1
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Amanollahi Z, Lampe L, Bensberg M, Neugebauer J, Feldt M. On the accuracy of orbital based multi-level approaches for closed-shell transition metal chemistry. Phys Chem Chem Phys 2023; 25:4635-4648. [PMID: 36662158 DOI: 10.1039/d2cp05056k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
In this work, we investigate the accuracy of the local molecular orbital molecular orbital (LMOMO) scheme and projection-based wave function-in-density functional theory (WF-in-DFT) embedding for the prediction of reaction energies and barriers of typical reactions involving transition metals. To analyze the dependence of the accuracy on the system partitioning, we apply a manual orbital selection for LMOMO as well as the so-called direct orbital selection (DOS) for both approaches. We benchmark these methods on 30 closed shell reactions involving 16 different transition metals. This allows us to devise guidelines for the manual selection as well as settings for the DOS that provide accurate results within an error of 2 kcal mol-1 compared to local coupled cluster. To reach this accuracy, on average 55% of the occupied orbitals have to be correlated with coupled cluster for the current test set. Furthermore, we find that LMOMO gives more reliable relative energies for small embedded regions than WF-in-DFT embedding.
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Affiliation(s)
- Zohreh Amanollahi
- Leibniz Institute for Catalysis (LIKAT), Albert-Einstein-Str. 29A, 18059 Rostock, Germany.
| | - Lukas Lampe
- Theoretische Organische Chemie, Organisch-Chemisches Institut and Center for Multiscale Theory and Computation, Westfälische Wilhelms-Universität Münster, Corrensstraße 36, 48149 Münster, Germany
| | - Moritz Bensberg
- ETH Zürich, Laboratorium für Physikalische Chemie, Vladimir-Prelog-Weg 2, 8093 Zürich, Switzerland
| | - Johannes Neugebauer
- Theoretische Organische Chemie, Organisch-Chemisches Institut and Center for Multiscale Theory and Computation, Westfälische Wilhelms-Universität Münster, Corrensstraße 36, 48149 Münster, Germany
| | - Milica Feldt
- Leibniz Institute for Catalysis (LIKAT), Albert-Einstein-Str. 29A, 18059 Rostock, Germany.
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2
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Kirk ML, Lepluart J, Yang J. Resonance Raman spectroscopy of pyranopterin molybdenum enzymes. J Inorg Biochem 2022; 235:111907. [PMID: 35932756 PMCID: PMC10575615 DOI: 10.1016/j.jinorgbio.2022.111907] [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: 01/30/2022] [Revised: 05/16/2022] [Accepted: 06/16/2022] [Indexed: 10/17/2022]
Abstract
Resonance Raman spectroscopy (rR) is a powerful spectroscopic probe that is widely used for studying the geometric and electronic structure of metalloproteins. In this focused review, we detail how resonance Raman spectroscopy has contributed to a greater understanding of electronic structure, geometric structure, and the reaction mechanisms of pyranopterin molybdenum enzymes. The review focuses on the enzymes sulfite oxidase (SO), dimethyl sulfoxide reductase (DMSOR), xanthine oxidase (XO), and carbon monoxide dehydrogenase. Specifically, we highlight how Mo-Ooxo, Mo-Ssulfido, Mo-Sdithiolene, and dithiolene CC vibrational modes, isotope and heavy atom perturbations, resonance enhancement, and associated Raman studies of small molecule analogs have provided detailed insight into the nature of these metalloenzyme active sites.
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Affiliation(s)
- Martin L Kirk
- Department of Chemistry and Chemical Biology, The University of New Mexico, MSC03 2060, 1 University of New Mexico, Albuquerque, NM 87131-0001, United States.
| | - Jesse Lepluart
- Department of Chemistry and Chemical Biology, The University of New Mexico, MSC03 2060, 1 University of New Mexico, Albuquerque, NM 87131-0001, United States
| | - Jing Yang
- Department of Chemistry and Chemical Biology, The University of New Mexico, MSC03 2060, 1 University of New Mexico, Albuquerque, NM 87131-0001, United States
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3
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Dong YJ, Zhu B, Liang YJ, Guan W, Su ZM. Origin and Regioselectivity of Direct Hydrogen Atom Transfer Mechanism of C(sp 3)-H Arylation by [W 10O 32] 4-/Ni Metallaphotoredox Catalysis. Inorg Chem 2021; 60:18706-18714. [PMID: 34823352 DOI: 10.1021/acs.inorgchem.1c02118] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Polyoxometalates (POMs) have a broad array of applied platforms with well-characterized catalysis including photocatalysis to achieve aliphatic C(sp3)-H bond functionalization. However, the reaction mechanism of POMs in organic transformation remains unknown due to the complexity of POM structures. Here, a challenging [W10O32]4-/Ni metallaphotoredox-catalyzed C(sp3)-H arylation of alkane has been investigated by density functional theory (DFT) calculations. The calculation revealed that the superficial active center located in bridged oxygen of *[W10O32]4- is responsible for the abstraction of a foreign hydrogen atom and the activation of a C(sp3)-H bond. Furthermore, we discussed this activated process using the direct activation model of the C(sp3)-H σ-bond to deepen our mechanistic understanding of POM mediated C-H bond activation via the hydrogen atom transfer (HAT) pathway. Specifically, comparing three common mechanisms for nickel catalysis inducing by Ni0, NiI, and NiII to construct a C-C bond, the nickel catalytic cycle induced by the NiI active catalyst is profitable in kinetics and thermodynamics. Finally, a radical mechanism merging the ([W10O32]4--*[W10O32]4--[HW10O32]4--[W10O32]4-) decatungstate reductive quenching cycle, ([HW10O32]4--[H2W10O32]4--[HW10O32]4-) electron relay, and (NiI-NiII-NiI-NiIII-NiI) nickel catalytic cycle is proposed to be favorable. We hope that this work would provide a better understanding of the unique catalytic activity of decatungstate anions for the direct functionalization of the C(sp3)-H bond.
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Affiliation(s)
- Yu-Jiao Dong
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, People's Republic of China
| | - Bo Zhu
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, People's Republic of China
| | - Yu-Jie Liang
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, People's Republic of China
| | - Wei Guan
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, People's Republic of China
| | - Zhong-Min Su
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, People's Republic of China.,College of Chemistry, Jilin University, Changchun 130012, People's Republic of China
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4
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Ehweiner MA, Wiedemaier F, Belaj F, Mösch-Zanetti NC. Oxygen Atom Transfer Reactivity of Molybdenum(VI) Complexes Employing Pyrimidine- and Pyridine-2-thiolate Ligands. Inorg Chem 2020; 59:14577-14593. [PMID: 32951421 DOI: 10.1021/acs.inorgchem.0c02412] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
Four dioxidomolybdenum(VI) complexes of the general structure [MoO2L2] employing the S,N-bidentate ligands pyrimidine-2-thiolate (PymS, 1), pyridine-2-thiolate (PyS, 2), 4-methylpyridine-2-thiolate (4-MePyS, 3) and 6-methylpyridine-2-thiolate (6-MePyS, 4) were synthesized and characterized by spectroscopic means and single-crystal X-ray diffraction analysis (2-4). Complexes 1-4 were reacted with PPh3 and PMe3, respectively, to investigate their oxygen atom transfer (OAT) reactivity and catalytic applicability. Reduction with PPh3 leads to symmetric molybdenum(V) dimers of the general structure [Mo2O3L4] (6-9). Kinetic studies showed that the OAT from [MoO2L2] to PPh3 is 5 times faster for the PymS system than for the PyS and 4-MePyS systems. The reaction of complexes 1-3 with PMe3 gives stable molybdenum(IV) complexes of the structure [MoOL2(PMe3)2] (10-12), while reduction of [MoO2(6-MePyS)2] (4) yields [MoO(6-MePyS)2(PMe3)] (13) with only one PMe3 coordinated to the metal center. The activity of complexes 1-4 in catalytic OAT reactions involving Me2SO and Ph2SO as oxygen donors and PPh3 as an oxygen acceptor has been investigated to assess the influence of the varied ligand frameworks on the OAT reaction rates. It was found that [MoO2(PymS)2] (1) and [MoO2(6-MePyS)2] (4) are similarly efficient catalysts, while complexes 2 and 3 are only moderately active. In the catalytic oxidation of PMe3 with Me2SO, complex 4 is the only efficient catalyst. Complexes 1-4 were also found to catalytically reduce NO3- with PPh3, although their reactivity is inhibited by further reduced species such as NO, as exemplified by the formation of the nitrosyl complex [Mo(NO)(PymS)3] (14), which was identified by single-crystal X-ray diffraction analysis. Computed ΔG⧧ values for the very first step of the OAT were found to be lower for complexes 1 and 4 than for 2 and 3, explaining the difference in catalytic reactivity between the two pairs and revealing the requirement for an electron-deficient ligand system.
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Affiliation(s)
- Madeleine A Ehweiner
- Institute of Chemistry, Inorganic Chemistry, University of Graz, Schubertstrasse 1, 8010 Graz, Austria
| | - Fabian Wiedemaier
- Institute of Chemistry, Physical and Theoretical Chemistry, University of Graz, Heinrichstrasse 28, 8010 Graz, Austria
| | - Ferdinand Belaj
- Institute of Chemistry, Inorganic Chemistry, University of Graz, Schubertstrasse 1, 8010 Graz, Austria
| | - Nadia C Mösch-Zanetti
- Institute of Chemistry, Inorganic Chemistry, University of Graz, Schubertstrasse 1, 8010 Graz, Austria
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5
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Ferreira P, Cerqueira NMFSA, Fernandes PA, Romão MJ, Ramos MJ. Catalytic Mechanism of Human Aldehyde Oxidase. ACS Catal 2020. [DOI: 10.1021/acscatal.0c02627] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Pedro Ferreira
- LAQV@REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
| | - Nuno M. F. Sousa A. Cerqueira
- LAQV@REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
| | - Pedro Alexandrino Fernandes
- LAQV@REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
| | - Maria João Romão
- UCIBIO@REQUIMTE, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal
| | - Maria João Ramos
- LAQV@REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
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6
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Werner M, Oliveira JCA, Meiser W, Buback M, Mata RA. Critical Assessment of RAFT Equilibrium Constants: Theory Meets Experiment. MACROMOL THEOR SIMUL 2020. [DOI: 10.1002/mats.202000022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Martin Werner
- Institute of Physical ChemistryUniversity of Göttingen Tammannstr. 6 Göttingen D‐37077 Germany
| | - João C. A. Oliveira
- Institute of Organic and Biomolecular ChemistryUniversity of Göttingen Tammannstr. 2 Göttingen D‐37077 Germany
| | - Wibke Meiser
- Institute of Physical ChemistryUniversity of GöttingenTechnical and Macromolecular Chemistry Section Tammannstr. 6 Göttingen D‐37077 Germany
| | - Michael Buback
- Institute of Physical ChemistryUniversity of GöttingenTechnical and Macromolecular Chemistry Section Tammannstr. 6 Göttingen D‐37077 Germany
| | - Ricardo A. Mata
- Institute of Physical ChemistryUniversity of Göttingen Tammannstr. 6 Göttingen D‐37077 Germany
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7
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Ingersol LJ, Yang J, Kc K, Pokhrel A, Astashkin AV, Weiner JH, Johnston CA, Kirk ML. Addressing Ligand-Based Redox in Molybdenum-Dependent Methionine Sulfoxide Reductase. J Am Chem Soc 2020; 142:2721-2725. [PMID: 31989824 DOI: 10.1021/jacs.9b11762] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
A combination of pulsed EPR, CW EPR, and X-ray absorption spectroscopies has been employed to probe the geometric and electronic structure of the E. coli periplasmic molybdenum-dependent methionine sulfoxide reductase (MsrP). 17O and 1H pulsed EPR spectra show that the as-isolated Mo(V) enzyme form does not possess an exchangeable H2O/OH- ligand bound to Mo as found in the sulfite oxidizing enzymes of the same family. The nature of the unusual CW EPR spectrum has been re-evaluated in light of new data on the MsrP-N45R variant and related small-molecule analogues of the active site. These data point to a novel "thiol-blocked" [(PDT)MoVO(SCys)(thiolate)]- structure, which is supported by new EXAFS data. We discuss these new results in the context of ligand-based and metal-based redox chemistry in the enzymatic oxygen atom transfer reaction.
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Affiliation(s)
- Laura J Ingersol
- Department of Chemistry and Chemical Biology , The University of New Mexico , MSC03 2060, 1 University of New Mexico , Albuquerque , New Mexico 87131-0001 , United States
| | - Jing Yang
- Department of Chemistry and Chemical Biology , The University of New Mexico , MSC03 2060, 1 University of New Mexico , Albuquerque , New Mexico 87131-0001 , United States
| | - Khadanand Kc
- Department of Chemistry and Chemical Biology , The University of New Mexico , MSC03 2060, 1 University of New Mexico , Albuquerque , New Mexico 87131-0001 , United States
| | - Amrit Pokhrel
- Department of Chemistry and Chemical Biology , The University of New Mexico , MSC03 2060, 1 University of New Mexico , Albuquerque , New Mexico 87131-0001 , United States
| | - Andrei V Astashkin
- Department of Chemistry Biochemistry , University of Arizona , Tucson , Arizona 85721 , United States
| | - Joel H Weiner
- Department of Biochemistry , University of Alberta , 474 Medical Science Building , Edmonton , Alberta T6G 2H7 , Canada
| | - Christopher A Johnston
- Department of Biology , The University of New Mexico , MSC03 2060, 1 University of New Mexico , Albuquerque , New Mexico 87131-0001 , United States
| | - Martin L Kirk
- Department of Chemistry and Chemical Biology , The University of New Mexico , MSC03 2060, 1 University of New Mexico , Albuquerque , New Mexico 87131-0001 , United States
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8
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Tian T, Sun X, Weiske T, Cai Y, Geng C, Li J, Schwarz H. Reassessment of the Mechanisms of Thermal C-H Bond Activation of Methane by Cationic Magnesium Oxides: A Critical Evaluation of the Suitability of Different Density Functionals. Chemphyschem 2019; 20:1812-1821. [PMID: 31120181 DOI: 10.1002/cphc.201900508] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2019] [Revised: 05/22/2019] [Indexed: 12/24/2022]
Abstract
The mechanisms of the thermal reactions of the two iconic magnesium oxide cations MgO.+ and Mg2 O2 .+ with methane have been re-evaluated at the CCSD(T)/CBS//CCSD/def2-TZVP level of theory. For the reaction of MgO.+ with CH4 , only the classical hydrogen-atom transfer (HAT) was found; in contrast, for the Mg2 O2 .+ /CH4 couple, both HAT and proton-coupled electron-transfer (PCET) exist as mechanistic variants. In order to evaluate the suitability of density functional theory (DFT) methods, the reactions were computed by using 27 density functionals. The results obtained demonstrate that the various DFT methods often deliver rather different results for both geometric and energetic features. As to the prediction of the apparent barriers, pure functionals give the largest mean absolute errors. BMK, ωB97XD, and the double-hybrid functional mPW2PLYP were confirmed to come closest to the results provided by CCSD(T)/CBS. Thus, mechanistic conclusions based on a single DFT method should be viewed with great caution. In summary, this study may assist in the selection of a suitable quantum chemical method to unravel the mechanistic details of C-H bond activation by charged metal oxides.
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Affiliation(s)
- Tian Tian
- Institute of Theoretical Chemistry, Jilin University, Changchun, 130023, People's Republic of China
| | - Xiaoli Sun
- Institute of Theoretical Chemistry, Jilin University, Changchun, 130023, People's Republic of China
| | - Thomas Weiske
- Institut für Chemie, Technische Universität Berlin, Straße des 17. Juni 115, 10623, Berlin, Germany
| | - Yuxi Cai
- Institute of Theoretical Chemistry, Jilin University, Changchun, 130023, People's Republic of China
| | - Caiyun Geng
- Institut für Chemie, Technische Universität Berlin, Straße des 17. Juni 115, 10623, Berlin, Germany
| | - Jilai Li
- Institute of Theoretical Chemistry, Jilin University, Changchun, 130023, People's Republic of China.,Institut für Chemie, Technische Universität Berlin, Straße des 17. Juni 115, 10623, Berlin, Germany
| | - Helmut Schwarz
- Institut für Chemie, Technische Universität Berlin, Straße des 17. Juni 115, 10623, Berlin, Germany
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9
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A thiocarbonate sink on the enzymatic energy landscape of aerobic CO oxidation? Answers from DFT and QM/MM models of Mo Cu CO-dehydrogenases. J Catal 2019. [DOI: 10.1016/j.jcat.2019.02.032] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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10
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Cao L, Ryde U. Extremely large differences in DFT energies for nitrogenase models. Phys Chem Chem Phys 2019; 21:2480-2488. [PMID: 30652711 DOI: 10.1039/c8cp06930a] [Citation(s) in RCA: 50] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Nitrogenase is the only enzyme that can cleave the triple bond in N2, making nitrogen avaiable for other organisms. It contains a complicated MoFe7S9C(homocitrate) cluster in its active site. Many computational studies with density-functional theory (DFT) of the nitrogenase enzyme have been presented, but they do not show any consensus - they do not even agree where the first four protons should be added, forming the central intermediate E4. We show that the prime reason for this is that different DFT methods give relative energies that differ by almost 600 kJ mol-1 for different protonation states. This is 4-30 times more than what is observed for other systems. The reason for this is that in some structures, the hydrogens bind to sulfide or carbide ions as protons, whereas in other structures they bind to the metals as hydride ions, changing the oxidation state of the metals, as well as the Fe-C, Fe-S and Fe-Fe distances. The energies correlate with the amount of Hartree-Fock exchange in the method, indicating a variation in the amount of static correlation in the structures. It is currently unclear which DFT method gives the best results for nitrogenase. We show that non-hybrid DFT functionals and TPSSh give the most accurate structures of the resting active site, whereas B3LYP and PBE0 give the best H2 dissociation energies. However, no DFT method indicates that a structure of E4 with two bridging hydride ions is lowest in energy, as spectroscopic experiments indicate.
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Affiliation(s)
- Lili Cao
- Department of Theoretical Chemistry, Lund University, P. O. Box 124, SE-221 00 Lund, Sweden.
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11
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Rovaletti A, Bruschi M, Moro G, Cosentino U, Greco C. The Challenging in silico Description of Carbon Monoxide Oxidation as Catalyzed by Molybdenum-Copper CO Dehydrogenase. Front Chem 2019; 6:630. [PMID: 30687693 PMCID: PMC6334162 DOI: 10.3389/fchem.2018.00630] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2018] [Accepted: 12/03/2018] [Indexed: 01/05/2023] Open
Abstract
Carbon monoxide (CO) is a highly toxic gas to many living organisms. However, some microorganisms are able to use this molecule as the sole source of carbon and energy. Soil bacteria such as the aerobic Oligotropha carboxidovorans are responsible for the annual removal of about 2x108 tons of CO from the atmosphere. Detoxification through oxidation of CO to CO2 is enabled by the MoCu-dependent CO-dehydrogenase enzyme (MoCu-CODH) which-differently from other enzyme classes with similar function-retains its catalytic activity in the presence of atmospheric O2. In the last few years, targeted advancements have been described in the field of bioengineering and biomimetics, which is functional for future technological exploitation of the catalytic properties of MoCu-CODH and for the reproduction of its reactivity in synthetic complexes. Notably, a growing interest for the quantum chemical investigation of this enzyme has recently also emerged. This mini-review compiles the current knowledge of the MoCu-CODH catalytic cycle, with a specific focus on the outcomes of theoretical studies on this enzyme class. Rather controversial aspects from different theoretical studies will be highlighted, thus illustrating the challenges posed by this system as far as the application of density functional theory and hybrid quantum-classical methods are concerned.
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Affiliation(s)
- Anna Rovaletti
- Dipartimento di Scienze dell'Ambiente e della Terra, Università Degli Studi di Milano-Bicocca, Milan, Italy
| | - Maurizio Bruschi
- Dipartimento di Scienze dell'Ambiente e della Terra, Università Degli Studi di Milano-Bicocca, Milan, Italy
| | - Giorgio Moro
- Dipartimento di Biotecnologie e Bioscienze, Università Degli Studi di Milano-Bicocca, Milan, Italy
| | - Ugo Cosentino
- Dipartimento di Scienze dell'Ambiente e della Terra, Università Degli Studi di Milano-Bicocca, Milan, Italy
| | - Claudio Greco
- Dipartimento di Scienze dell'Ambiente e della Terra, Università Degli Studi di Milano-Bicocca, Milan, Italy
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12
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Svezhentseva EV, Vorotnikov YA, Solovieva AO, Pozmogova TN, Eltsov IV, Ivanov AA, Evtushok DV, Miroshnichenko SM, Yanshole VV, Eling CJ, Adawi AM, Bouillard JG, Kuratieva NV, Fufaeva MS, Shestopalova LV, Mironov YV, Efremova OA, Shestopalov MA. From Photoinduced to Dark Cytotoxicity through an Octahedral Cluster Hydrolysis. Chemistry 2018; 24:17915-17920. [DOI: 10.1002/chem.201804663] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2018] [Indexed: 12/20/2022]
Affiliation(s)
- Ekaterina V. Svezhentseva
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
| | - Yuri A. Vorotnikov
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
| | - Anastasiya O. Solovieva
- Research Institute of Clinical and Experimental Lymphology—, Branch of the ICG SB RAS 2 Timakova st. 630060 Novosibirsk Russia
- The Federal Research Center of Fundamental and Translational Medicine 2 Timakova st. 630117 Novosibirsk Russia
| | - Tatiana N. Pozmogova
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
- Research Institute of Clinical and Experimental Lymphology—, Branch of the ICG SB RAS 2 Timakova st. 630060 Novosibirsk Russia
| | - Ilia V. Eltsov
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
| | - Anton A. Ivanov
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
- The Federal Research Center of Fundamental and Translational Medicine 2 Timakova st. 630117 Novosibirsk Russia
| | - Darya V. Evtushok
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
| | - Svetlana M. Miroshnichenko
- Research Institute of Clinical and Experimental Lymphology—, Branch of the ICG SB RAS 2 Timakova st. 630060 Novosibirsk Russia
- The Federal Research Center of Fundamental and Translational Medicine 2 Timakova st. 630117 Novosibirsk Russia
| | - Vadim V. Yanshole
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
- International Tomography Centre SB RAS 3a Institutskaya st. 630090 Novosibirsk Russia
| | - Charlotte J. Eling
- School of Mathematics and Physical SciencesG.W. Gray Centre for Advanced Materials University of Hull Cottingham Road HU6 7RX Hull UK
| | - Ali M. Adawi
- School of Mathematics and Physical SciencesG.W. Gray Centre for Advanced Materials University of Hull Cottingham Road HU6 7RX Hull UK
| | - Jean‐Sebastien G. Bouillard
- School of Mathematics and Physical SciencesG.W. Gray Centre for Advanced Materials University of Hull Cottingham Road HU6 7RX Hull UK
| | - Natalia V. Kuratieva
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
| | - Maria S. Fufaeva
- The Federal Research Center of Fundamental and Translational Medicine 2 Timakova st. 630117 Novosibirsk Russia
| | | | - Yuri V. Mironov
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
| | - Olga A. Efremova
- The Federal Research Center of Fundamental and Translational Medicine 2 Timakova st. 630117 Novosibirsk Russia
- School of Mathematics and Physical SciencesG.W. Gray Centre for Advanced Materials University of Hull Cottingham Road HU6 7RX Hull UK
| | - Michael A. Shestopalov
- Nikolaev Institute of Inorganic Chemistry SB RAS 3 acad. Lavrentiev ave. 630090 Novosibirsk Russia
- Novosibirsk State University 2 Pirogova st. 630090 Novosibirsk Russia
- Research Institute of Clinical and Experimental Lymphology—, Branch of the ICG SB RAS 2 Timakova st. 630060 Novosibirsk Russia
- The Federal Research Center of Fundamental and Translational Medicine 2 Timakova st. 630117 Novosibirsk Russia
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13
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Feldt M, Mata RA. Hybrid Local Molecular Orbital: Molecular Orbital Calculations for Open Shell Systems. J Chem Theory Comput 2018; 14:5192-5202. [DOI: 10.1021/acs.jctc.8b00727] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Milica Feldt
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstrasse 6, D-37077 Göttingen, Germany
| | - Ricardo A. Mata
- Institut für Physikalische Chemie, Universität Göttingen, Tammannstrasse 6, D-37077 Göttingen, Germany
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Castiñeira Reis M, Marín-Luna M, Silva López C, Faza ON. Mechanism of the Molybdenum-Mediated Cadogan Reaction. ACS OMEGA 2018; 3:7019-7026. [PMID: 31458865 PMCID: PMC6644586 DOI: 10.1021/acsomega.8b01278] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2018] [Accepted: 06/13/2018] [Indexed: 05/24/2023]
Abstract
Oxygen atom transfer reactions are receiving increasing attention because they bring about paramount transformations in the current biomass processing industry. Significant efforts have therefore been made lately in the development of efficient and scalable methods to deoxygenate organic compounds. One recent alternative involves the modification of the Cadogan reaction in which a Mo(VI) core catalyzes the reduction of o-nitrostyrene derivatives to indoles in the presence of PPh3. We have used density functional theory calculations to perform a comprehensive mechanistic study on this transformation, in which we find two clearly defined stages: an associative path from the nitro to the nitroso compound, characterized by the reduction of the catalyst in the first step, and a peculiar mechanism involving oxazaphosphiridine and nitrene intermediates leading to an indole product, where the metal catalyst does not participate.
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Affiliation(s)
- Marta Castiñeira Reis
- Departamento
de Química Orgánica, Universidade de Vigo, Campus Lagoas-Marcosende, 36310 Vigo, Spain
| | - Marta Marín-Luna
- Departamento
de Química Orgánica, Universidade de Vigo, Campus Lagoas-Marcosende, 36310 Vigo, Spain
| | - Carlos Silva López
- Departamento
de Química Orgánica, Universidade de Vigo, Campus Lagoas-Marcosende, 36310 Vigo, Spain
| | - Olalla Nieto Faza
- Departamento
de Química Orgánica, Universidade de Vigo, Campus As Lagoas, 32004 Orense, Spain
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Sun Y, Sun X, Huang X. Reaction of CO2 with Atomic Transition Metal M+/0/– Ions: A Theoretical Study. J Phys Chem A 2018; 122:5848-5860. [DOI: 10.1021/acs.jpca.8b01917] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Yunhai Sun
- Institute of Theoretical Chemistry, Jilin University, Changchun 130023, People’s Republic of China
| | - Xiaoli Sun
- Institute of Theoretical Chemistry, Jilin University, Changchun 130023, People’s Republic of China
| | - Xuri Huang
- Institute of Theoretical Chemistry, Jilin University, Changchun 130023, People’s Republic of China
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Castiñeira Reis M, Marín-Luna M, Silva López C, Faza ON. [MoO 2] 2+-Mediated Oxygen Atom Transfer via an Unusual Lewis Acid Mechanism. Inorg Chem 2017; 56:10570-10575. [PMID: 28829586 DOI: 10.1021/acs.inorgchem.7b01529] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Density functional theory is applied to the study of the oxygen atom transfer reaction from sulfoxide (DMSO) to phosphine (PMe3) catalyzed by the [MoO2]2+ active core. In this work, two fundamentally different roles are explored for this dioxometal complex in the first step of the catalytic cycle: as an oxidizing agent and as a Lewis acid. The latter turns out to be the favored pathway for the oxygen atom transfer. This finding may have more general implications for similar reactions catalyzed by the same [MoO2]2+ core.
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Affiliation(s)
- Marta Castiñeira Reis
- Departamento de Quı́mica Orgánica, Universidade de Vigo , Lagoas-Marcosende, 36310 Vigo, Spain
| | - Marta Marín-Luna
- Departamento de Quı́mica Orgánica, Universidade de Vigo , Lagoas-Marcosende, 36310 Vigo, Spain
| | - Carlos Silva López
- Departamento de Quı́mica Orgánica, Universidade de Vigo , Lagoas-Marcosende, 36310 Vigo, Spain
| | - Olalla Nieto Faza
- Departamento de Quı́mica Orgánica, Universidade de Vigo , Campus As Lagoas, 32004 Ourense, Spain
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Dong G, Ryde U. Effect of the protein ligand in DMSO reductase studied by computational methods. J Inorg Biochem 2017; 171:45-51. [DOI: 10.1016/j.jinorgbio.2017.03.004] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2016] [Revised: 02/07/2017] [Accepted: 03/19/2017] [Indexed: 11/27/2022]
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Wang Y, Sun X, Zhang J, Li J. A Theoretical Study on Methane C—H Bond Activation by Bare [FeO]+/0/–. J Phys Chem A 2017; 121:3501-3514. [DOI: 10.1021/acs.jpca.6b13113] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Yang Wang
- Institute of Theoretical
Chemistry, Jilin University, Changchun 130023, People’s Republic of China
| | - Xiaoli Sun
- Institute of Theoretical
Chemistry, Jilin University, Changchun 130023, People’s Republic of China
| | - Jun Zhang
- Department
of Chemistry, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Jilai Li
- Institute of Theoretical
Chemistry, Jilin University, Changchun 130023, People’s Republic of China
- Institut für Chemie, Technische Universität Berlin, Straße des 17. Juni 135, 10623 Berlin, Germany
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