhanced Quantum Chemistry-Assisted Refinement of the Active Site Structure of Metalloproteins. Inorg Chem 2024; 63:10713-10725. [PMID: 38805564 DOI: 10.1021/acs.inorgchem.4c01274] [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: 05/30/2024]
Abstract
Understanding the fine structural details of inhibitor binding at the active site of metalloenzymes can have a profound impact on the rational drug design targeted to this broad class of biomolecules. Structural techniques such as NMR, cryo-EM, and X-ray crystallography can provide bond lengths and angles, but the uncertainties in these measurements can be as large as the range of values that have been observed for these quantities in all the published structures. This uncertainty is far too large to allow for reliable calculations at the quantum chemical (QC) levels for developing precise structure-activity relationships or for improving the energetic considerations in protein-inhibitor studies. Therefore, the need arises to rely upon computational methods to refine the active site structures well beyond the resolution obtained with routine application of structural methods. In a recent paper, we have shown that it is possible to refine the active site of cobalt(II)-substituted MMP12, a metalloprotein that is a relevant drug target, by matching to the experimental pseudocontact shifts (PCS) those calculated using multireference ab initio QC methods. The computational cost of this methodology becomes a significant bottleneck when the starting structure is not sufficiently close to the final one, which is often the case with biomolecular structures. To tackle this problem, we have developed an approach based on a neural network (NN) and a support vector regression (SVR) and applied it to the refinement of the active site structure of oxalate-inhibited human carbonic anhydrase 2 (hCAII), another prototypical metalloprotein target. The refined structure gives a remarkably good agreement between the QC-calculated and the experimental PCS. This study not only contributes to the knowledge of CAII but also demonstrates the utility of combining machine learning (ML) algorithms with QC calculations, offering a promising avenue for investigating other drug targets and complex biological systems in general.
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Affiliation(s)
- Lucia Gigli
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
| | - José Malanho Silva
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
- UCIBIO, Department of Chemistry, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2819-516 Caparica, Portugal
| | - Linda Cerofolini
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
| | - Anjos L Macedo
- UCIBIO, Department of Chemistry, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2819-516 Caparica, Portugal
- Associate Laboratory i4HB─Institute for Health and Bioeconomy, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2819-516 Caparica, Portugal
| | - Carlos F G C Geraldes
- Department of Life Sciences, Faculty of Science and Technology, 3000-393 Coimbra, Portugal
- Coimbra Chemistry Center─Institute of Molecular Sciences (CCC-IMS), University of Coimbra, 3004-535 Coimbra, Portugal
| | | | - Vito Calderone
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
| | - Marco Fragai
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
| | - Giacomo Parigi
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
| | - Enrico Ravera
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
- Florence Data Science, University of Florence, Florence 50134, Italy
| | - Claudio Luchinat
- Magnetic Resonance Center (CERM), University of Florence, Sesto Fiorentino 50019, Italy
- Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino 50019, Italy
- Consorzio Interuniversitario Risonanze Magnetiche Metallo Proteine (CIRMMP), Sesto Fiorentino 50019, Italy
- Giotto Biotech, S.R.L., Sesto Fiorentino 50019, Italy
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7
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Chivington AD, Squire S, Yamamoto N, Pink M, Griffith MD, Fletcher J, Gao Y, Zadrozny JM, Smith JM. Trimethylsilyldiazomethane Disassembly at a Three-Fold Symmetric Iron Site. Inorg Chem 2024; 63:10221-10229. [PMID: 38780069 DOI: 10.1021/acs.inorgchem.4c00604] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/25/2024]
Abstract
The reaction of equimolar trimethylsilyldiazomethyllithium (LiTMSD) with high spin (S = 2) PhB(AdIm)3FeCl (PhB(AdIm)3- = tris(3-adamantylimidazol-2-ylidene)phenylborate) affords the corresponding N-nitrilimido complex PhB(AdIm)3Fe-N═N═C(SiMe3). This complex can be converted to the thermodynamically more favorable C-isocyanoamido isomer PhB(AdIm)3Fe-C═N═N(SiMe3) by reaction with an additional equivalent of LiTMSD. While the iron(II) complexes are four-coordinate, the diazomethane is bound side-on in the iron(I) congener PhB(AdIm)3Fe(N,N'-κ2-N2C(H)Si(CH3)3). The latter complex adopts high spin (S = 3/2) ground state and features an unusually weak C-H bond. Photolysis of the iron(II) complexes induces N═N bond cleavage, with the iron(II) cyanide PhB(AdIm)3Fe-C≡N and iron(IV) nitride PhB(AdIm)3Fe≡N complexes being the major products of the reaction. The same products are obtained when the iron(I) complex is photolyzed or treated with a fluoride source. The trimethylsilyldiazomethane-derived ligand disassembly reactions are contrasted with those observed for related tris(carbene)amine complexes.
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Affiliation(s)
- Austin D Chivington
- Department of Chemistry, 800 E. Kirkwood Ave, Indiana University, Bloomington, Indiana 47405, United States
| | - Sammie Squire
- Department of Chemistry, 800 E. Kirkwood Ave, Indiana University, Bloomington, Indiana 47405, United States
| | - Nobuyuki Yamamoto
- Department of Chemistry, 800 E. Kirkwood Ave, Indiana University, Bloomington, Indiana 47405, United States
| | - Maren Pink
- Department of Chemistry, 800 E. Kirkwood Ave, Indiana University, Bloomington, Indiana 47405, United States
| | - Morgan D Griffith
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - Jess Fletcher
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - Yafei Gao
- Department of Chemistry, 800 E. Kirkwood Ave, Indiana University, Bloomington, Indiana 47405, United States
| | - Joseph M Zadrozny
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - Jeremy M Smith
- Department of Chemistry, 800 E. Kirkwood Ave, Indiana University, Bloomington, Indiana 47405, United States
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8
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Ye T, Li H, Xiao T, Sun Z. Bionic Design of Iron-Doped MoSe 2 Catalyst for Efficient Nitrogen Fixation. CHEMSUSCHEM 2024:e202400448. [PMID: 38797704 DOI: 10.1002/cssc.202400448] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2024] [Revised: 05/11/2024] [Accepted: 05/24/2024] [Indexed: 05/29/2024]
Abstract
The catalytic system of biological nitrogen fixation in nature primarily relies on the "FeMo cofactor" within nitrogenase enzymes. Inspired by this natural structure, we have designed a bionic inorganic counterpart, iron-doped MoSe2, for the efficient electroreduction of dinitrogen to ammonia. The introduced Fe dopant significantly enhances nitrogen fixation activity of MoSe2. Furthermore, we constructed a heterostructure catalyst, the Fe-MoSe2/Mo2C with more versatile Mo valence states. The heterostructured electrocatalyst achieves an ammonia production rate of 3.38 μg cm-2 h-1, and a Faradaic efficiency of 30.8 %, which is ~5 fold higher than that of pristine MoSe2. This study presents a novel approach for designing bionic nitrogen fixation electrocatalysts.
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Affiliation(s)
- Tong Ye
- Department of Chemistry, Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University, Shanghai, 200433, P. R. China
- School of Microelectronics, State Key Laboratory of ASIC and System, Fudan University, Shanghai, 200433, P. R. China
| | - Hongbin Li
- Department of Chemistry, Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University, Shanghai, 200433, P. R. China
| | - Taishi Xiao
- Department of Chemistry, Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University, Shanghai, 200433, P. R. China
| | - Zhengzong Sun
- Department of Chemistry, Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University, Shanghai, 200433, P. R. China
- School of Microelectronics, State Key Laboratory of ASIC and System, Fudan University, Shanghai, 200433, P. R. China
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9
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Dance I. What triggers the coupling of proton transfer and electron transfer at the active site of nitrogenase? Dalton Trans 2024; 53:7996-8004. [PMID: 38651170 DOI: 10.1039/d4dt00474d] [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: 04/25/2024]
Abstract
In converting N2 to NH3 the enzyme nitrogenase utilises 8 electrons and 8 protons in the complete catalytic cycle. The source of the electrons is an Fe4S4 reductase protein (Fe-protein) which temporarily docks with the MoFe-protein that contains the catalytic active cofactor, FeMo-co, and an electron transfer cluster called the P cluster. The overall mechanism involves 8 repetitions of a cycle in which reduced Fe-protein docks with the MoFe-protein, one electron transfers to the P-cluster, and then to FeMo-co, followed by dissociation of the two proteins and re-reduction of the Fe-protein. Protons are supplied serially to FeMo-co by a Grotthuss proton translocation mechanism from the protein surface along a conserved chain of water molecules (a proton wire) that terminates near S atoms of the FeMo-co cluster [CFe7S9Mo(homocitrate)] where the multiple steps of the chemical conversions are effected. It is assumed that the chemical mechanisms use proton-coupled electron-transfer (PCET) and that H atoms (e- + H+) are involved in each of the hydrogenation steps. However there is neither evidence for, or mechanism proposed, for this coupling. Here I report calculations of cluster charge distribution upon electron addition, revealing that the added negative charge is on the S atoms of FeMo-co, which thereby become more basic, and able to trigger proton transfer from H3O+ waiting at the near end of the proton wire. This mechanism is supported by calculations of the dynamics of the proton transfer step, in which the barrier is reduced by ca. 3.5 kcal mol-1 and the product stabilised by ca. 7 kcal mol-1 upon electron addition. H tunneling is probable in this step. In nitrogenase it is electron transfer that triggers proton transfer.
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Affiliation(s)
- Ian Dance
- School of Chemistry, UNSW Sydney, NSW 2052, Australia.
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10
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Xie ZL, Jin WT, Zhou ZH. Analyses of the electronic structures of FeFe-cofactors compared with those of FeMo- and FeV-cofactors and their P-clusters. Dalton Trans 2024; 53:6529-6536. [PMID: 38299993 DOI: 10.1039/d3dt04126c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2024]
Abstract
The electronic structures of FeFe-cofactors (FeFe-cos) in resting and turnover states, together with their PN clusters from iron-only nitrogenases, have been calculated using the bond valence method, and their crystallographic data were reported recently and deposited in the Protein Data Bank (PDB codes: 8BOQ and 8OIE). The calculated results have also been compared with those of their homologous Mo- and V-nitrogenases. For FeFe-cos in the resting state, Fe1/2/4/5/6/7/8 atoms are prone to Fe3+, while the Fe3 atom shows different degrees of mixed valences. The results support that the Fe8 atom at the terminal positions of FeFe-cos possesses the same oxidation states as the Mo3+/V3+ atoms of FeMo-/FeV-cos. In the turnover state, the overall oxidation state of FeFe-co is slightly reduced than those in the resting species, and its electronic configuration is rearranged after the substitution of S2B with OH, compatible with those found in CO-bound FeV-co. Moreover, the calculations give the formal oxidation states of 6Fe2+-2Fe3+ for the electronic structures of PN clusters in Fe-nitrogenases. By the comparison of Mo-, V- and Fe-nitrogenases, the overall oxidation levels of 7Fe atoms (Fe1-Fe7) for both FeFe- and FeMo-cos in resting states are found to be higher than that of FeV-co. For the PN clusters in MoFe-, VFe- and FeFe-proteins, they all exhibit a strong reductive character.
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Affiliation(s)
- Zhen-Lang Xie
- State Key Laboratory of Physical Chemistry of Solid Surfaces and College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China.
| | - Wan-Ting Jin
- College of Chemical and Material Engineering, Quzhou University, Quzhou, 324000, China
| | - Zhao-Hui Zhou
- State Key Laboratory of Physical Chemistry of Solid Surfaces and College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China.
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11
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Rall JM, Nork L, Engesser TA, Mayländer M, Weber S, Richert S, Krossing I. From the Iron Pentacarbonyl Cation to Heteroleptic η 6-arene Carbonyls and bis-η 6-arene Cations. Chemistry 2024; 30:e202400105. [PMID: 38299788 DOI: 10.1002/chem.202400105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Accepted: 02/01/2024] [Indexed: 02/02/2024]
Abstract
Partial ligand substitution at the iron pentacarbonyl radical cation generates novel half-sandwich complexes of the type [Fe(η6-arene)(CO)2]⋅+ (arene=1,3,5-tri-tert-butylbenzene, 1,3,5-trimethylbenzene, benzene and fluorobenzene). Of those, the bulkier 1,3,5-tri-tert-butylbenzene (mes*) derivative [Fe(mes*)(CO)2]⋅+ was fully characterized by XRD analysis, IR, NMR, cw-EPR, Mössbauer spectroscopy and cyclic voltammetry as the [Al(ORF)4]- (RF=C(CF3)3) salt. Chemical electronation, i. e., the single electron reduction, with decamethylferrocene generates neutral [Fe(mes*)(CO)2], whereas further deelectronation under CO-pressure leads to a dicationic three-legged [Fe(mes*)(CO)3]2+ salt with [Al(ORF)4]- counterion. The full substitution of the carbonyl ligands in [Fe(CO)5]⋅+[Al(ORF)4]- mainly resulted in disproportionation reactions, giving solid Fe(0) and the dicationic bis-arene salts [Fe(η6-arene)2]2+([Al(ORF)4]-)2 (arene=1,3,5-trimethylbenzene, benzene and fluorobenzene). Only by employing the very large fluoride bridged anion [F-{Al(ORF)3}2]-, it was possible to isolate an open shell bis-arene cation salt [Fe(C6H6)2]⋅+[F-{Al(ORF)3}2]-. The highly reactive cation was characterized by XRD analysis, cw-EPR, Mössbauer spectroscopy and cyclic voltammetry. The disproportionation of [Fe(C6H6)2]⋅+ salts to give solid Fe(0) and [Fe(C6H6)2]2+ salts was analyzed by a suitable cycle, revealing that the thermodynamic driving force for the disproportionation is a function of the size of the anion used and the polarity of the solvent.
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Affiliation(s)
- Jan M Rall
- Institut für Anorganische und Analytische Chemie und Freiburger Materialforschungszentrum (FMF), Albert-Ludwigs-Universität Freiburg, Albertstr. 21, 79104, Freiburg, Germany
| | - Leonie Nork
- Institut für Anorganische und Analytische Chemie und Freiburger Materialforschungszentrum (FMF), Albert-Ludwigs-Universität Freiburg, Albertstr. 21, 79104, Freiburg, Germany
| | - Tobias A Engesser
- Institut für Anorganische Chemie, Christian-Albrechts-Universität zu Kiel, Max-Eyth-Straße 2, 24118, Kiel, Germany
| | - Maximilian Mayländer
- Institut für Physikalische Chemie, Albert-Ludwigs-Universität Freiburg, Albertstr. 21, 79104, Freiburg, Germany
| | - Stefan Weber
- Institut für Physikalische Chemie, Albert-Ludwigs-Universität Freiburg, Albertstr. 21, 79104, Freiburg, Germany
| | - Sabine Richert
- Institut für Physikalische Chemie, Albert-Ludwigs-Universität Freiburg, Albertstr. 21, 79104, Freiburg, Germany
| | - Ingo Krossing
- Institut für Anorganische und Analytische Chemie und Freiburger Materialforschungszentrum (FMF), Albert-Ludwigs-Universität Freiburg, Albertstr. 21, 79104, Freiburg, Germany
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12
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Ansari M, Bhattacharjee S, Pantazis DA. Correlating Structure with Spectroscopy in Ascorbate Peroxidase Compound II. J Am Chem Soc 2024; 146:9640-9656. [PMID: 38530124 PMCID: PMC11009960 DOI: 10.1021/jacs.3c13169] [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] [Received: 11/23/2023] [Revised: 03/15/2024] [Accepted: 03/15/2024] [Indexed: 03/27/2024]
Abstract
Structural and spectroscopic investigations of compound II in ascorbate peroxidase (APX) have yielded conflicting conclusions regarding the protonation state of the crucial Fe(IV) intermediate. Neutron diffraction and crystallographic data support an iron(IV)-hydroxo formulation, whereas Mössbauer, X-ray absorption (XAS), and nuclear resonance vibrational spectroscopy (NRVS) studies appear consistent with an iron(IV)-oxo species. Here we examine APX with spectroscopy-oriented QM/MM calculations and extensive exploration of the conformational space for both possible formulations of compound II. We establish that irrespective of variations in the orientation of a vicinal arginine residue and potential reorganization of proximal water molecules and hydrogen bonding, the Fe-O distances for the oxo and hydroxo forms consistently fall within distinct, narrow, and nonoverlapping ranges. The accuracy of geometric parameters is validated by coupled-cluster calculations with the domain-based local pair natural orbital approach, DLPNO-CCSD(T). QM/MM calculations of spectroscopic properties are conducted for all structural variants, encompassing Mössbauer, optical, X-ray absorption, and X-ray emission spectroscopies and NRVS. All spectroscopic observations can be assigned uniquely to an Fe(IV)═O form. A terminal hydroxy group cannot be reconciled with the spectroscopic data. Under no conditions can the Fe(IV)═O distance be sufficiently elongated to approach the crystallographically reported Fe-O distance. The latter is consistent only with a hydroxo species, either Fe(IV) or Fe(III). Our findings strongly support the Fe(IV)═O formulation of APX-II and highlight unresolved discrepancies in the nature of samples used across different experimental studies.
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Affiliation(s)
- Mursaleem Ansari
- Max-Planck-Institut für
Kohlenforschung, Kaiser-Wilhelm-Platz
1, Mülheim an der Ruhr 45470, Germany
| | - Sinjini Bhattacharjee
- Max-Planck-Institut für
Kohlenforschung, Kaiser-Wilhelm-Platz
1, Mülheim an der Ruhr 45470, Germany
| | - Dimitrios A. Pantazis
- Max-Planck-Institut für
Kohlenforschung, Kaiser-Wilhelm-Platz
1, Mülheim an der Ruhr 45470, Germany
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13
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Edholm F, Nandy A, Reinhardt CR, Kastner DW, Kulik HJ. Protein3D: Enabling analysis and extraction of metal-containing sites from the Protein Data Bank with molSimplify. J Comput Chem 2024; 45:352-361. [PMID: 37873926 DOI: 10.1002/jcc.27242] [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: 08/09/2023] [Revised: 09/27/2023] [Accepted: 10/03/2023] [Indexed: 10/25/2023]
Abstract
Metalloenzymes catalyze a wide range of chemical transformations, with the active site residues playing a key role in modulating chemical reactivity and selectivity. Unlike smaller synthetic catalysts, a metalloenzyme active site is embedded in a larger protein, which makes interrogation of electronic properties and geometric features with quantum mechanical calculations challenging. Here we implement the ability to fetch crystallographic structures from the Protein Data Bank and analyze the metal binding sites in the program molSimplify. We show the usefulness of the newly created protein3D class to extract the local environment around non-heme iron enzymes containing a two histidine motif and prepare 372 structures for quantum mechanical calculations. Our implementation of protein3D serves to expand the range of systems molSimplify can be used to analyze and will enable high-throughput study of metal-containing active sites in proteins.
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Affiliation(s)
- Freya Edholm
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Aditya Nandy
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Clorice R Reinhardt
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - David W Kastner
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Heather J Kulik
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
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14
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Stroek W, Keilwerth M, Malaspina LA, Grabowsky S, Meyer K, Albrecht M. Deciphering Iron-Catalyzed C-H Amination with Organic Azides: N 2 Cleavage from a Stable Organoazide Complex. Chemistry 2024; 30:e202303410. [PMID: 37916523 DOI: 10.1002/chem.202303410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2023] [Revised: 11/01/2023] [Accepted: 11/02/2023] [Indexed: 11/03/2023]
Abstract
Catalytic C-N bond formation by direct activation of C-H bonds offers wide synthetic potential. En route to C-H amination, complexes with organic azides are critical precursors towards the reactive nitrene intermediate. Despite their relevance, α-N coordinated organoazide complexes are scarce in general, and elusive with iron, although iron complexes are by far the most active catalysts for C-H amination with organoazides. Herein, we report the synthesis of a stable iron α-N coordinated organoazide complex from [Fe(N(SiMe3 )2 )2 ] and AdN3 (Ad=1-adamantyl) and its crystallographic, IR, NMR and zero-field 57 Fe Mössbauer spectroscopic characterization. These analyses revealed that the organoazide is in fast equilibrium between the free and coordinated state (Keq =62). Photo-crystallography experiments showed gradual dissociation of N2 , which imparted an Fe-N bond shortening and correspond to structural snapshots of the formation of an iron imido/nitrene complex. Reactivity of the organoazide complex in solution showed complete loss of N2 , and subsequent formation of a C-H aminated product via nitrene insertion into a C-H bond of the N(SiMe3 )2 ligand. Monitoring this reaction by 1 H NMR spectroscopy indicates the transient formation of the imido/nitrene intermediate, which was supported by Mössbauer spectroscopy in frozen solution.
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Affiliation(s)
- Wowa Stroek
- Department of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland
| | - Martin Keilwerth
- Department of Chemistry and Pharmacy, Inorganic Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU), Egerlandstraße 1, 91058, Erlangen, Germany
| | - Lorraine A Malaspina
- Department of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland
| | - Simon Grabowsky
- Department of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland
| | - Karsten Meyer
- Department of Chemistry and Pharmacy, Inorganic Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU), Egerlandstraße 1, 91058, Erlangen, Germany
| | - Martin Albrecht
- Department of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland
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15
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Jiang H, Ryde U. H 2 formation from the E 2-E 4 states of nitrogenase. Phys Chem Chem Phys 2024; 26:1364-1375. [PMID: 38108422 DOI: 10.1039/d3cp05181a] [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: 12/19/2023]
Abstract
Nitrogenase is the only enzyme that can cleave the strong triple bond in N2, making nitrogen available for biological lifeforms. The active site is a MoFe7S9C cluster (the FeMo cluster) that binds eight electrons and protons during one catalytic cycle, giving rise to eight intermediate states E0-E7. It is experimentally known that N2 binds to the E4 state and that H2 is a compulsory byproduct of the reaction. However, formation of H2 is also an unproductive side reaction that should be avoided, especially in the early steps of the reaction mechanism (E2 and E3). Here, we study the formation of H2 for various structural interpretations of the E2-E4 states using combined quantum mechanical and molecular mechanical (QM/MM) calculations and four different density-functional theory methods. We find large differences in the predictions of the different methods. B3LYP strongly favours protonation of the central carbide ion and H2 cannot form from such structures. On the other hand, with TPSS, r2SCAN and TPSSh, H2 formation is strongly exothermic for all structures and En and therefore need strict kinetic control to be avoided. For the E2 state, the kinetic barriers for the low-energy structures are high enough to avoid H2 formation. However, for both the E3 and E4 states, all three methods predict that the best structure has two hydride ions bridging the same pair of Fe ions (Fe2 and Fe6) and these two ions can combine to form H2 with an activation barrier of only 29-57 kJ mol-1, corresponding to rates of 7 × 102 to 5 × 107 s-1, i.e. much faster than the turnover rate of the enzyme (1-5 s-1). We have also studied H-atom movements within the FeMo cluster, showing that the various protonation states can quite freely be interconverted (activation barriers of 12-69 kJ mol-1).
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Affiliation(s)
- Hao Jiang
- Department of Computational Chemistry, Lund University, Chemical Centre, P. O. Box 124, SE-221 00 Lund, Sweden.
| | - Ulf Ryde
- Department of Computational Chemistry, Lund University, Chemical Centre, P. O. Box 124, SE-221 00 Lund, Sweden.
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16
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Jiang H, Lundgren KJM, Ryde U. Protonation of Homocitrate and the E 1 State of Fe-Nitrogenase Studied by QM/MM Calculations. Inorg Chem 2023; 62:19433-19445. [PMID: 37987624 DOI: 10.1021/acs.inorgchem.3c02329] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2023]
Abstract
Nitrogenase is the only enzyme that can cleave the strong triple bond in N2, making nitrogen available for biological life. There are three isozymes of nitrogenase, differing in the composition of the active site, viz., Mo, V, and Fe-nitrogenase. Recently, the first crystal structure of Fe-nitrogenase was presented. We have performed the first combined quantum mechanical and molecular mechanical (QM/MM) study of Fe-nitrogenase. We show with QM/MM and quantum-refinement calculations that the homocitrate ligand is most likely protonated on the alcohol oxygen in the resting E0 state. The most stable broken-symmetry (BS) states are the same as for Mo-nitrogenase, i.e., the three Noodleman BS7-type states (with a surplus of β spin on the eighth Fe ion), which maximize the number of nearby antiferromagnetically coupled Fe-Fe pairs. For the E1 state, we find that protonation of the S2B μ2 belt sulfide ion is most favorable, 14-117 kJ/mol more stable than structures with a Fe-bound hydride ion (the best has a hydride ion on the Fe2 ion) calculated with four different density-functional theory methods. This is similar to what was found for Mo-nitrogenase, but it does not explain the recent EPR observation that the E1 state of Fe-nitrogenase should contain a photolyzable hydride ion. For the E1 state, many BS states are close in energy, and the preferred BS state differs depending on the position of the extra proton and which density functional is used.
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Affiliation(s)
- Hao Jiang
- Department of Computational Chemistry, Lund University, Chemical Centre, P.O. Box 124, Lund SE-221 00, Sweden
| | - Kristoffer J M Lundgren
- Department of Computational Chemistry, Lund University, Chemical Centre, P.O. Box 124, Lund SE-221 00, Sweden
| | - Ulf Ryde
- Department of Computational Chemistry, Lund University, Chemical Centre, P.O. Box 124, Lund SE-221 00, Sweden
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17
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Wandzilak A, Grubel K, Skubi KL, McWilliams SF, Bessas D, Rana A, Hugenbruch S, Dey A, Holland PL, DeBeer S. Mössbauer and Nuclear Resonance Vibrational Spectroscopy Studies of Iron Species Involved in N-N Bond Cleavage. Inorg Chem 2023; 62:18449-18464. [PMID: 37902987 PMCID: PMC10647920 DOI: 10.1021/acs.inorgchem.3c02594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2023] [Indexed: 11/01/2023]
Abstract
Diketiminate-supported iron complexes are capable of cleaving the strong triple bond of N2 to give a tetra-iron complex with two nitrides (Rodriguez et al., Science, 2011, 334, 780-783). The mechanism of this reaction has been difficult to determine, but a transient green species was observed during the reaction that corresponds to a potential intermediate. Here, we describe studies aiming to identify the characteristics of this intermediate, using a range of spectroscopic techniques, including Mössbauer spectroscopy, electronic absorption spectroscopy, Raman spectroscopy, nuclear magnetic resonance (NMR) spectroscopy, and nuclear resonance vibrational spectroscopy (NRVS) complemented by density functional theory (DFT) calculations. We successfully elucidated the nature of the starting iron(II) species and the bis(nitride) species in THF solution, and in each case, THF breaks up the multiiron species. Various observations on the green intermediate species indicate that it has one N2 per two Fe atoms, has THF associated with it, and has NRVS features indicative of bridging N2. Computational models with a formally diiron(0)-N2 core are most consistent with the accumulated data, and on this basis, a mechanism for N2 splitting is suggested. This work shows the power of combining NRVS, Mössbauer, NMR, and vibrational spectroscopies with computations for revealing the nature of transient iron species during N2 cleavage.
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Affiliation(s)
- Aleksandra Wandzilak
- Max
Planck Institute for Chemical Energy Conversion, Mülheim an der Ruhr 45470, Germany
- Faculty
of Physics and Applied Computer Science, AGH University of Science and Technology, Krakow 30-059, Poland
| | - Katarzyna Grubel
- Department
of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Kazimer L. Skubi
- Department
of Chemistry, Yale University, New Haven, Connecticut 06520, United States
- Department
of Chemistry, Carleton College, Northfield, Minnesota 55057, United States
| | - Sean F. McWilliams
- Department
of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Dimitrios Bessas
- European
Synchrotron Radiation Facility, Grenoble F-38043, France
| | - Atanu Rana
- Max
Planck Institute for Chemical Energy Conversion, Mülheim an der Ruhr 45470, Germany
- School of
Chemical Science, Indian Association for
the Cultivation of Science, Kolkata 700032, India
| | - Stefan Hugenbruch
- Max
Planck Institute for Chemical Energy Conversion, Mülheim an der Ruhr 45470, Germany
| | - Abhishek Dey
- School of
Chemical Science, Indian Association for
the Cultivation of Science, Kolkata 700032, India
| | - Patrick L. Holland
- Department
of Chemistry, Yale University, New Haven, Connecticut 06520, United States
| | - Serena DeBeer
- Max
Planck Institute for Chemical Energy Conversion, Mülheim an der Ruhr 45470, Germany
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18
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Zars E, Pick L, Swain A, Bhunia M, Carroll PJ, Munz D, Meyer K, Mindiola DJ. Iron-Catalyzed Intermolecular C-H Amination Assisted by an Isolated Iron-Imido Radical Intermediate. Angew Chem Int Ed Engl 2023:e202311749. [PMID: 37815099 DOI: 10.1002/anie.202311749] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2023] [Revised: 10/02/2023] [Accepted: 10/03/2023] [Indexed: 10/11/2023]
Abstract
Here we report the use of a base metal complex [(tBu pyrpyrr2 )Fe(OEt2 )] (1-OEt2 ) (tBu pyrpyrr2 2- =3,5-tBu2 -bis(pyrrolyl)pyridine) as a catalyst for intermolecular amination of Csp3 -H bonds of 9,10-dihydroanthracene (2 a) using 2,4,6-trimethyl phenyl azide (3 a) as the nitrene source. The reaction is complete within one hour at 80 °C using as low as 2 mol % 1-OEt2 with control in selectivity for single C-H amination versus double C-H amination. Catalytic C-H amination reactions can be extended to other substrates such as cyclohexadiene and xanthene derivatives and can tolerate a variety of aryl azides having methyl groups in both ortho positions. Under stoichiometric conditions the imido radical species [(tBu pyrpyrr2 )Fe{=N(2,6-Me2 -4-tBu-C6 H2 )] (1-imido) can be isolated in 56 % yield, and spectroscopic, magnetometric, and computational studies confirmed it to be an S = 1 FeIV complex. Complex 1-imido reacts with 2 a to produce the ferrous aniline adduct [(tBu pyrpyrr2 )Fe{NH(2,6-Me2 -4-tBu-C6 H2 )(C14 H11 )}] (1-aniline) in 45 % yield. Lastly, it was found that complexes 1-imido and 1-aniline are both competent intermediates in catalytic intermolecular C-H amination.
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Affiliation(s)
- Ethan Zars
- Department of Chemistry, University of Pennsylvania, 231 S 34th St, Philadelphia, PA-19104, USA
| | - Lisa Pick
- Department of Chemistry & Pharmacy, Inorganic Chemistry, Friedrich-Alexander-Universität Erlangen - Nürnberg (FAU), 91058, Erlangen, Germany
| | - Abinash Swain
- Inorganic Chemistry: Coordination Chemistry, Saarland University, Campus C4 1, 66123, Saarbrücken, Germany
| | - Mrinal Bhunia
- Department of Chemistry, University of Pennsylvania, 231 S 34th St, Philadelphia, PA-19104, USA
| | - Patrick J Carroll
- Department of Chemistry, University of Pennsylvania, 231 S 34th St, Philadelphia, PA-19104, USA
| | - Dominik Munz
- Inorganic Chemistry: Coordination Chemistry, Saarland University, Campus C4 1, 66123, Saarbrücken, Germany
| | - Karsten Meyer
- Department of Chemistry & Pharmacy, Inorganic Chemistry, Friedrich-Alexander-Universität Erlangen - Nürnberg (FAU), 91058, Erlangen, Germany
| | - Daniel J Mindiola
- Department of Chemistry, University of Pennsylvania, 231 S 34th St, Philadelphia, PA-19104, USA
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19
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Pang Y, Bjornsson R. The E3 state of FeMoco: one hydride, two hydrides or dihydrogen? Phys Chem Chem Phys 2023; 25:21020-21036. [PMID: 37522223 DOI: 10.1039/d3cp01106b] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/01/2023]
Abstract
Hydrides are present in the reduced states of the iron-molybdenum cofactor (FeMoco) of Mo nitrogenase and are believed to play a key mechanistic role in the dinitrogen reduction reaction catalyzed by the enzyme. Two hydrides are present in the E4 state according to 1H ENDOR and there is likely a single hydride in the E2 redox state. The 2-hydride E4 state has been experimentally observed to bind N2 and it has been speculated that E3 may bind N2 as well. However, the E3 state has not been directly observed and very little is known about its molecular and electronic structure or reactivity. In recent computational studies, we have explored the energy surfaces of the E2 and E4 by QM/MM modelling, and found that the most stable hydride isomers contain bridging or partially bridging hydrides with an open protonated belt sulfide-bridge. In this work we systematically explore the energy surface of the E3 redox state, comparing single hydride and two-hydride isomers with varying coordination and bridging vs. terminal sulfhydryl groups. We also include a model featuring a triply protonated carbide. The results are only mildly dependent on the QM-region size. The three most stable E3 isomers at the r2SCAN level of theory have in common: an open belt sulfide-bridge (terminal sulfhydryl group on Fe6) and either 2 bridging hydrides (between Fe2 and Fe6), 1 bridging-1-terminal hydride (around Fe2 and Fe6) or a dihydrogen ligand bound at the Fe2 site. Analyzing the functional dependency of the results, we find that functionals previously found to predict accurate structures of spin-coupled Fe/Mo dimers and FeMoco (TPSSh, B97-D3, r2SCAN, and B3LYP*) are in generally good agreement about the stability of these 3 E3 isomers. However, B3LYP*, similar to its parent B3LYP method, predicts a triply protonated carbide isomer as the most stable isomer, an unlikely scenario in view of the lack of experimental evidence for carbide protonation occurring in reduced FeMoco states. Distinguishing further between the 3 hydride isomers is difficult and this flexible coordination nature of hydrides suggests that multiple hydride isomers could be present during experimental conditions. N2 binding was explored and resulted in geometries with 2 bridging hydrides and N2 bound to either Fe2 or Fe6 with a local low-spin state on the Fe. N2 binding is predicted to be mildly endothermic, similar to the E2 state, and it seems unlikely that the E3 state is capable of binding N2.
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Affiliation(s)
- Yunjie Pang
- College of Chemistry, Beijing Normal University, 100875, Beijing, China
- Max-Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Ragnar Bjornsson
- Max-Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
- Univ. Grenoble Alpes, CNRS, CEA, IRIG, Laboratoire de Chimie et Biologie des Métaux, 17 Rue des Martyrs, F-38054 Grenoble, Cedex, France.
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20
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Spentzos AZ, May SR, Confer AM, Gau MR, Carroll PJ, Goldberg DP, Tomson NC. Investigating Metal-Metal Bond Polarization in a Heteroleptic Tris-Ylide Diiron System. Inorg Chem 2023; 62:11487-11499. [PMID: 37428000 PMCID: PMC11071007 DOI: 10.1021/acs.inorgchem.3c01068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/11/2023]
Abstract
This article describes the synthesis, characterization, and S-atom transfer reactivity of a series of C3v-symmetric diiron complexes. The iron centers in each complex are coordinated in distinct ligand environments, with one (FeN) bound in a pseudo-trigonal bipyramidal geometry by three phosphinimine nitrogens in the equatorial plane, a tertiary amine, and the second metal center (FeC). FeC is coordinated, in turn, by FeN, three ylidic carbons in a trigonal plane, and, in certain cases, by an axial oxygen donor. The three alkyl donors at FeC form through the reduction of the appended N═PMe3 arms of the monometallic parent complex. The complexes were studied crystallographically, spectroscopically (NMR, UV-vis, and Mössbauer), and computationally (DFT, CASSCF) and found to be high-spin throughout, with short Fe-Fe distances that belie weak orbital overlap between the two metals. Further, the redox nature of this series allowed for the determination that oxidation is localized to the FeC. S-atom transfer chemistry resulted in the formal insertion of a S atom into the Fe-Fe bond of the reduced diiron complex to form a mixture of Fe4S and Fe4S2 products.
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Affiliation(s)
- Ariana Z. Spentzos
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University
of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104,
USA
| | - Sam R. May
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University
of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104,
USA
| | - Alex M. Confer
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University
of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104,
USA
| | - Michael R. Gau
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University
of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104,
USA
| | - Patrick J. Carroll
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University
of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104,
USA
| | | | - Neil C. Tomson
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University
of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104,
USA
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21
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Badding ED, Srisantitham S, Lukoyanov DA, Hoffman BM, Suess DLM. Connecting the geometric and electronic structures of the nitrogenase iron-molybdenum cofactor through site-selective 57Fe labelling. Nat Chem 2023; 15:658-665. [PMID: 36914792 PMCID: PMC10710871 DOI: 10.1038/s41557-023-01154-9] [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] [Received: 01/15/2022] [Accepted: 01/26/2023] [Indexed: 03/16/2023]
Abstract
Understanding the chemical bonding in the catalytic cofactor of the Mo nitrogenase (FeMo-co) is foundational for building a mechanistic picture of biological nitrogen fixation. A persistent obstacle towards this goal has been that the 57Fe-based spectroscopic data-although rich with information-combines responses from all seven Fe sites, and it has therefore not been possible to map individual spectroscopic responses to specific sites in the three-dimensional structure. Here we have addressed this challenge by incorporating 57Fe into a single site of FeMo-co. Spectroscopic analysis of the resting state informed on the local electronic structure of the terminal Fe1 site, including its oxidation state and spin orientation, and, in turn, on the spin-coupling scheme for the entire cluster. The oxidized resting state and the first intermediate in nitrogen fixation were also characterized, and comparisons with the resting state provided molecular-level insights into the redox chemistry of FeMo-co.
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Affiliation(s)
- Edward D Badding
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA
| | | | | | - Brian M Hoffman
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Daniel L M Suess
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA.
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22
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Marco J, Dávalos-Prado JZ, Hnyk D, Holub J, Oña OB, Alcoba DR, Ferrer M, Elguero J, Lain L, Torre A, Oliva-Enrich JM. Two Shared Icosahedral Metallacarboranes through Iron: A Joint Experimental and Theoretical Refinement of Mössbauer Spectrum in [Fe(1,2-C 2B 9H 11) 2]Cs. ACS OMEGA 2023; 8:13993-14004. [PMID: 37091389 PMCID: PMC10116535 DOI: 10.1021/acsomega.3c00422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Accepted: 03/29/2023] [Indexed: 05/03/2023]
Abstract
Mössbauer and X-ray photoelectron spectroscopies (XPS) are complemented with high-level quantum-chemical computations in the study of the geometric and electronic structure of the paramagnetic salt of the metallacarborane sandwich complex [Fe(1,2-C2B9H11)2]Cs = FeSanCs. Experimental 57Fe isomer shifts and quadrupole splitting parameters are compared with the theoretical prediction, with good agreement. The appearance of two sets of Cs(3d) doublets in the XPS spectrum, separated by 2 eV, indicates that Cs has two different chemical environments due to ease of the Cs(+) cation moving around the sandwich complex with low-energy barriers, as confirmed by quantum-chemical computations. Several minimum-energy geometries of the FeSanCs structure with the corresponding energies and Mössbauer parameters are discussed, in particular the atomic charges and spin population and the surroundings of the Fe atom in the complex. The Mössbauer spectra were taken at different temperatures showing the presence of a low-spin Fe atom with S = 1/2 and thus confirming a paramagnetic FeIII species.
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Affiliation(s)
- José
F. Marco
- Instituto
de Química-Física “Rocasolano”, CSIC, E-28006 Madrid, Spain
| | | | - Drahomír Hnyk
- Institute
of Inorganic Chemistry of the Czech Academy of Sciences, CZ-250 68 Řež
near Prague, Czech Republic
| | - Josef Holub
- Institute
of Inorganic Chemistry of the Czech Academy of Sciences, CZ-250 68 Řež
near Prague, Czech Republic
| | - Ofelia B. Oña
- Instituto
de Investigaciones Fisicoquímicas Teóricas y Aplicadas,
Universidad Nacional de La Plata, CCT La Plata, Consejo Nacional de Investigaciones Científicas y Técnicas, Diag. 113 y 64 (S/N), Sucursal 4,
CC 16, 1900 La Plata, Argentina
| | - Diego R. Alcoba
- Departamento
de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, 1428 Buenos Aires, Argentina
- Instituto
de Física de Buenos Aires, Consejo
Nacional de Investigaciones Científicas y Técnicas,
Ciudad Universitaria, 1428 Buenos Aires, Argentina
| | - Maxime Ferrer
- Instituto
de Química Médica, CSIC, E-28006 Madrid, Spain
- Theoretical
Chemistry and Computational Modelling, Doctoral School, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - José Elguero
- Instituto
de Química Médica, CSIC, E-28006 Madrid, Spain
| | - Luis Lain
- Departamento
de Química Física, Facultad de Ciencia y Tecnología, Universidad del País Vasco, Apartado Postal 644, E-48080 Bilbao, Spain
| | - Alicia Torre
- Departamento
de Química Física, Facultad de Ciencia y Tecnología, Universidad del País Vasco, Apartado Postal 644, E-48080 Bilbao, Spain
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23
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Dance I. The binding of reducible N 2 in the reaction domain of nitrogenase. Dalton Trans 2023; 52:2013-2026. [PMID: 36691966 DOI: 10.1039/d2dt03599e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
The binding of N2 to FeMo-co, the catalytic site of the enzyme nitrogenase, is central to the conversion to NH3, but also has a separate role in promoting the N2-dependent HD reaction (D2 + 2H+ + 2e- → 2HD). The protein surrounding FeMo-co contains a clear channel for ingress of N2, directly towards the exo-coordination position of Fe2, a position which is outside the catalytic reaction domain. This led to the hypothesis [I. Dance, Dalton Trans., 2022, 51, 12717] of 'promotional' N2 bound at exo-Fe2, and a second 'reducible' N2 bound in the reaction domain, specifically the endo-coordination position of Fe2 or Fe6. The range of possibilities for the binding of reducible N2 in the presence of bound promotional N2 is described here, using density functional simulations with a 486 atom model of the active site and surrounding protein. The pathway for ingress of the second N2 through protein, past the first N2 at exo-Fe2, and tumbling into the binding domain between Fe2 and Fe6, is described. The calculations explore 24 structures involving 6 different forms of hydrogenated FeMo-co, including structures with S2BH unhooked from Fe2 but tethered to Fe6. The calculations use the most probable electronic states. End-on (η1) binding of N2 at the endo position of either Fe2 or Fe6 is almost invariably exothermic, with binding potential energies ranging up to -18 kcal mol-1. Many structures have binding energies in the range -6 to -14 kcal mol-1. The relevant entropic penalty for N2 binding from a diffusible position within the protein is estimated to be 4 kcal mol-1, and so the binding free energies for reducible N2 are suitably negative. N2 binding at endo-Fe2 is stronger than at endo-Fe6 in three of the six structure categories. In many cases the reaction domain containing reducible N2 is expanded. These results inform computational simulation of the subsequent steps in which surrounding H atoms transfer to reducible N2.
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Affiliation(s)
- Ian Dance
- School of Chemistry, UNSW Sydney, Australia.
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24
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Dance I. The HD Reaction of Nitrogenase: a Detailed Mechanism. Chemistry 2023; 29:e202202502. [PMID: 36274057 PMCID: PMC10099629 DOI: 10.1002/chem.202202502] [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: 08/11/2022] [Indexed: 11/06/2022]
Abstract
Nitrogenase is the enzyme that converts N2 to NH3 under ambient conditions. The chemical mechanism of this catalysis at the active site FeMo-co [Fe7 S9 CMo(homocitrate)] is unknown. An obligatory co-product is H2 , while exogenous H2 is a competitive inhibitor. Isotopic substitution using exogenous D2 revealed the N2 -dependent reaction D2 +2H+ +2e- →2HD (the 'HD reaction'), together with a collection of additional experimental characteristics and requirements. This paper describes a detailed mechanism for the HD reaction, developed and elaborated using density functional simulations with a 486-atom model of the active site and surrounding protein. First D2 binds at one Fe atom (endo-Fe6 coordination position), where it is flanked by H-Fe6 (exo position) and H-Fe2 (endo position). Then there is synchronous transfer of these two H atoms to bound D2 , forming one HD bound to Fe2 and a second HD bound to Fe6. These two HD dissociate sequentially. The final phase is recovery of the two flanking H atoms. These H atoms are generated, sequentially, by translocation of a proton from the protein surface to S3B of FeMo-co and combination with introduced electrons. The first H atom migrates from S3B to exo-Fe6 and the second from S3B to endo-Fe2. Reaction energies and kinetic barriers are reported for all steps. This mechanism accounts for the experimental data: (a) stoichiometry; (b) the N2 -dependence results from promotional N2 bound at exo-Fe2; (c) different N2 binding Km for the HD reaction and the NH3 formation reaction results from involvement of two different sites; (d) inhibition by CO; (e) the non-occurrence of 2HD→H2 +D2 results from the synchronicity of the two transfers of H to D2 ; (f) inhibition of HD production at high pN2 is by competitive binding of N2 at endo-Fe6; (g) the non-leakage of D to solvent follows from the hydrophobic environment and irreversibility of proton introduction.
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Affiliation(s)
- Ian Dance
- School of Chemistry, UNSW, Sydney, Australia
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25
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Quantum Mechanical Calculations of Redox Potentials of the Metal Clusters in Nitrogenase. MOLECULES (BASEL, SWITZERLAND) 2022; 28:molecules28010065. [PMID: 36615260 PMCID: PMC9822455 DOI: 10.3390/molecules28010065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 12/14/2022] [Accepted: 12/19/2022] [Indexed: 12/24/2022]
Abstract
We have calculated redox potentials of the two metal clusters in Mo-nitrogenase with quantum mechanical (QM) calculations. We employ an approach calibrated for iron-sulfur clusters with 1-4 Fe ions, involving QM-cluster calculations in continuum solvent and large QM systems (400-500 atoms), based on structures from combined QM and molecular mechanics (QM/MM) geometry optimisations. Calculations on the P-cluster show that we can reproduce the experimental redox potentials within 0.33 V. This is similar to the accuracy obtained for the smaller clusters, although two of the redox reactions involve also proton transfer. The calculated P1+/PN redox potential is nearly the same independently of whether P1+ is protonated or deprotonated, explaining why redox titrations do not show any pH dependence. For the FeMo cluster, the calculations clearly show that the formal oxidation state of the cluster in the resting E0 state is MoIIIFe3IIFe4III , in agreement with previous experimental studies and QM calculations. Moreover, the redox potentials of the first five E0-E4 states are nearly constant, as is expected if the electrons are delivered by the same site (the P-cluster). However, the redox potentials are insensitive to the formal oxidation states of the Fe ion (i.e., whether the added protons bind to sulfide or Fe ions). Finally, we show that the later (E4-E8) states of the reaction mechanism have redox potential that are more positive (i.e., more exothermic) than that of the E0/E1 couple.
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26
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Jiang H, Svensson OKG, Ryde U. QM/MM Study of Partial Dissociation of S2B for the E 2 Intermediate of Nitrogenase. Inorg Chem 2022; 61:18067-18076. [DOI: 10.1021/acs.inorgchem.2c02488] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Hao Jiang
- Department of Theoretical Chemistry, Lund University, Chemical Centre, SE-221 00Lund, Sweden
| | - Oskar K. G. Svensson
- Department of Theoretical Chemistry, Lund University, Chemical Centre, SE-221 00Lund, Sweden
| | - Ulf Ryde
- Department of Theoretical Chemistry, Lund University, Chemical Centre, SE-221 00Lund, Sweden
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27
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Dance I. Understanding the tethered unhooking and rehooking of S2B in the reaction domain of FeMo-co, the active site of nitrogenase. Dalton Trans 2022; 51:15538-15554. [PMID: 36168836 DOI: 10.1039/d2dt02571j] [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
The active site of the nitrogen fixing enzyme nitrogenase is an Fe7MoS9C cluster, and investigations of the enigmatic chemical mechanism of the enzyme have focussed on a pair of Fe atoms, Fe2 and Fe6, and the S2B atom that bridges them. There are three proposals for the status of the Fe2-S2B-Fe6 bridge during the catalytic cycle: one that it remains intact, another that it is completely labile and absent during catalysis, and a third that S2B is hemilabile, unhooking one of its bonds to Fe2 or Fe6. This report examines the tethered unhooking of S2B and factors that affect it, using DFT calculations of 50 geometric/electronic possibilities with a 485 atom model including all relevant parts of surrounding protein. The outcomes are: (a) unhooking the S2B-Fe2 bond is feasible and favourable, but alternative unhooking of the S2B-Fe6 bond is unlikely for steric reasons, (b) energy differences between hooked and unhooked isomers are generally <10 kcal mol-1, usually with unhooked more stable, (c) ligation at the exo-Fe6 position inhibits unhooking, (d) unhooking of hydrogenated S2B is more favourable than that of bare S2B, (e) hydrogen bonding from the NεH function of His195 to S2B occurs in hooked and unhooked forms, and possibly stabilises unhooking, (f) unhooking is reversible with kinetic barriers ranging 10-13 kcal mol-1. The conclusion is that energetically accessible reversible unhooking of S2B or S2BH, as an intrinsic property of FeMo-co, needs to be considered in the formulation of mechanisms for the reactions of nitrogenase.
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Affiliation(s)
- Ian Dance
- School of Chemistry, UNSW Sydney, Australia.
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28
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Gorantla SMNVT, Karnamkkott HS, Arumugam S, Mondal S, Mondal KC. Stability and bonding of carbon(0)-iron-N 2 complexes relevant to nitrogenase co-factor: EDA-NOCV analyses. J Comput Chem 2022; 44:43-60. [PMID: 36169176 DOI: 10.1002/jcc.27012] [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: 05/28/2022] [Revised: 08/26/2022] [Accepted: 09/06/2022] [Indexed: 11/05/2022]
Abstract
The factors/structural features which are responsible for the binding, activation and reduction of N2 to NH3 by FeMoco of nitrogenase have not been completely understood well. Several relevant model complexes by Holland et al. and Peters et al. have been synthesized, characterized and studied by theoretical calculations. For a matter of fact, those complexes are much different than real active N2 -binding Fe-sites of FeMoco, which possesses a central C(4-) ion having an eight valence electrons as an μ6 -bridge. Here, a series of [(S3 C(0))Fe(II/I/0)-N2 ]n- complexes in different charged/spin states containing a coordinated σ- and π-donor C(0)-atom which possesses eight outer shell electrons [carbone, (Ph3 P)2 C(0); Ph3 P→C(0)←PPh3 ] and three S-donor sites (i.e. - S-Ar), have been studied by DFT, QTAIM, and EDA-NOCV calculations. The effect of the weak field ligand on Fe-centres and the subsequent N2 -binding has been studied by EDA-NOCV analysis. The role of the oxidation state of Fe and N2 -binding in different charged and spin states of the complex have been investigated by EDA-NOCV analyses. The intrinsic interaction energies of the Fe-N2 bond are in the range from -42/-35 to -67 kcal/mol in their corresponding ground states. The S3 C(0) donor set is argued here to be closer to the actual coordination environment of one of the six Fe-centres of nitrogenase. In comparison, the captivating model complexes reported by Holland et al. and Peter et al. possess a stronger π-acceptor C-ring (S2 Cring donor, π-C donor) and stronger donor set like CP3 (σ-C donor) ligands, respectively.
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Affiliation(s)
| | | | - Selvakumar Arumugam
- Department of Chemistry, Indian Institute of Technology Madras, Chennai, India
| | - Sangita Mondal
- Department of Chemistry, Indian Institute of Technology Madras, Chennai, India
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29
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Wheaton AM, Chipman JA, Roy MD, Berry JF. Metal-Metal Bond Umpolung in Heterometallic Extended Metal Atom Chains. Inorg Chem 2022; 61:15058-15069. [PMID: 36094078 PMCID: PMC9632685 DOI: 10.1021/acs.inorgchem.2c02118] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
![]()
Understanding the fundamental properties governing metal–metal
interactions is crucial to understanding the electronic structure
and thereby applications of multimetallic systems in catalysis, material
science, and magnetism. One such property that is relatively underexplored
within multimetallic systems is metal–metal bond polarity,
parameterized by the electronegativities (χ) of the metal atoms
involved in the bond. In heterobimetallic systems, metal–metal
bond polarity is a function of the donor–acceptor (Δχ)
interactions of the two bonded metal atoms, with electropositive early
transition metals acting as electron acceptors and electronegative
late transition metals acting as electron donors. We show in this
work, through the preparation and systematic study of a series of
Mo2M(dpa)4(OTf)2 (M = Cr, Mn, Fe,
Co, and Ni; dpa = 2,2′-dipyridylamide; OTf = trifluoromethanesulfonate)
heterometallic extended metal atom chain (HEMAC) complexes that this
expected trend in χ can be reversed. Physical characterization
via single-crystal X-ray diffraction, magnetometry, and spectroscopic
methods as well as electronic structure calculations supports the
presence of a σ symmetry 3c/3e– bond that
is delocalized across the entire metal-atom chain and forms the basis
of the heterometallic Mo2–M interaction. The delocalized
3c/3e– interaction is discussed within the context
of the analogous 3c/3e– π bonding in the vinoxy
radical, CH2CHO. The vinoxy comparison establishes three
predictions for the σ symmetry 3c/3e– bond
in HEMACS: (1) an umpolung effect that causes the
Mo–M interactions to become more covalent as Δχ
increases, (2) distortion of the σ bonding and non-bonding orbitals
to emphasize Mo–M bonding and de-emphasize Mo–Mo bonding,
and (3) an increase in Mo spin population with increasing Mo–M
covalency. In agreement with these predictions, we find that the Mo2···M covalency increases with increasing Δχ
of the Mo and M atoms (ΔχMo–M increases
as M = Cr < Mn < Fe < Co < Ni), an umpolung of the trend predicted in the absence of σ delocalization.
We attribute the observed trend in covalency to the decreased energic
differential (ΔE) between the heterometal orbital and the σ bonding molecular
orbital of the Mo2 quadruple bond, which serves as an energetically
stable, “ligand”-like electron-pair donor to the heterometal
ion acceptor. As M is changed from Cr to Ni, the σ bonding and
nonbonding orbitals do indeed distort as anticipated, and the spin
population of the outer Mo group is increased by at least a factor
of 2. These findings provide a predictive framework for multimetallic
compounds and advance the current understanding of the electronic
structures of molecular heteromultimetallic systems, which can be
extrapolated to applications in the context of mixed-metal surface
catalysis and multimetallic proteins. This
work describes how use of a metal−metal quadruply
bonded metalloligand can reverse expected trends in metal−metal
bond polarity through the preparation and systematic study of a novel
series of Mo2M(dpa)4(OTf)2 (M = Cr,
Mn, Fe, Co, and Ni) heterotrimetallic extended metal atom chain (HEMAC)
complexes. These complexes feature a 3c/3e− metal−metal
bond that is delocalized across the entire metal atom chain and is
compared to the 3c/3e− π bonding in the vinoxyl
radical.
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Affiliation(s)
- Amelia M Wheaton
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Jill A Chipman
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Michael D Roy
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - John F Berry
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
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30
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Chauhan A, Karnamkkott HS, Gorantla SMNV, Mondal KC. Dinitrogen Binding and Activation: Bonding Analyses of Stable V(III/I)-N 2-V(III/I) Complexes by the EDA-NOCV Method from the Perspective of Vanadium Nitrogenase. ACS OMEGA 2022; 7:31577-31590. [PMID: 36092593 PMCID: PMC9453968 DOI: 10.1021/acsomega.2c04472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 07/25/2022] [Indexed: 06/15/2023]
Abstract
The FeVco cofactor of nitrogenase (VFe7S8(CO3)C) is an alternative in the molybdenum (Mo)-deficient free soil living azotobacter vinelandii. The rate of N2 reduction to NH3 by FeVco is a few times higher than that by FeMoco (MoFe7S9C) at low temperature. It provides a N source in the form of ammonium ions to the soil. This biochemical NH3 synthesis is an alternative to the industrial energy-demanding production of NH3 by the Haber-Bosch process. The role of vanadium has not been clearly understood yet, which has led chemists to come up with several stable V-N2 complexes which have been isolated and characterized in the laboratory over the past three decades. Herein, we report the EDA-NOCV analyses of dinitrogen-bonded stable complexes V(III/I)-N2 (1-4) to provide deeper insights into the fundamental bonding aspects of V-N2 bond, showing the interacting orbitals and corresponding pairwise orbital interaction energies (ΔE orb(n)). The computed intrinsic interaction energy (ΔE int) of V-N2-V bonds is significantly higher than those of the previously reported Fe-N2-Fe bonds. Covalent interaction energy (ΔE orb) is more than double the electrostatic interaction energy (ΔE elstat) of V-N2-V bonds. ΔE int values of V-N2-V bonds are in the range of -172 to -204 kcal/mol. The V → N2 ← V π-backdonation is four times stronger than V ← N2 → V σ-donation. V-N2 bonds are much more covalent in nature than Fe-N2 bonds.
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31
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Dance I. Calculating the chemical mechanism of nitrogenase: new working hypotheses. Dalton Trans 2022; 51:12717-12728. [PMID: 35946501 DOI: 10.1039/d2dt01920e] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The enzyme nitrogenase converts N2 to NH3 with stoichiometry N2 + 8H+ + 8e- → 2NH3 + H2. The mechanism is chemically complex with multiple steps that must be consistent with much accumulated experimental information, including exchange of H2 and N2 and the N2-dependent hydrogenation of D2 to HD. Previous investigations have developed a collection of working hypotheses that guide ongoing density functional investigations of mechanistic steps and sequences. These include (i) hypotheses about the serial provision of protons and their conversion to H atoms bonded to S and Fe atoms of the FeMo-co catalytic site, (ii) the migration of H atoms over the surface of FeMo-co, (iii) the roles of His195, (iv) identification of three protein channels, one for the ingress of N2, a separate pathway for the passage of exogenous H2 (D2) and product H2 (HD), and a hydrophilic pathway for egress of product NH3. Two additional working hypotheses are described in this paper. N2 passing along the N2 channel approaches and binds end-on to the exo coordination position of Fe2, with favourable energetics when FeMo-co is pre-hydrogenated. This exo-Fe2-N2 is apparently not reduced but has a promotional role by expanding the reaction zone. A second N2 can enter via the N2 ingress channel and bind at the endo-Fe6 position, where it is surrounded by H atom donors suitable for the N2 → NH3 conversion. It is proposed that this endo-Fe6 position is also the binding site for H2 (generated or exogenous), accounting for the competitive inhibition of N2 reduction by H2. The HD reaction occurs at the endo-Fe6 site, promoted by N2 at the exo-Fe2 site. The second hypothesis concerns the most stable electronic states of FeMo-co with ligands bound at Fe2 and Fe6, and provides a protocol for management of electronic states in mechanism calculations.
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Affiliation(s)
- Ian Dance
- School of Chemistry, UNSW Sydney, NSW 2051, Australia.
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32
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Stripp ST, Duffus BR, Fourmond V, Léger C, Leimkühler S, Hirota S, Hu Y, Jasniewski A, Ogata H, Ribbe MW. Second and Outer Coordination Sphere Effects in Nitrogenase, Hydrogenase, Formate Dehydrogenase, and CO Dehydrogenase. Chem Rev 2022; 122:11900-11973. [PMID: 35849738 PMCID: PMC9549741 DOI: 10.1021/acs.chemrev.1c00914] [Citation(s) in RCA: 50] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Gases like H2, N2, CO2, and CO are increasingly recognized as critical feedstock in "green" energy conversion and as sources of nitrogen and carbon for the agricultural and chemical sectors. However, the industrial transformation of N2, CO2, and CO and the production of H2 require significant energy input, which renders processes like steam reforming and the Haber-Bosch reaction economically and environmentally unviable. Nature, on the other hand, performs similar tasks efficiently at ambient temperature and pressure, exploiting gas-processing metalloenzymes (GPMs) that bind low-valent metal cofactors based on iron, nickel, molybdenum, tungsten, and sulfur. Such systems are studied to understand the biocatalytic principles of gas conversion including N2 fixation by nitrogenase and H2 production by hydrogenase as well as CO2 and CO conversion by formate dehydrogenase, carbon monoxide dehydrogenase, and nitrogenase. In this review, we emphasize the importance of the cofactor/protein interface, discussing how second and outer coordination sphere effects determine, modulate, and optimize the catalytic activity of GPMs. These may comprise ionic interactions in the second coordination sphere that shape the electron density distribution across the cofactor, hydrogen bonding changes, and allosteric effects. In the outer coordination sphere, proton transfer and electron transfer are discussed, alongside the role of hydrophobic substrate channels and protein structural changes. Combining the information gained from structural biology, enzyme kinetics, and various spectroscopic techniques, we aim toward a comprehensive understanding of catalysis beyond the first coordination sphere.
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Affiliation(s)
- Sven T Stripp
- Freie Universität Berlin, Experimental Molecular Biophysics, Berlin 14195, Germany
| | | | - Vincent Fourmond
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Institut Microbiologie, Bioénergies et Biotechnologie, CNRS, Aix Marseille Université, Marseille 13402, France
| | - Christophe Léger
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Institut Microbiologie, Bioénergies et Biotechnologie, CNRS, Aix Marseille Université, Marseille 13402, France
| | - Silke Leimkühler
- University of Potsdam, Molecular Enzymology, Potsdam 14476, Germany
| | - Shun Hirota
- Nara Institute of Science and Technology, Division of Materials Science, Graduate School of Science and Technology, Nara 630-0192, Japan
| | - Yilin Hu
- Department of Molecular Biology & Biochemistry, University of California, Irvine, California 92697-3900, United States
| | - Andrew Jasniewski
- Department of Molecular Biology & Biochemistry, University of California, Irvine, California 92697-3900, United States
| | - Hideaki Ogata
- Nara Institute of Science and Technology, Division of Materials Science, Graduate School of Science and Technology, Nara 630-0192, Japan.,Hokkaido University, Institute of Low Temperature Science, Sapporo 060-0819, Japan.,Graduate School of Science, University of Hyogo, Hyogo 678-1297, Japan
| | - Markus W Ribbe
- Department of Molecular Biology & Biochemistry, University of California, Irvine, California 92697-3900, United States.,Department of Chemistry, University of California, Irvine, California 92697-2025, United States
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33
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Benediktsson B, Bjornsson R. Analysis of the Geometric and Electronic Structure of Spin-Coupled Iron-Sulfur Dimers with Broken-Symmetry DFT: Implications for FeMoco. J Chem Theory Comput 2022; 18:1437-1457. [PMID: 35167749 PMCID: PMC8908755 DOI: 10.1021/acs.jctc.1c00753] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
![]()
The open-shell electronic
structure of iron–sulfur clusters
presents considerable challenges to quantum chemistry, with the complex
iron–molybdenum cofactor (FeMoco) of nitrogenase representing
perhaps the ultimate challenge for either wavefunction or density
functional theory. While broken-symmetry density functional theory
has seen some success in describing the electronic structure of such
cofactors, there is a large exchange–correlation functional
dependence in calculations that is not fully understood. In this work,
we present a geometric benchmarking test set, FeMoD11, of synthetic
spin-coupled Fe–Fe and Mo–Fe dimers, with relevance
to the molecular and electronic structure of the Mo-nitrogenase FeMo
cofactor. The reference data consists of high-resolution crystal structures
of metal dimer compounds in different oxidation states. Multiple density
functionals are tested on their ability to reproduce the local geometry,
specifically the Fe–Fe/Mo–Fe distance, for both antiferromagnetically
coupled and ferromagnetically coupled dimers via the broken-symmetry
approach. The metal–metal distance is revealed not only to
be highly sensitive to the amount of exact exchange in the functional
but also to the specific exchange and correlation functionals. For
the antiferromagnetically coupled dimers, the calculated metal–metal
distance correlates well with the covalency of the bridging metal–ligand
bonds, as revealed via the corresponding orbital analysis, Hirshfeld
S/Fe charges, and Fe–S Mayer bond order. Superexchange via
bridging ligands is expected to be the dominant interaction in these
dimers, and our results suggest that functionals that predict accurate
Fe–Fe and Mo–Fe distances describe the overall metal–ligand
covalency more accurately and in turn the superexchange of these systems.
The best performing density functionals of the 16 tested for the FeMoD11
test set are revealed to be either the nonhybrid functionals r2SCAN and B97-D3 or hybrid functionals with 10–15% exact
exchange: TPSSh and B3LYP*. These same four functionals are furthermore
found to reproduce the high-resolution X-ray structure of FeMoco well
according to quantum mechanics/molecular mechanics (QM/MM) calculations.
Almost all nonhybrid functionals systematically underestimate Fe–Fe
and Mo–Fe distances (with r2SCAN and B97-D3 being
the sole exceptions), while hybrid functionals with >15% exact
exchange
(including range-separated hybrid functionals) overestimate them.
The results overall suggest r2SCAN, B97-D3, TPSSh, and
B3LYP* as accurate density functionals for describing the electronic
structure of iron–sulfur clusters in general, including the
complex FeMoco cluster of nitrogenase.
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Affiliation(s)
- Bardi Benediktsson
- Science Institute, University of Iceland, Dunhagi 3, 107 Reykjavik, Iceland
| | - Ragnar Bjornsson
- Science Institute, University of Iceland, Dunhagi 3, 107 Reykjavik, Iceland.,Max-Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
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34
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Jiang H, Ryde U. Thermodynamically Favourable States in the Reaction of Nitrogenase without Dissociation of any Sulfide Ligand. Chemistry 2022; 28:e202103933. [PMID: 35006641 PMCID: PMC9305431 DOI: 10.1002/chem.202103933] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2021] [Indexed: 12/16/2022]
Abstract
We have used combined quantum mechanical and molecular mechanical (QM/MM) calculations to study the reaction mechanism of nitrogenase, assuming that none of the sulfide ligands dissociates. To avoid the problem that there is no consensus regarding the structure and protonation of the E4 state, we start from a state where N2 is bound to the cluster and is protonated to N2H2, after dissociation of H2. We show that the reaction follows an alternating mechanism with HNNH (possibly protonated to HNNH2) and H2NNH2 as intermediates and the two NH3 products dissociate at the E7 and E8 levels. For all intermediates, coordination to Fe6 is preferred, but for the E4 and E8 intermediates, binding to Fe2 is competitive. For the E4, E5 and E7 intermediates we find that the substrate may abstract a proton from the hydroxy group of the homocitrate ligand of the FeMo cluster, thereby forming HNNH2, H2NNH2 and NH3 intermediates. This may explain why homocitrate is a mandatory component of nitrogenase. All steps in the suggested reaction mechanism are thermodynamically favourable compared to protonation of the nearby His‐195 group and in all cases, protonation of the NE2 atom of the latter group is preferred.
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Affiliation(s)
- Hao Jiang
- Department of Theoretical Chemistry, Lund University Chemical Centre, P. O. Box 124, 221 00, Lund, Sweden
| | - Ulf Ryde
- Department of Theoretical Chemistry, Lund University Chemical Centre, P. O. Box 124, 221 00, Lund, Sweden
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35
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Tzeli D, Karapetsas I, Merriles DM, Ewigleben JC, Morse MD. Molybdenum-Sulfur Bond: Electronic Structure of Low-Lying States of MoS. J Phys Chem A 2022; 126:1168-1181. [PMID: 35147425 DOI: 10.1021/acs.jpca.1c10672] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The molybdenum-sulfur bond plays an important role in many processes such as nitrogen-fixation, and it is found as a building block in layered materials such as MoS2, known for its various shapes and morphologies. Here, we present an accurate theoretical and experimental investigation of the chemical bonding and the electronic structure of 20 low-lying states of the MoS molecule. Multireference and coupled cluster methodologies, namely, MRCISD, MRCISD + Q, RCCSD(T), and RCCSD[T], were employed in conjunction with basis sets up to aug-cc-pwCV5Z-PP/aug-cc-pwCV5Z for the study of these states. We note the significance of including the inner 4s24p6 electrons of Mo and 2s22p6 of S in the correlated space to obtain accurate results. Experimentally, the predissociation threshold of MoS was measured using resonant two-photon ionization spectroscopy, allowing for a precise measurement of the bond dissociation energy. Our extrapolated computational D0 value for the ground state is 3.936 eV, in excellent agreement with our experimental measurement of 3.932 ± 0.004 eV. The largest calculated adiabatic D0 (5.74 eV) and the largest dipole moment (6.50 D) were found for the 5Σ+ state, where a triple bond is formed. Finally, the connection of the chemical bonding of the isolated MoS species to the relevant solid, MoS2, is emphasized. The low-lying septet states of the diatomic molecule are involved in the material as a building block, explaining the stability and the variety of the shapes and morphologies of the material.
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Affiliation(s)
- Demeter Tzeli
- Laboratory of Physical Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis Zografou, Athens 15784, Greece.,Theoretical and Physical Chemistry Institute, National Hellenic Research Foundation, 48 Vassileos Constantinou Avenue, Athens 11635, Greece
| | - Ioannis Karapetsas
- Laboratory of Physical Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis Zografou, Athens 15784, Greece
| | - Dakota M Merriles
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Joshua C Ewigleben
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Michael D Morse
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
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36
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Chatterjee S, Harden I, Bistoni G, Castillo RG, Chabbra S, van Gastel M, Schnegg A, Bill E, Birrell JA, Morandi B, Neese F, DeBeer S. A Combined Spectroscopic and Computational Study on the Mechanism of Iron-Catalyzed Aminofunctionalization of Olefins Using Hydroxylamine Derived N-O Reagent as the "Amino" Source and "Oxidant". J Am Chem Soc 2022; 144:2637-2656. [PMID: 35119853 PMCID: PMC8855425 DOI: 10.1021/jacs.1c11083] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
![]()
Herein, we study
the mechanism of iron-catalyzed direct synthesis
of unprotected aminoethers from olefins by a hydroxyl amine derived
reagent using a wide range of analytical and spectroscopic techniques
(Mössbauer, Electron Paramagnetic Resonance, Ultra-Violet Visible
Spectroscopy, X-ray Absorption, Nuclear Resonance Vibrational Spectroscopy,
and resonance Raman) along with high-level quantum chemical calculations.
The hydroxyl amine derived triflic acid salt acts as the “oxidant”
as well as “amino” group donor. It activates the high-spin
Fe(II) (St = 2) catalyst [Fe(acac)2(H2O)2] (1) to generate
a high-spin (St = 5/2) intermediate (Int I), which decays to a second intermediate (Int II) with St = 2. The analysis of spectroscopic
and computational data leads to the formulation of Int I as [Fe(III)(acac)2-N-acyloxy] (an alkyl-peroxo-Fe(III)
analogue). Furthermore, Int II is formed by N–O
bond homolysis. However, it does not generate a high-valent
Fe(IV)(NH) species (a Fe(IV)(O) analogue), but instead a high-spin
Fe(III) center which is strongly antiferromagnetically coupled (J = −524 cm–1) to an iminyl radical,
[Fe(III)(acac)2-NH·], giving St = 2. Though Fe(NH) complexes as isoelectronic surrogates
to Fe(O) functionalities are known, detection of a high-spin Fe(III)-N-acyloxy intermediate (Int I), which undergoes
N–O bond cleavage to generate the active iron–nitrogen
intermediate (Int II), is unprecedented. Relative to
Fe(IV)(O) centers, Int II features a weak elongated Fe–N
bond which, together with the unpaired electron density along the
Fe–N bond vector, helps to rationalize its propensity for N-transfer reactions onto styrenyl olefins, resulting in
the overall formation of aminoethers. This study thus demonstrates
the potential of utilizing the iron-coordinated nitrogen-centered
radicals as powerful reactive intermediates in catalysis.
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Affiliation(s)
- Sayanti Chatterjee
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany.,Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Ingolf Harden
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Giovanni Bistoni
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Rebeca G Castillo
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Sonia Chabbra
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Maurice van Gastel
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Alexander Schnegg
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Eckhard Bill
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - James A Birrell
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Bill Morandi
- ETH Zürich, Vladimir-Prelog-Weg 3, HCI, 8093 Zürich, Switzerland.,Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Frank Neese
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Serena DeBeer
- Max Planck Institute for Chemical Energy Conversion, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany
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37
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Karnamkkott HS, Gorantla SMNVT, Devi K, Tiwari G, Mondal KC. Bonding and stability of dinitrogen-bonded donor base-stabilized Si(0)/Ge(0) species [(cAAC Me-Si/Ge) 2(N 2)]: EDA-NOCV analysis. RSC Adv 2022; 12:4081-4093. [PMID: 35425464 PMCID: PMC8981037 DOI: 10.1039/d1ra07714g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Accepted: 12/20/2021] [Indexed: 11/21/2022] Open
Abstract
Recently, dinitrogen (N2) binding and its activation have been achieved by non-metal compounds like intermediate cAAC-borylene as (cAAC)2(B-Dur)2(N2) [cAAC = cyclic alkyl(amino) carbene; Dur = aryl group, 2,3,5,6-tetramethylphenyl; B-Dur = borylene]. It has attracted a lot of scientific attention from different research areas because of its future prospects as a potent species towards the metal free reduction of N2 into ammonia (NH3) under mild conditions. Two (cAAC)(B-Dur) units, each of which possesses six valence electrons around the B-centre, are shown to accept σ-donations from the N2 ligand (B ← N2). Two B-Dur further provide π-backdonations (B → N2) to a central N2 ligand to strengthen the B–N2–B bond, providing maximum stability to the compound (cAAC)2(B-Dur)2(N2) since the summation of each pair wise interaction accounted for the total stabilization energy of the molecule. (cAAC)(B-Dur) unit is isolobal to cAAC–E (E = Si, Ge) fragment. Herein, we report on the stability and bonding of cAAC–E bonded N2-complex (cAAC–E)2(N2) (1–2; Si, Ge) by NBO, QTAIM and EDA-NOCV analyses (EDA-NOCV = energy decomposition analysis coupled with natural orbital for chemical valence; QTAIM = quantum theory of atoms in molecule). Our calculation suggested that syntheses of elusive (cAAC–E)2(N2) (1–2; Si, Ge) species may be possible with cAAC ligands having bulky substitutions adjacent to the CcAAC atom by preventing the homo-dimerization of two (cAAC)(E) units which can lead to the formation of (cAAC–E)2. The formation of E
Created by potrace 1.16, written by Peter Selinger 2001-2019
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E bond is thermodynamically more favourable (E = Si, Ge) over binding energy of N2 inbetween two cAAC–E units. Dinitrogen (N2) binding and its activation have been achieved by non-metal compounds like intermediate cAACborylene with the general formula of (cAAC)2(B-Dur)2(N2) [cAAC = cyclic alkyl(amino)carbene; Dur = aryl group, 2,3,5,6-tetramethylphenyl; B-Dur = aryl-borylene].![]()
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Affiliation(s)
- Harsha S Karnamkkott
- Department of Chemistry, Indian Institute of Technology Madras Chennai 600036 India
| | | | - Kavita Devi
- Department of Chemistry, Indian Institute of Technology Madras Chennai 600036 India
| | - Geetika Tiwari
- Department of Chemistry, Indian Institute of Technology Madras Chennai 600036 India
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38
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Stabilization of intermediate spin states in mixed-valent diiron dichalcogenide complexes. Nat Chem 2022; 14:328-333. [PMID: 35058610 PMCID: PMC8898764 DOI: 10.1038/s41557-021-00853-5] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Accepted: 11/03/2021] [Indexed: 11/24/2022]
Abstract
The electronic structure and ground spin states, S, observed for mixed-valent iron–sulfur dimers (FeII-FeIII) are typically determined by the Heisenberg exchange interaction, J, that couples the magnetic interaction of the two metal centres either ferromagnetically (J > 0, S = 9/2) or antiferromagnetically (J < 0, S = 1/2). In the case of antiferromagnetically coupled iron centres, stabilization of the high-spin S = 9/2 ground state is also feasible through a Heisenberg double-exchange interaction, B, which lifts the degeneracy of the Heisenberg spin states. This theorem also predicts intermediate spin states for mixed-valent dimers, but those have so far remained elusive. Herein, we describe the structural, electron paramagnetic resonance and Mössbauer spectroscopic, and magnetic characterization of a series of mixed-valent complexes featuring [Fe2Q2]+ (Q = S2–, Se2–, Te2–), where the Se and Te complexes favour S = 3/2 spin states. The incorporation of heavier chalcogenides in this series reveals a delicate balance of antiferromagnetic coupling, Heisenberg double-exchange and vibronic coupling. ![]()
Despite extensive investigations of mixed-valence complexes, molecules with intermediate spin states have remained elusive. Now, selenium- and tellurium-bridged mixed-valent iron dimers have been prepared in which a balance of Heisenberg exchange and double-exchange coupling of the unpaired electron, combined with moderate vibronic contributions, stabilizes S = 3/2 ground spin states.
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39
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Dinitrogen Binding Relevant to FeMoco of Nitrogenase: Clear Visualization of σ‐Donation and π‐Backdonation from Deformation Electron Densities around Carbon/Silicon‐Iron Site. Eur J Inorg Chem 2022. [DOI: 10.1002/ejic.202100931] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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40
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Yuan C, Jin WT, Zhou ZH. Comparisons of bond valences and distances for CO- and N 2-bound clusters of FeMo-cofactors. NEW J CHEM 2022. [DOI: 10.1039/d2nj00754a] [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
By comparisons of N2 and isoelectronic substrate CO bound FeMo-cofactors (FeMo-cos) in nitrogenases, we have used a classical bond valence method to calculate the oxidation states of the iron and molybdenum atoms in FeMo-cos.
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Affiliation(s)
- Chang Yuan
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, P. R. China
| | - Wan-Ting Jin
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, P. R. China
| | - Zhao-Hui Zhou
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Department of Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, P. R. China
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41
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Yang PC, Yu KP, Hsieh CT, Zou J, Fang CT, Liu HK, Pao CW, Deng L, Cheng MJ, Lin CY. Stabilization of a high-spin three-coordinate Fe(III) imidyl complex by radical delocalization. Chem Sci 2022; 13:9637-9643. [PMID: 36091897 PMCID: PMC9400638 DOI: 10.1039/d2sc02699f] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2022] [Accepted: 07/04/2022] [Indexed: 11/21/2022] Open
Abstract
High-spin, late transition metal imido complexes have attracted significant interest due to their group transfer reactivity and catalytic C−H activation of organic substrates. Reaction of a new two-coordinate iron complex,...
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Affiliation(s)
- Po-Chun Yang
- Department of Chemistry, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
| | - Kuan-Po Yu
- Department of Chemistry, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
| | - Chi-Tien Hsieh
- Department of Chemistry, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
| | - Junjie Zou
- State Key Laboratory of Organometallic Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences 345 Lingling Road Shanghai 200032 P. R. China
| | - Chia-Te Fang
- Department of Chemistry, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
| | - Hsin-Kuan Liu
- Core Facility Center, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
| | - Chih-Wen Pao
- National Synchrotron Radiation Research Center 101 Hsin-Ann Road Hsinchu 300092 Taiwan
| | - Liang Deng
- State Key Laboratory of Organometallic Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences 345 Lingling Road Shanghai 200032 P. R. China
| | - Mu-Jeng Cheng
- Department of Chemistry, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
| | - Chun-Yi Lin
- Department of Chemistry, National Cheng Kung University No. 1 University Road Tainan 701014 Taiwan
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42
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Dance I. Structures and reaction dynamics of N 2 and H 2 binding at FeMo-co, the active site of nitrogenase. Dalton Trans 2021; 50:18212-18237. [PMID: 34860237 DOI: 10.1039/d1dt03548g] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
The chemical reactions occurring at the Fe7MoS9C(homocitrate) cluster, FeMo-co, the active site of the enzyme nitrogenase (N2 → NH3), are enigmatic. Experimental information collected over a long period reveals aspects of the roles of N2 and H2, each with more than one type of reactivity. This paper reports investigations of the binding of H2 and N2 at intact FeMo-co, using density functional simulations of a large 486 atom relevant portion of the protein, resulting in 27 new structures containing H2 and/or N2 bound at the exo and endo coordination sites of the participating Fe atoms, Fe2 and Fe6. Binding energies and transition states for association/dissociation are determined, and trajectories for the approach, binding and separation of H2/N2 are described, including diffusion of these small molecules through proximal protein. Influences of surrounding amino acids are identified. FeMo-co deforms geometrically when binding H2 or N2, and a procedure for calculating the energy cost involved, the adaptation energy, is introduced here. Adaptation energies, which range from 7 to 36 kcal mol-1 for the reported structures, are influenced by the protonation state of the His195 side chain. Seven N2 structures and three H2 structures have negative binding free energies, which include the estimated entropy penalties for binding of N2, H2 from proximal protein. These favoured structures have N2 bound end-on at exo-Fe2, exo-Fe6 and endo-Fe2 positions of FeMo-co, and H2 bound at the endo-Fe2 position. Various postulated structures with N2 bridging Fe2 and Fe6 revert to end-on-N2 at endo positions. The structures are also assessed via the calculated potential energy barriers for association and dissociation. Barriers to the binding of H2 range from 1 to 20 kcal mol-1 and barriers to dissociation of H2 range from 3 to 18 kcal mol-1. Barriers to the binding of N2, in either side-on or end-on mode, range from 2 to 18 kcal mol-1, while dissociation of bound N2 encounters barriers of 3 to 8 kcal mol-1 for side-on bonding and 7 to 18 kcal mol-1 for end-on bonding. These results allow formulation of mechanisms for the H2/N2 exchange reaction, and three feasible mechanisms for associative exchange and three for dissociative exchange are identified. Consistent electronic structures and potential energy surfaces are maintained throughout. Changes in the spin populations of Fe2 and Fe6 connected with cluster deformation and with metal-ligand bond formation are identified.
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Affiliation(s)
- Ian Dance
- School of Chemistry, UNSW Sydney, NSW 2051, Australia.
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43
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Gorantla SMVT, Mondal KC. Estimations of Fe-N 2 Intrinsic Interaction Energies of Iron-Sulfur/Nitrogen-Carbon Sites: A Deeper Bonding Insight by EDA-NOCV Analysis of a Model Complex of the Nitrogenase Cofactor. ACS OMEGA 2021; 6:33932-33942. [PMID: 34926940 PMCID: PMC8675039 DOI: 10.1021/acsomega.1c05238] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2021] [Accepted: 11/10/2021] [Indexed: 06/14/2023]
Abstract
The MoFe7S9C1- unit of the nitrogenase cofactor (FeMoco) attracts chemists and biochemists due to its unusual ability to bind aerial dinitrogen (N2) at ambient condition and catalytically convert it into ammonia (NH3). The mode of N2 binding and its reaction pathways are yet not clear. An important conclusion has been made based on the very recent synthesis and isolation of model Fe(I/0)-complexes with sulfur-donor ligands under the cleavage of one Fe-S bond followed by binding of N2 at the Fe(0) center. These complexes are structurally relevant to the nitrogenase cofactor (MoFe7S9C1-). Herein, we report the EDA-NOCV analyses and NICS calculations of the dinitrogen-bonded dianionic complex Fe0-N2 (1) (having a CAr ← Fe π-bond) and monoanionic complex FeI-N2 (2) (having a CAr-Fe σ-bond) to provide a deeper insight into the Fe-N2 interacting orbitals and corresponding pairwise interaction energies (EDA-NOCV = energy decomposition analysis coupled with natural orbital for chemical valence; NICS = nucleus-independent chemical shifts). The orbital interaction in the Fe-N2 bond is significantly larger than Coulombic interactions, with major pairwise contributions coming from d(Fe) orbitals to the empty π* orbitals of N2 (three Fe → N2). ΔE int values are in the range of -61 to -77 kcal mol-1. Very interestingly, NICS calculations have been carried out for the fragments before and after binding of the N2 molecule. The computed σ- and π-aromaticity values are attributed to the position of the Fe atoms, oxidation states of Fe centers, and Fe-C bond lengths of these two complexes.
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44
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Spiller N, Bjornsson R, DeBeer S, Neese F. Carbon Monoxide Binding to the Iron-Molybdenum Cofactor of Nitrogenase: a Detailed Quantum Mechanics/Molecular Mechanics Investigation. Inorg Chem 2021; 60:18031-18047. [PMID: 34767349 PMCID: PMC8653219 DOI: 10.1021/acs.inorgchem.1c02649] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Carbon monoxide (CO) is a well-known inhibitor of nitrogenase activity. Under turnover conditions, CO binds to FeMoco, the active site of Mo nitrogenase. Time-resolved IR measurements suggest an initial terminal CO at 1904 cm-1 that converts to a bridging CO at 1715 cm-1, and an X-ray structure shows that CO can displace one of the bridging belt sulfides of FeMoco. However, the CO-binding redox state(s) of FeMoco (En) and the role of the protein environment in stabilizing specific CO-bound intermediates remain elusive. In this work, we carry out an in-depth analysis of the CO-FeMoco interaction based on quantum chemical calculations addressing different aspects of the electronic structure. (1) The local electronic structure of the Fe-CO bond is studied through diamagnetically substituted FeMoco. (2) A cluster model of FeMoco within a polarizable continuum illustrates how CO binding may affect the spin-coupling between the metal centers. (3) A QM/MM model incorporates the explicit influence of the amino acid residues surrounding FeMoco in the MoFe protein. The QM/MM model predicts both a terminal and a bridging CO in the E1 redox state. The scaled calculated CO frequencies (1922 and 1716 cm-1, respectively) are in good agreement with the experimentally observed IR bands supporting CO binding to the E1 state. Alternatively, an E2 state QM/MM model, which has the same atomic structure as the CO-bound X-ray structure, features a semi-bridging CO with a scaled calculated frequency (1718 cm-1) similar to the bridging CO in the E1 model.
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Affiliation(s)
- Nico Spiller
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Ragnar Bjornsson
- Max Planck Institute for Chemical Energy Conversion, Stiftstr 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Serena DeBeer
- Max Planck Institute for Chemical Energy Conversion, Stiftstr 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Frank Neese
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
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45
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Thorhallsson AT, Bjornsson R. The E 2 state of FeMoco: Hydride Formation versus Fe Reduction and a Mechanism for H 2 Evolution. Chemistry 2021; 27:16788-16800. [PMID: 34541722 PMCID: PMC9293435 DOI: 10.1002/chem.202102730] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2021] [Indexed: 11/27/2022]
Abstract
The iron‐molybdenum cofactor (FeMoco) is responsible for dinitrogen reduction in Mo nitrogenase. Unlike the resting state, E0, reduced states of FeMoco are much less well characterized. The E2 state has been proposed to contain a hydride but direct spectroscopic evidence is still lacking. The E2 state can, however, relax back the E0 state via a H2 side‐reaction, implying a hydride intermediate prior to H2 formation. This E2→E0 pathway is one of the primary mechanisms for H2 formation under low‐electron flux conditions. In this study we present an exploration of the energy surface of the E2 state. Utilizing both cluster‐continuum and QM/MM calculations, we explore various classes of E2 models: including terminal hydrides, bridging hydrides with a closed or open sulfide‐bridge, as well as models without. Importantly, we find the hemilability of a protonated belt‐sulfide to strongly influence the stability of hydrides. Surprisingly, non‐hydride models are found to be almost equally favorable as hydride models. While the cluster‐continuum calculations suggest multiple possibilities, QM/MM suggests only two models as contenders for the E2 state. These models feature either i) a bridging hydride between Fe2 and Fe6 and an open sulfide‐bridge with terminal SH on Fe6 (E2‐hyd) or ii) a double belt‐sulfide protonated, reduced cofactor without a hydride (E2‐nonhyd). We suggest both models as contenders for the E2 redox state and further calculate a mechanism for H2 evolution. The changes in electronic structure of FeMoco during the proposed redox‐state cycle, E0→E1→E2→E0, are discussed.
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Affiliation(s)
- Albert Th Thorhallsson
- Science Institute, University of Iceland, Dunhagi 3, 107, Reykjavik, Iceland.,Department of Inorganic Spectroscopy, Max-Planck-Institut für Chemische Energiekonversion, Stiftstrasse 34-36, 45470, Mülheim an der Ruhr, Germany
| | - Ragnar Bjornsson
- Science Institute, University of Iceland, Dunhagi 3, 107, Reykjavik, Iceland.,Department of Inorganic Spectroscopy, Max-Planck-Institut für Chemische Energiekonversion, Stiftstrasse 34-36, 45470, Mülheim an der Ruhr, Germany
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46
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Farley GW, Siegler MA, Goldberg DP. Halogen Transfer to Carbon Radicals by High-Valent Iron Chloride and Iron Fluoride Corroles. Inorg Chem 2021; 60:17288-17302. [PMID: 34709780 DOI: 10.1021/acs.inorgchem.1c02666] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
High-valent iron halide corroles were examined to determine their reactivity with carbon radicals and their ability to undergo radical rebound-like processes. Beginning with Fe(Cl)(ttppc) (1) (ttppc = 5,10,15-tris(2,4,6-triphenylphenyl)corrolato3-), the new iron corroles Fe(OTf)(ttppc) (2), Fe(OTf)(ttppc)(AgOTf) (3), and Fe(F)(ttppc) (4) were synthesized. Complexes 3 and 4 are the first iron triflate and iron fluoride corroles to be structurally characterized by single crystal X-ray diffraction. The structure of 3 reveals an AgI-pyrrole (η2-π) interaction. The Fe(Cl)(ttppc) and Fe(F)(ttppc) complexes undergo halogen transfer to triarylmethyl radicals, and kinetic analysis of the reaction between (p-OMe-C6H4)3C• and 1 gave k = 1.34(3) × 103 M-1 s-1 at 23 °C and 2.2(2) M-1 s-1 at -60 °C, ΔH⧧ = +9.8(3) kcal mol-1, and ΔS⧧ = -14(1) cal mol-1 K-1 through an Eyring analysis. Complex 4 is significantly more reactive, giving k = 1.16(6) × 105 M-1 s-1 at 23 °C. The data point to a concerted mechanism and show the trend X = F- > Cl- > OH- for Fe(X)(ttppc). This study provides mechanistic insights into halogen rebound for an iron porphyrinoid complex.
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Affiliation(s)
- Geoffrey W Farley
- Department of Chemistry, The Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Maxime A Siegler
- Department of Chemistry, The Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - David P Goldberg
- Department of Chemistry, The Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
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Wang CH, DeBeer S. Structure, reactivity, and spectroscopy of nitrogenase-related synthetic and biological clusters. Chem Soc Rev 2021; 50:8743-8761. [PMID: 34159992 DOI: 10.1039/d1cs00381j] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
The reduction of dinitrogen (N2) is essential for its incorporation into nucleic acids and amino acids, which are vital to life on earth. Nitrogenases convert atmospheric dinitrogen to two ammonia molecules (NH3) under ambient conditions. The catalytic active sites of these enzymes (known as FeM-cofactor clusters, where M = Mo, V, Fe) are the sites of N2 binding and activation and have been a source of great interest for chemists for decades. In this review, recent studies on nitrogenase-related synthetic molecular complexes and biological clusters are discussed, with a focus on their reactivity and spectroscopic characterization. The molecular models that are discussed span from simple mononuclear iron complexes to multinuclear iron complexes and heterometallic iron complexes. In addition, recent work on the extracted biological cofactors is discussed. An emphasis is placed on how these studies have contributed towards our understanding of the electronic structure and mechanism of nitrogenases.
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Affiliation(s)
- Chen-Hao Wang
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany.
| | - Serena DeBeer
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany.
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Yagoub I, Clémancey M, Bayle PA, Quintard A, Delattre G, Blondin G, Kochem A. Mössbauer Spectroscopic and Computational Investigation of An Iron Cyclopentadienone Complex. Inorg Chem 2021; 60:11192-11199. [PMID: 34264639 DOI: 10.1021/acs.inorgchem.1c01155] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
(Cyclopentadienone)iron carbonyl complexes have recently received particular attention for their use as catalysts in hydrogenation or transfer hydrogenation reactions including the N-alkylation of amines with alcohols. This is due to their easy synthesis from simple and cheap materials, air and water stabilities, and the crucial metal-ligand cooperation giving rise to unique catalytic properties. Here, we report a Mössbauer spectroscopic and computational investigation of such a complex and its corresponding activated species for dehydrogenation and hydrogenation reactions. This study affords a deeper understanding of the species formed by the reaction with Me3NO and their distribution upon the added amount of an oxidant.
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Affiliation(s)
- Ikram Yagoub
- Univ. Grenoble Alpes, CNRS, CEA, LCBM (UMR 5249), F-38000 Grenoble, France
| | - Martin Clémancey
- Univ. Grenoble Alpes, CNRS, CEA, LCBM (UMR 5249), F-38000 Grenoble, France
| | | | - Adrien Quintard
- Aix Marseille Univ, CNRS, Centrale Marseille Ism2, Marseille, France
| | - Guillaume Delattre
- Univ. Grenoble Alpes, CNRS, CEA, LCBM (UMR 5249), F-38000 Grenoble, France
| | - Geneviève Blondin
- Univ. Grenoble Alpes, CNRS, CEA, LCBM (UMR 5249), F-38000 Grenoble, France
| | - Amélie Kochem
- Univ. Grenoble Alpes, CNRS, CEA, LCBM (UMR 5249), F-38000 Grenoble, France
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Li Manni G, Dobrautz W, Bogdanov NA, Guther K, Alavi A. Resolution of Low-Energy States in Spin-Exchange Transition-Metal Clusters: Case Study of Singlet States in [Fe(III) 4S 4] Cubanes. J Phys Chem A 2021; 125:4727-4740. [PMID: 34048648 PMCID: PMC8201447 DOI: 10.1021/acs.jpca.1c00397] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
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Polynuclear transition-metal
(PNTM) clusters owe their catalytic
activity to numerous energetically low-lying spin states and stable
oxidation states. The characterization of their electronic structure
represents one of the greatest challenges of modern chemistry. We
propose a theoretical framework that enables the resolution of targeted
electronic states with ease and apply it to two [Fe(III)4S4] cubanes. Through direct access to their many-body
wave functions, we identify important correlation mechanisms and their
interplay with the geometrical distortions observed in these clusters,
which are core properties in understanding their catalytic activity.
The simulated magnetic coupling constants predicted by our strategy
allow us to make qualitative connections between spin interactions
and geometrical distortions, demonstrating its predictive power. Moreover,
despite its simplicity, the strategy provides magnetic coupling constants
in good agreement with the available experimental ones. The complexes
are intrinsically frustrated anti-ferromagnets, and the obtained spin
structures together with the geometrical distortions represent two
possible ways to release spin frustration (spin-driven Jahn–Teller
distortion). Our paradigm provides a simple, yet rigorous, route to
uncover the electronic structure of PNTM clusters and may be applied
to a wide variety of such clusters.
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Affiliation(s)
- Giovanni Li Manni
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Werner Dobrautz
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Nikolay A Bogdanov
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Kai Guther
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Ali Alavi
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany.,Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
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50
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Schulz CE, Castillo RG, Pantazis DA, DeBeer S, Neese F. Structure-Spectroscopy Correlations for Intermediate Q of Soluble Methane Monooxygenase: Insights from QM/MM Calculations. J Am Chem Soc 2021; 143:6560-6577. [PMID: 33884874 PMCID: PMC8154522 DOI: 10.1021/jacs.1c01180] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
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The determination
of the diiron core intermediate structures involved
in the catalytic cycle of soluble methane monooxygenase (sMMO), the
enzyme that selectively catalyzes the conversion of methane to methanol,
has been a subject of intense interest within the bioinorganic scientific
community. Particularly, the specific geometry and electronic structure
of the intermediate that precedes methane binding, known as intermediate
Q (or MMOHQ), has been debated for over 30 years. Some
reported studies support a bis-μ-oxo-bridged Fe(IV)2O2 closed-core conformation Fe(IV)2O2 core, whereas others favor an open-core geometry, with a longer
Fe–Fe distance. The lack of consensus calls for a thorough
re-examination and reinterpretation of the spectroscopic data available
on the MMOHQ intermediate. Herein, we report extensive
simulations based on a hybrid quantum mechanics/molecular mechanics
approach (QM/MM) approach that takes into account the complete enzyme
to explore possible conformations for intermediates MMOHox and MMOHQ of the sMMOH catalytic cycle. High-level quantum
chemical approaches are used to correlate specific structural motifs
with geometric parameters for comparison with crystallographic and
EXAFS data, as well as with spectroscopic data from Mössbauer
spectroscopy, Fe K-edge high-energy resolution X-ray absorption spectroscopy
(HERFD XAS), and resonance Raman 16O–18O difference spectroscopy. The results provide strong support for
an open-core-type configuration in MMOHQ, with the most
likely topology involving mono-oxo-bridged Fe ions and alternate terminal
Fe-oxo and Fe-hydroxo groups that interact via intramolecular hydrogen
bonding. The implications of an open-core intermediate Q on the reaction
mechanism of sMMO are discussed.
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Affiliation(s)
- Christine E Schulz
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Rebeca G Castillo
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Dimitrios A Pantazis
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Serena DeBeer
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Frank Neese
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
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