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Chen Y, Huang Q, Liu TH, Yang R, Qian X. Modeling solvation dynamics of transition metal redox ion through on-the-fly multi-objective Bayesian-optimized force field. J Chem Phys 2024; 161:124111. [PMID: 39319647 DOI: 10.1063/5.0225520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2024] [Accepted: 09/10/2024] [Indexed: 09/26/2024] Open
Abstract
Modeling solvation dynamics and properties is crucial for developing electrolytes for electrochemical energy storage and conversion devices. This work reports an on-the-fly multi-objective Bayesian optimization (OTF-MOBO) method to parameterize force fields for modeling ionic solvation structures, thermodynamics, and transport properties using molecular dynamics simulations. By leveraging solvation-free energy and solvation radii as training data, we employ the data-driven OTF-MOBO algorithm to actively optimize the force field parameters. The modeling accuracy was evaluated in molecular dynamics simulations until the Pareto front in the parameter space was reached through minimized prediction errors in both solvation-free energy and solvation radii. Using transition metal redox ions (Fe3+/Fe2+, Cr3+/Cr2+, and Cu2+/Cu+) in aqueous solution as examples, we demonstrate that simple force fields combining the Lenard-Jones potential and Coulombic potential can achieve relative error below 2% in both solvation free energy and solvation radii. The optimized force fields can be further extrapolated to predict solvation entropy and diffusivities with relative error below 10% compared with experiments.
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Affiliation(s)
- Yuchi Chen
- School of Energy and Power Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
- State Key Laboratory of Coal Combustion, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Qiangqiang Huang
- School of Energy and Power Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Te-Huan Liu
- School of Energy and Power Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Ronggui Yang
- School of Energy and Power Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
- College of Engineering, Peking University, Beijing 100871, China
| | - Xin Qian
- School of Energy and Power Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
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Fujii S, Ohtani R, Kuwabara A. Theoretical investigation of tetrahedral distortion of four-coordinate iron(II) centres in FePd(CN) 4. Dalton Trans 2021; 50:1990-1994. [PMID: 33491690 DOI: 10.1039/d0dt04155f] [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 tetrahedral distortion of iron(ii) centres in the cyanide-bridged framework FePd(CN)4 was recently demonstrated experimentally. Here, we theoretically confirmed the electronically driven tetrahedral distortion of iron(ii) by comparing the density of states and total energies of FePd(CN)4 (d6) and ZnPd(CN)4 (d10). The calculation results suggested that a Jahn-Teller-like effect is caused on the tetrahedral geometry by the electronic effect of unequally occupied non-bonding 3d orbitals in the corresponding structure.
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Affiliation(s)
- Susumu Fujii
- Nanostructures Research Laboratory, Japan Fine Ceramics Center, 2-4-1 Mutsuno, Atsuta, Nagoya 456-8587, Japan.
| | - Ryo Ohtani
- Department of Chemistry, Faculty of Science, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan.
| | - Akihide Kuwabara
- Nanostructures Research Laboratory, Japan Fine Ceramics Center, 2-4-1 Mutsuno, Atsuta, Nagoya 456-8587, Japan.
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Saputri WD, Pranowo HD, Schuler MJ, Hofer TS. Cu 2+ in liquid ammonia-The impact of solvent flexibility and electron correlation in ab initio quantum mechanical charge field molecular dynamics. J Comput Chem 2020; 41:2168-2176. [PMID: 32735755 DOI: 10.1002/jcc.26379] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2020] [Accepted: 06/13/2020] [Indexed: 11/06/2022]
Abstract
The impact of solvent flexibility and electron correlation on the simulation results of Cu2+ in liquid ammonia has been investigated via an ab initio quantum mechanical charge field molecular dynamics (QMCF MD) simulation approach. To achieve this, three different simulation systems were considered in this study, namely Cu2+ in rigid and flexible ammonia at Hartree-Fock (HF) level of theory, as well as resolution of identity second order Møller-Plesset (MP2) perturbation theory in the rigid body case. In all cases, a stable octahedral [Cu(NH3 )6 ]2+ complex subject to dynamic Jahn-Teller distortions without the occurrence of ligand exchange was observed. The Cu2+ - NH3 distance in the first shell agrees well with the experimental and other theoretical data. In all three cases, the structural data shows that the rigid-body ammonia model in conjunction with the HF level of theory provides accurate data for the first solvation shell, while at the same time, the computational demand and thus the achievable simulation time are much more beneficial. The vibrational analysis of the Cu2+ - NH3 interaction yields similar force constants in the three investigated systems indicating that there is no distinct difference on the dynamical properties of the first solvation shell. In addition to the QMCF MD simulations, a number of natural bond orbital (NBO) analyses were carried out, confirming the strong electrostatic character of the Cu2+ - NH3 interaction.
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Affiliation(s)
- Wahyu Dita Saputri
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Universitas Gadjah Mada, Yogyakarta, Indonesia.,Austrian-Indonesian Centre for Computational Chemistry, Universitas Gadjah Mada, Yogyakarta, Indonesia
| | - Harno Dwi Pranowo
- Department of Chemistry, Faculty of Mathematics and Natural Sciences, Universitas Gadjah Mada, Yogyakarta, Indonesia.,Austrian-Indonesian Centre for Computational Chemistry, Universitas Gadjah Mada, Yogyakarta, Indonesia
| | - Manuel J Schuler
- Theoretical Chemistry Division, Institute of General, Inorganic and Theoretical Chemistry, University of Innsbruck, Innsbruck, Austria
| | - Thomas S Hofer
- Theoretical Chemistry Division, Institute of General, Inorganic and Theoretical Chemistry, University of Innsbruck, Innsbruck, Austria
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Dohn AO, Kjær KS, Harlang TB, Canton SE, Nielsen MM, Møller KB. Electron Transfer and Solvent-Mediated Electronic Localization in Molecular Photocatalysis. Inorg Chem 2016; 55:10637-10644. [DOI: 10.1021/acs.inorgchem.6b01840] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Asmus O. Dohn
- Department of Chemistry, Technical University of Denmark, Kemitorvet 206, 2800 Kgs Lyngby, Denmark
| | - Kasper S. Kjær
- Department of Physics, Technical University of Denmark, Building 307 2800 Kgs. Lyngby, Denmark
| | - Tobias B. Harlang
- Department of Physics, Technical University of Denmark, Building 307 2800 Kgs. Lyngby, Denmark
| | - Sophie E. Canton
- Center for
Ultrafast Imaging, University of Hamburg, 22761 Hamburg, Germany
| | - Martin M. Nielsen
- Department of Physics, Technical University of Denmark, Building 307 2800 Kgs. Lyngby, Denmark
| | - Klaus B. Møller
- Department of Chemistry, Technical University of Denmark, Kemitorvet 206, 2800 Kgs Lyngby, Denmark
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Li MR, Deng Z, Lapidus SH, Stephens PW, Segre CU, Croft M, Paria Sena R, Hadermann J, Walker D, Greenblatt M. Ba 3(Cr 0.97(1)Te 0.03(1)) 2TeO 9: in Search of Jahn-Teller Distorted Cr(II) Oxide. Inorg Chem 2016; 55:10135-10142. [PMID: 27680715 DOI: 10.1021/acs.inorgchem.6b01047] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A novel 6H-type hexagonal perovskite Ba3(Cr0.97(1)Te0.03(1))2TeO9 was prepared at high pressure (6 GPa) and temperature (1773 K). Both transmission electron microscopy and synchrotron powder X-ray diffraction data demonstrate that Ba3(Cr0.97(1)Te0.03(1))2TeO9 crystallizes in P63/mmc with face-shared (Cr0.97(1)Te0.03(1))O6 octahedral pairs interconnected with TeO6 octahedra via corner-sharing. Structure analysis shows a mixed Cr2+/Cr3+ valence state with ∼10% Cr2+. The existence of Cr2+ in Ba3(Cr2+0.10(1)Cr3+0.87(1)Te6+0.03)2TeO9 is further evidenced by X-ray absorption near-edge spectroscopy. Magnetic properties measurements show a paramagnetic response down to 4 K and a small glassy-state curvature at low temperature. In this work, the octahedral Cr2+O6 component is stabilized in an oxide material for the first time; the expected Jahn-Teller distortion of high-spin (d4) Cr2+ is not found, which is attributed to the small proportion of Cr2+ (∼10%) and the face-sharing arrangement of CrO6 octahedral pairs, which structurally disfavor axial distortion.
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Affiliation(s)
- Man-Rong Li
- Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey , 610 Taylor Road, Piscataway, New Jersey 08854, United States
| | - Zheng Deng
- Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey , 610 Taylor Road, Piscataway, New Jersey 08854, United States
| | - Saul H Lapidus
- Advanced Photon Source, Argonne National Laboratory , Lemont, Illinois 60439, United States
| | - Peter W Stephens
- Department of Physics & Astronomy, State University of New York , Stony Brook, New York 11794, United States
| | - Carlo U Segre
- Department of Physics & CSRRI, Illinois Institute of Technology , 3300 South Federal Street, Chicago, Illinois 60616, United States
| | - Mark Croft
- Department of Physics and Astronomy, Rutgers, The State University of New Jersey , 136 Frelinghusen Road, Piscataway, New Jersey 08854, United States
| | - Robert Paria Sena
- EMAT, University of Antwerp , Groenenborgerlaan 171, B-2020 Antwerp, Belgium
| | - Joke Hadermann
- EMAT, University of Antwerp , Groenenborgerlaan 171, B-2020 Antwerp, Belgium
| | - David Walker
- Lamont Doherty Earth Observatory, Columbia University , 61 Route 9W, PO Box 1000, Palisades, New York 10964, United States
| | - Martha Greenblatt
- Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey , 610 Taylor Road, Piscataway, New Jersey 08854, United States
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Affiliation(s)
- Inbal Tuvi-Arad
- Department of Natural Sciences; The Open University of Israel; 1 University Road Raanana 4353701 (Israel)
| | - András Stirling
- Institute of Organic Chemistry; Research Center for Natural Sciences; P.O.B. 286 Budapest 1519 (Hungary)
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Vchirawongkwin V, Tongraar A, Kritayakornupong C. Characterization of structure and dynamics of the solvated indium(III) ion by an extended QM/MM molecular dynamics simulation. COMPUT THEOR CHEM 2014. [DOI: 10.1016/j.comptc.2014.10.016] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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Vchirawongkwin V, Kritayakornupong C, Tongraar A, Rode BM. Characterization of structure and dynamics of an aqueous scandium(III) ion by an extended ab initio QM/MM molecular dynamics simulation. Dalton Trans 2012; 41:11889-97. [PMID: 22914797 DOI: 10.1039/c2dt31117h] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Hydration structure and dynamics of an aqueous Sc(III) solution were characterized by means of an extended ab initio quantum mechanical/molecular dynamical (QM/MM) molecular dynamics simulation at Hartree-Fock level. A monocapped trigonal prismatic structure composed of seven water molecules surrounding scandium(III) ion was proposed by the QM/MM simulation including the quantum mechanical effects for the first and second hydration shells. The mean Sc(III)-O bond length of 2.14 Å was identified for six prism water molecules with one capping water located at around 2.26 Å, reproducing well the X-ray diffraction data. The Sc(III)-O stretching frequency of 432 cm(-1) corresponding to a force constant of 130 N m(-1), evaluated from the enlarged QM/MM simulation, is in good agreement with the experimentally determined value of 430 cm(-1) (128 N m(-1)). Various water exchange processes in the second hydration shell of the hydrated Sc(III) ion predict a mean ligand residence time of 7.3 ps.
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Affiliation(s)
- Viwat Vchirawongkwin
- Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
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Kritayakornupong C, Hannongbua S. Temperature effects on the structure and dynamics of the Jahn-Teller distorted Cr(2+) ion in aqueous solution: a hybrid QM/MM molecular dynamics simulation. Dalton Trans 2010; 39:1176-8. [PMID: 20104337 DOI: 10.1039/b918817g] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The influences of an elevated temperature on the structure and dynamics of the Jahn-Teller distorted [Cr(H(2)O)(6)](2+) complex have been studied using an ab initio quantum mechanical/molecular mechanical (QM/MM) molecular dynamics simulation, showing that the increased temperature affects the lifetime distortions of the hydrated Cr(2+) ion by decreasing the inversion time to 0.5-2 ps.
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Affiliation(s)
- Chinapong Kritayakornupong
- Department of Chemistry, Faculty of Science, King Mongkut's University of Technology Thonburi, Bangkok, 10140, Thailand.
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Kritayakornupong C. Structural and dynamical properties of the V3+ion in dilute aqueous solution: Anab initioQM/MM molecular dynamics simulation. J Comput Chem 2009; 30:2777-83. [DOI: 10.1002/jcc.21278] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Smirnov PR, Trostin VN. Structural parameters of Cu2+ aqua complexes in aqueous solutions of its salts. RUSS J GEN CHEM+ 2009. [DOI: 10.1134/s1070363209080015] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Ishii T, Tsuboi S, Sakane G, Yamashita M, Breedlove BK. Universal spectrochemical series of six-coordinate octahedral metal complexes for modifying the ligand field splitting. Dalton Trans 2009:680-7. [PMID: 19378561 DOI: 10.1039/b810590a] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We studied a novel universal spectrochemical series of six-coordinated octahedral 3d transition metal complexes, which can be used for any combination of central metal atom and ligand molecules. A two dimensional spectrochemical series could be used to estimate the ligand field splitting energy of not only known compounds but also the unknown compounds. Therefore, it should be possible to control the physical properties, such as the electronic and magnetic properties and the optical phenomena of octahedral transition metal complexes by modifying the ligand field splitting.
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Affiliation(s)
- Tomohiko Ishii
- Department of Advanced Materials Science, Faculty of Engineering, Kagawa University, 2217-20, Hayashicho, Takamatsu, Kagawa 761-0396, Japan.
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Kritayakornupong C. The Jahn-Teller effect of the Ag2+ ion in aqueous solution: A hybrid ab initio quantum mechanical/molecular mechanical molecular dynamics simulation. Chem Phys Lett 2008. [DOI: 10.1016/j.cplett.2008.02.103] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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