1
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Li W, Filatov M, Zou W. Calculation of electric field gradients with the exact two-component (X2C) quasi-relativistic method and its local approximations. Phys Chem Chem Phys 2024; 26:18333-18342. [PMID: 38912554 DOI: 10.1039/d4cp01567c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/25/2024]
Abstract
When calculating electric field gradients (EFGs), relativistic and electron correlation effects are crucial for obtaining accurate results, and the commonly used density functional methods produce unsatisfactory results, especially for heavy elements and/or strongly correlated systems. In this work, a stand-alone program is presented, which enables calculation of EFGs from the molecular orbitals supplied by an external high accuracy quantum chemical calculation and includes relativistic effects through the exact two-component (X2C) formalism and efficient local approximations to it. Application to BiN and BiP molecules shows that a high precision can be achieved in the calculation of nuclear quadrupole coupling constants of 209Bi by combining advanced ab initio methods with the X2C approach. For seventeen iron compounds, the Mössbauer nuclear quadrupole splittings (NQS) of 57Fe calculated using a double-hybrid functional method are in very good agreement with the experimental values. It is shown that, for strongly correlated molecules, the double-hybrid functionals are much more accurate than the commonly used hybrid functionals. The computer program developed in this study furnishes a useful utility for obtaining EFGs and related nuclear properties with high accuracy.
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Affiliation(s)
- Wenxin Li
- Institute of Modern Physics, Northwest University, and Shaanxi Key Laboratory for Theoretical Physics Frontiers, Xi'an, Shaanxi 710127, P. R. China.
| | - Michael Filatov
- Center for Multidimensional Carbon Materials, Institute for Basic Science (IBS), Ulsan, 44919, Republic of Korea.
| | - Wenli Zou
- Institute of Modern Physics, Northwest University, and Shaanxi Key Laboratory for Theoretical Physics Frontiers, Xi'an, Shaanxi 710127, P. R. China.
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2
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Motta LC, Autschbach J. Theoretical Evaluation of Metal-Ligand Bonding in Neptunium Compounds in Relation to 237Np Mössbauer Spectroscopy. Inorg Chem 2022; 61:13399-13412. [PMID: 35960509 DOI: 10.1021/acs.inorgchem.2c01516] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The 237Np Mössbauer isomer shift and quadrupole splitting (QS) are powerful probes for the metal-ligand bonding of neptunium, a 5f-element of vital importance in the nuclear fuel cycle. A large set of Np compounds with different oxidation states (III) to (VII) is studied to investigate, by first-principles calculations, isomer shifts and the QS trends in relation to the Np oxidation state. Natural Bond Orbital analysis reveals that in addition to donation bonding to the 5f shell, participation of the 6d and 7s neptunium shells in covalent (donation) bonding substantially impacts the isomer shifts. The isomer shift cannot be interpreted solely by the 5f shell electron count. The isomer shift for Np(II) compounds is estimated to be in the range of 31-34 mm/s, less positive than for Np(III) compounds. For the QS, density functional calculations fail to reproduce the quadrupole splitting for some Np(VI) ionic solids. A multiconfigurational wave function approach reproduces the observed QS trends. The calculations give a semiquantitative interpretation of the trends for Np oxidation states (V) to (VII). The contrasting QS for standard and "reverse" neptunyl(VI), at the opposite extremes of the observed QS scale, arises predominantly from the different crystal environments.
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Affiliation(s)
- Laura C Motta
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, United States
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, United States
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3
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Wang C, Lai Z, Huang G, Pan H. Current State of [Fe]‐Hydrogenase and Its Biomimetic Models. Chemistry 2022; 28:e202201499. [DOI: 10.1002/chem.202201499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2022] [Indexed: 11/11/2022]
Affiliation(s)
- Chao Wang
- Chemistry and Biomedicine Innovation Center (ChemBIC) State Key Laboratory of Coordination Chemistry School of Chemistry and Chemical Engineering Nanjing University 163 Xianlin Avenue 210023 Nanjing P. R. China
| | - Zhenli Lai
- Key Laboratory of Development and Application of Rural Renewable Energy Biogas Institute of Ministry of Agriculture and Rural Affairs Section 4–13, Renmin South Road 610041 Chengdu P. R. China
| | - Gangfeng Huang
- Key Laboratory of Development and Application of Rural Renewable Energy Biogas Institute of Ministry of Agriculture and Rural Affairs Section 4–13, Renmin South Road 610041 Chengdu P. R. China
| | - Hui‐Jie Pan
- Chemistry and Biomedicine Innovation Center (ChemBIC) State Key Laboratory of Coordination Chemistry School of Chemistry and Chemical Engineering Nanjing University 163 Xianlin Avenue 210023 Nanjing P. R. China
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4
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Motta LC, Autschbach J. 237Np Mössbauer Isomer Shifts: A Lesson About the Balance of Static and Dynamic Electron Correlation in Heavy Element Complexes. J Chem Theory Comput 2022; 18:3483-3496. [PMID: 35594193 DOI: 10.1021/acs.jctc.2c00194] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A large set of neptunium compounds with different oxidation states (III to VII) was assembled to study the Mössbauer isomer shift by wave function calculations and better understand covalency in f-elements complexes. The contact density approach was used to calculate the isomer shift using complete active space self-consistent field (CASSCF) multiconfiguration wave functions, as well as matrix product states [from Density Matrix Renormalization Group (DMRG) algorithms] for large active spaces. Dynamic correlation effects for the isomer shifts were treated via CASPT2 energy derivatives with respect to the nuclear radius. The CASSCF calculations appear to produce different orbital overlocalization errors for low and high Np oxidation states. For compounds with low Np oxidation numbers, the errors can be attributed to the overlocalization of the 5f orbitals. For the compounds with high Np oxidation numbers, the main errors arise from an overlocalization of ligand orbitals and concomitant to weak donation bonding. Attempts to mitigate the overlocalization errors with large active spaces using DMRG were only partially successful, showing that explicit treatment of dynamic correlation is necessary for accurate predictions of Mössbauer isomer shifts. The CASPT2 calculations perform very satisfactorily. For a subset of Np compounds, both static and dynamic correlation effects were substantial. A rational active space selection based on orbital entanglement diagrams proved beneficial for determining the optimal reference wave function.
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Affiliation(s)
- Laura C Motta
- Department of Chemistry, University at Buffalo State University of New York, Buffalo, New York 14260-3000, United States
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo State University of New York, Buffalo, New York 14260-3000, United States
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5
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Motta LC, Autschbach J. Theoretical Prediction and Interpretation of 237Np Mössbauer Isomer Shifts. J Chem Theory Comput 2021; 17:6166-6179. [PMID: 34550695 DOI: 10.1021/acs.jctc.1c00687] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Different theoretical approaches for the calculation of 237Np Mössbauer isomer shifts are investigated. The traditional contact density route is compared to a previously proposed alternative approach that uses energy derivatives with respect to the nuclear radius. Both approaches yield similar results as long as suitable basis sets augmented with large exponents and relativistic methods are used. Density functional theory (DFT) calculations do not show a strong dependency of the 237Np isomer shift on the chosen functional. Wavefunction calculations show that dynamic electron correlation can be important when covalent bonding influences the isomer shift. Effects from spin-orbit coupling are small. The isomer shifts of ionic solids and Np(III) organometallic complexes are largely governed by the oxidation state of Np. Isomer shifts of organometallic Np(IV) complexes are strongly affected by donation bonding. Detailed analysis of the wavefunction results with different active spaces demonstrates that correlation among the outer core Np and occupied ligand frontier orbitals contributes significantly to isomer shifts of Np(IV) compounds.
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Affiliation(s)
- Laura C Motta
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, United States
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, United States
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6
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Orio M, Pantazis DA. Successes, challenges, and opportunities for quantum chemistry in understanding metalloenzymes for solar fuels research. Chem Commun (Camb) 2021; 57:3952-3974. [DOI: 10.1039/d1cc00705j] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Overview of the rich and diverse contributions of quantum chemistry to understanding the structure and function of the biological archetypes for solar fuel research, photosystem II and hydrogenases.
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Affiliation(s)
- Maylis Orio
- Aix-Marseille Université
- CNRS
- iSm2
- Marseille
- France
| | - Dimitrios A. Pantazis
- Max-Planck-Institut für Kohlenforschung
- Kaiser-Wilhelm-Platz 1
- 45470 Mülheim an der Ruhr
- Germany
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7
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Kerns SA, Rose MJ. Scaffold-Based Functional Models of [Fe]-Hydrogenase (Hmd): Building the Bridge between Biological Structure and Molecular Function. Acc Chem Res 2020; 53:1637-1647. [PMID: 32786339 DOI: 10.1021/acs.accounts.0c00315] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The well-known dinuclear [FeFe] and [NiFe] hydrogenase enzymes are redox-based proton reduction and H2 oxidation catalysts. In comparison, the structural and functional aspects of the mononuclear nonredox hydrogenase, known as [Fe]-hydrogenase or Hmd, have been less explored because of the relatively recent crystallographic elucidation of the enzyme active site. Additionally, the synthetic challenges posed by the highly substituted and asymmetric coordination environment of the iron guanylylpyridinol (FeGP) cofactor have hampered functional biomimetic modeling studies to a large extent. The active site contains an octahedral low-spin Fe(II) center with the following coordination motifs: a bidentate acyl-pyridone moiety (C,N) and cysteinyl-S in a facial arrangement; two cis carbonyl ligands; and a H2O/H2 binding site. In [Fe]-hydrogenase, heterolytic H2 activation putatively by the pendant pyridone/pyridonate-O base serving as a proton acceptor. Following H2 cleavage, an intermediate Fe-H species is thought to stereoselectively transfer a hydride to the substrate methenyl-H4MPT+, thus forming methylene-H4MPT. In the past decade, chemists, inspired by the elegant organometallic chemistry inherent to the FeGP cofactor, have synthesized a number of faithful structural models. However, functional systems are still relatively limited and often rely on abiological ligands or metal centers that obfuscate a direct correlation to nature's design.Our group has developed a bioinspired suite of synthetic analogues of Hmd to better understand the effects of structure on the stability and functionality of the Hmd active site, with a special emphasis on using a scaffold-based ligand design. This systematic approach has contributed to a deeper understanding of the unique ligand array of [Fe]-hydrogenase in nature and has ultimately resulted in the first functional synthetic models without the aid of abiological ligands. This Account reviews the reactivity of the functional anthracene-scaffolded synthetic models developed by our group in the context of current mechanistic understanding drawn from both protein crystallography and computational studies. Furthermore, we introduce a novel thermodynamic framework to place the reactivity of our model systems in context and provide an outlook on the future study of [Fe]-hydrogenase synthetic models through both a structural and functional lens.
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Affiliation(s)
- Spencer A. Kerns
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Michael J. Rose
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
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8
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Zhu H, Gao C, Filatov M, Zou W. Mössbauer isomer shifts and effective contact densities obtained by the exact two-component (X2C) relativistic method and its local variants. Phys Chem Chem Phys 2020; 22:26776-26786. [DOI: 10.1039/d0cp04549g] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
A standalone program to calculate scalar relativistic effective contact densities.
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Affiliation(s)
- Hong Zhu
- Institute of Modern Physics
- Northwest University, and Shaanxi Key Laboratory for Theoretical Physics Frontiers
- Xi'an
- P. R. China
| | - Chun Gao
- Institute of Modern Physics
- Northwest University, and Shaanxi Key Laboratory for Theoretical Physics Frontiers
- Xi'an
- P. R. China
| | - Michael Filatov
- Department of Chemistry
- Kyungpook National University
- Daegu 702-701
- South Korea
| | - Wenli Zou
- Institute of Modern Physics
- Northwest University, and Shaanxi Key Laboratory for Theoretical Physics Frontiers
- Xi'an
- P. R. China
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9
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Tang H, Hall MB. Biomimetics of [NiFe]-Hydrogenase: Nickel- or Iron-Centered Proton Reduction Catalysis? J Am Chem Soc 2017; 139:18065-18070. [DOI: 10.1021/jacs.7b10425] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Hao Tang
- Department of Chemistry, Texas A&M University, College Station, Texas 77845, United States
| | - Michael B. Hall
- Department of Chemistry, Texas A&M University, College Station, Texas 77845, United States
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10
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Rigid scaffolds for the design of molecular catalysts and biomimetic active sites: A case study of anthracene-based ligands for modeling mono-iron hydrogenase (Hmd). Coord Chem Rev 2017. [DOI: 10.1016/j.ccr.2017.09.022] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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11
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Seo J, Sotman TE, Sullivan ER, Ellis BD, Phung T, Rose MJ. Structural and electronic modifications of pyridones and pyrones via regioselective bromination and trifluoromethylation. Tetrahedron 2017. [DOI: 10.1016/j.tet.2017.05.082] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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12
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McWilliams SF, Brennan-Wydra E, MacLeod KC, Holland PL. Density Functional Calculations for Prediction of 57Fe Mössbauer Isomer Shifts and Quadrupole Splittings in β-Diketiminate Complexes. ACS OMEGA 2017; 2:2594-2606. [PMID: 28691111 PMCID: PMC5494642 DOI: 10.1021/acsomega.7b00595] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2017] [Accepted: 05/24/2017] [Indexed: 05/09/2023]
Abstract
The relative ease of Mössbauer spectroscopy and of density functional theory (DFT) calculations encourages the use of Mössbauer parameters as a validation method for calculations, and the use of calculations as a double check on crystallographic structures. A number of studies have proposed correlations between the computationally determined electron density at the iron nucleus and the observed isomer shift, but deviations from these correlations in low-valent iron β-diketiminate complexes encouraged us to determine a new correlation for these compounds. The use of B3LYP/def2-TZVP in the ORCA platform provides an excellent balance of accuracy and speed. We provide here not only this new correlation and a clear guide to its use but also a systematic analysis of the limitations of this approach. We also highlight the impact of crystallographic inaccuracies, DFT model truncation, and spin states, with intent to assist experimentalists to use Mössbauer spectroscopy and calculations together.
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Affiliation(s)
- Sean F McWilliams
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Emma Brennan-Wydra
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - K Cory MacLeod
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Patrick L Holland
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
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13
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Proppe J, Reiher M. Reliable Estimation of Prediction Uncertainty for Physicochemical Property Models. J Chem Theory Comput 2017; 13:3297-3317. [PMID: 28581746 DOI: 10.1021/acs.jctc.7b00235] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
One of the major challenges in computational science is to determine the uncertainty of a virtual measurement, that is the prediction of an observable based on calculations. As highly accurate first-principles calculations are in general unfeasible for most physical systems, one usually resorts to parameteric property models of observables, which require calibration by incorporating reference data. The resulting predictions and their uncertainties are sensitive to systematic errors such as inconsistent reference data, parametric model assumptions, or inadequate computational methods. Here, we discuss the calibration of property models in the light of bootstrapping, a sampling method that can be employed for identifying systematic errors and for reliable estimation of the prediction uncertainty. We apply bootstrapping to assess a linear property model linking the 57Fe Mössbauer isomer shift to the contact electron density at the iron nucleus for a diverse set of 44 molecular iron compounds. The contact electron density is calculated with 12 density functionals across Jacob's ladder (PWLDA, BP86, BLYP, PW91, PBE, M06-L, TPSS, B3LYP, B3PW91, PBE0, M06, TPSSh). We provide systematic-error diagnostics and reliable, locally resolved uncertainties for isomer-shift predictions. Pure and hybrid density functionals yield average prediction uncertainties of 0.06-0.08 mm s-1 and 0.04-0.05 mm s-1, respectively, the latter being close to the average experimental uncertainty of 0.02 mm s-1. Furthermore, we show that both model parameters and prediction uncertainty depend significantly on the composition and number of reference data points. Accordingly, we suggest that rankings of density functionals based on performance measures (e.g., the squared coefficient of correlation, r2, or the root-mean-square error, RMSE) should not be inferred from a single data set. This study presents the first statistically rigorous calibration analysis for theoretical Mössbauer spectroscopy, which is of general applicability for physicochemical property models and not restricted to isomer-shift predictions. We provide the statistically meaningful reference data set MIS39 and a new calibration of the isomer shift based on the PBE0 functional.
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Affiliation(s)
- Jonny Proppe
- Laboratorium für Physikalische Chemie, ETH Zürich , Vladimir-Prelog-Weg 2, 8093 Zürich, Switzerland
| | - Markus Reiher
- Laboratorium für Physikalische Chemie, ETH Zürich , Vladimir-Prelog-Weg 2, 8093 Zürich, Switzerland
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14
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Seo J, Manes TA, Rose MJ. Structural and functional synthetic model of mono-iron hydrogenase featuring an anthracene scaffold. Nat Chem 2017; 9:552-557. [DOI: 10.1038/nchem.2707] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2016] [Accepted: 11/25/2016] [Indexed: 12/15/2022]
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15
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Casassa S, Ferrari AM. Calibration of 57Fe Mössbauer constants by first principles. Phys Chem Chem Phys 2016; 18:10201-6. [DOI: 10.1039/c5cp07882b] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ab initio periodic esimate of Mössbauer isomer shift and quadrupolar moment for iron: hybrid functional approach in a GTO basis set.
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Affiliation(s)
- Silvia Casassa
- Dipartimento di Chimica and Centre of Excellence NIS (Nanostructured Interfaces and Surfaces)
- Università degli Studi di Torino
- I-10125 Torino
- Italy
| | - Anna Maria Ferrari
- Dipartimento di Chimica and Centre of Excellence NIS (Nanostructured Interfaces and Surfaces)
- Università degli Studi di Torino
- I-10125 Torino
- Italy
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16
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Ye K, Li YY, Liao RZ. DFT study of the mechanism of hydrogen evolution catalysed by molecular Ni, Co and Fe catalysts containing a diamine–tripyridine ligand. RSC Adv 2016. [DOI: 10.1039/c6ra20721a] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Electrolysis of water to obtain hydrogen is a practical way to transform surplus electrical power into clean and sustainable hydrogen fuels.
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Affiliation(s)
- Ke Ye
- Key Laboratory of Material Chemistry for Energy Conversion and Storage
- Ministry of Education
- Hubei Key Laboratory of Bioinorganic Chemistry and Materia Medica
- Hubei Key Laboratory of Materials Chemistry and Service Failure
- School of Chemistry and Chemical Engineering
| | - Ying-Ying Li
- Key Laboratory of Material Chemistry for Energy Conversion and Storage
- Ministry of Education
- Hubei Key Laboratory of Bioinorganic Chemistry and Materia Medica
- Hubei Key Laboratory of Materials Chemistry and Service Failure
- School of Chemistry and Chemical Engineering
| | - Rong-Zhen Liao
- Key Laboratory of Material Chemistry for Energy Conversion and Storage
- Ministry of Education
- Hubei Key Laboratory of Bioinorganic Chemistry and Materia Medica
- Hubei Key Laboratory of Materials Chemistry and Service Failure
- School of Chemistry and Chemical Engineering
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17
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Wittkamp F, Nagel C, Lauterjung P, Mallick B, Schatzschneider U, Apfel UP. Phosphine-ligated dinitrosyl iron complexes for redox-controlled NO release. Dalton Trans 2016; 45:10271-9. [DOI: 10.1039/c6dt01209d] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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18
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Hedegård ED, Kongsted J, Ryde U. Multiscale Modeling of the Active Site of [Fe] Hydrogenase: The H 2Binding Site in Open and Closed Protein Conformations. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201501737] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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19
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Hedegård ED, Kongsted J, Ryde U. Multiscale Modeling of the Active Site of [Fe] Hydrogenase: The H2Binding Site in Open and Closed Protein Conformations. Angew Chem Int Ed Engl 2015; 54:6246-50. [DOI: 10.1002/anie.201501737] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2015] [Indexed: 11/07/2022]
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20
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Murray KA, Wodrich MD, Hu X, Corminboeuf C. Toward functional type III [Fe]-hydrogenase biomimics for H2 activation: insights from computation. Chemistry 2015; 21:3987-96. [PMID: 25649221 DOI: 10.1002/chem.201405619] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2014] [Indexed: 11/06/2022]
Abstract
The chemistry of [Fe]-hydrogenase has attracted significant interest due to its ability to activate molecular hydrogen. The intriguing properties of this enzyme have prompted the synthesis of numerous small molecule mimics aimed at activating H2. Despite considerable effort, a majority of these compounds remain nonfunctional for hydrogenation reactions. By using a recently synthesized model as an entry point, seven biomimetic complexes have been examined through DFT computations to probe the influence of ligand environment on the ability of a mimic to bind and split H2. One mimic, featuring a bidentate diphosphine group incorporating an internal nitrogen base, was found to have particularly attractive energetics, prompting a study of the role played by the proton/hydride acceptor necessary to complete the catalytic cycle. Computations revealed an experimentally accessible energetic pathway involving a benzaldehyde proton/hydride acceptor and the most promising catalyst.
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Affiliation(s)
- Kevin A Murray
- Laboratory for Computational Molecular Design, Institut des Sciences et Ingénierie Chimiques, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne (Switzerland)
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21
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Kalz KF, Brinkmeier A, Dechert S, Mata RA, Meyer F. Functional Model for the [Fe] Hydrogenase Inspired by the Frustrated Lewis Pair Concept. J Am Chem Soc 2014; 136:16626-34. [DOI: 10.1021/ja509186d] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Affiliation(s)
- Kai F. Kalz
- Institute
of Inorganic Chemistry, Georg-August-University Göttingen, Tammannstrasse
4, D-37077 Göttingen, Germany
| | - Alexander Brinkmeier
- Institute
of Inorganic Chemistry, Georg-August-University Göttingen, Tammannstrasse
4, D-37077 Göttingen, Germany
| | - Sebastian Dechert
- Institute
of Inorganic Chemistry, Georg-August-University Göttingen, Tammannstrasse
4, D-37077 Göttingen, Germany
| | - Ricardo A. Mata
- Institute
of Physical Chemistry, Georg-August-University Göttingen, Tammannstrasse
6, D-37077 Göttingen, Germany
| | - Franc Meyer
- Institute
of Inorganic Chemistry, Georg-August-University Göttingen, Tammannstrasse
4, D-37077 Göttingen, Germany
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22
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Hedegård ED, Knecht S, Ryde U, Kongsted J, Saue T. Theoretical 57Fe Mössbauer spectroscopy: isomer shifts of [Fe]-hydrogenase intermediates. Phys Chem Chem Phys 2014; 16:4853-63. [DOI: 10.1039/c3cp54393e] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A computational protocol for 57Fe isomer shifts, based on the relativistic eXact 2-Component Hamiltonian (X2C), is applied to discriminate between proposed intermediates of [Fe]-hydrogenase. Detailed analysis reveals that the difference in isomer shifts between two intermediates is due to an overlap effect.
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Affiliation(s)
- Erik Donovan Hedegård
- Department of Physics
- Chemistry and Pharmacy
- University of Southern Denmark
- Odense 5420 M, Denmark
| | - Stefan Knecht
- Department of Physics
- Chemistry and Pharmacy
- University of Southern Denmark
- Odense 5420 M, Denmark
| | - Ulf Ryde
- Department of Theoretical Chemistry
- Lund University
- Chemical Centre
- S-221 00 Lund, Sweden
| | - Jacob Kongsted
- Department of Physics
- Chemistry and Pharmacy
- University of Southern Denmark
- Odense 5420 M, Denmark
| | - Trond Saue
- Laboratoire de Chimie et Physique Quantiques (UMR 5626)
- CNRS/Université Toulouse III – Paul Sabatier
- F-31062 Toulouse cedex, France
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23
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Finkelmann AR, Senn HM, Reiher M. Hydrogen-activation mechanism of [Fe] hydrogenase revealed by multi-scale modeling. Chem Sci 2014. [DOI: 10.1039/c4sc01605j] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Abstract
A complete atomistic model of [Fe] hydrogenase reveals important details of its mechanism.
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Affiliation(s)
| | - Hans Martin Senn
- WestCHEM and School of Chemistry
- University of Glasgow
- Glasgow G12 8QQ
- UK
| | - Markus Reiher
- Laboratory of Physical Chemistry
- ETH Zürich
- Zürich
- Switzerland
| |
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