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Zhou B, Zhou Y, Xie D. Accelerated Quantum Mechanics/Molecular Mechanics Simulations via Neural Networks Incorporated with Mechanical Embedding Scheme. J Chem Theory Comput 2023; 19:1157-1169. [PMID: 36724190 DOI: 10.1021/acs.jctc.2c01131] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
A powerful tool to study the mechanism of reactions in solutions or enzymes is to perform the ab initio quantum mechanical/molecular mechanical (QM/MM) molecular dynamics (MD) simulations. However, the computational cost is too high due to the explicit electronic structure calculations at every time step of the simulation. A neural network (NN) method can accelerate the QM/MM-MD simulations, but it has long been a problem to accurately describe the QM/MM electrostatic coupling by NN in the electrostatic embedding (EE) scheme. In this work, we developed a new method to accelerate QM/MM calculations in the mechanic embedding (ME) scheme. The potentials and partial point charges of QM atoms are first learned in vacuo by the embedded atom neural networks (EANN) approach. MD simulations are then performed on this EANN/MM potential energy surface (PES) to obtain free energy (FE) profiles for reactions, in which the QM/MM electrostatic coupling is treated in the mechanic embedding (ME) scheme. Finally, a weighted thermodynamic perturbation (wTP) corrects the FE profiles in the ME scheme to the EE scheme. For two reactions in water and one in methanol, our simulations reproduced the B3LYP/MM free energy profiles within 0.5 kcal/mol with a speed-up of 30-60-fold. The results show that the strategy of combining EANN potential in the ME scheme with the wTP correction is efficient and reliable for chemical reaction simulations in liquid. Another advantage of our method is that the QM PES is independent of the MM subsystem, so it can be applied to various MM environments as demonstrated by an SN2 reaction studied in water and methanol individually, which used the same EANN PES. The free energy profiles are in excellent accordance with the results obtained from B3LYP/MM-MD simulations. In future, this method will be applied to the reactions of enzymes and their variants.
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Affiliation(s)
- Boyi Zhou
- Institute of Theoretical and Computational Chemistry, Key Laboratory of Mesoscopic Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Yanzi Zhou
- Institute of Theoretical and Computational Chemistry, Key Laboratory of Mesoscopic Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Daiqian Xie
- Institute of Theoretical and Computational Chemistry, Key Laboratory of Mesoscopic Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,Hefei National Laboratory, Hefei 230088, China
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2
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Magrino T, Huet L, Saitta AM, Pietrucci F. Critical Assessment of Data-Driven versus Heuristic Reaction Coordinates in Solution Chemistry. J Phys Chem A 2022; 126:8887-8900. [DOI: 10.1021/acs.jpca.2c07640] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Affiliation(s)
- Théo Magrino
- Institut de Minéralogie, de Physique des Matériaux et de Cosmochimie, Sorbonne Université, Muséum National d’Histoire Naturelle, CNRS UMR 7590, Paris 75005, France
| | - Léon Huet
- Institut de Minéralogie, de Physique des Matériaux et de Cosmochimie, Sorbonne Université, Muséum National d’Histoire Naturelle, CNRS UMR 7590, Paris 75005, France
| | - A. Marco Saitta
- Institut de Minéralogie, de Physique des Matériaux et de Cosmochimie, Sorbonne Université, Muséum National d’Histoire Naturelle, CNRS UMR 7590, Paris 75005, France
| | - Fabio Pietrucci
- Institut de Minéralogie, de Physique des Matériaux et de Cosmochimie, Sorbonne Université, Muséum National d’Histoire Naturelle, CNRS UMR 7590, Paris 75005, France
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Higashi M, Truhlar DG. Combined Electrostatically Embedded Multiconfiguration Molecular Mechanics and Molecular Mechanical Method: Application to Molecular Dynamics Simulation of a Chemical Reaction in Aqueous Solution with Hybrid Density Functional Theory. J Chem Theory Comput 2015; 4:1032-9. [PMID: 26636356 DOI: 10.1021/ct8000816] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
We here combine the electrostatically embedded multiconfiguration molecular mechanics (EE-MCMM) method for generating global potential energy surfaces in the presence of an electrostatic potential with molecular mechanics (MM). The resulting EE-MCMM/MM method is illustrated by applying it to carry out a molecular dynamics simulation for the symmetric bimolecular reaction Cl(-) + CH3Cl' → ClCH3 + Cl'(-) in aqueous solution with hybrid density functional theory as the quantum mechanical level. The potential of mean force is calculated, and the free energy barrier is found to be 25.3 kcal/mol, which is in good agreement with previous work. The advantage of the combined EE-MCMM and MM method is that the number of quantum mechanical calculations required for the active subsystem is very small compared to straight direct dynamics.
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Affiliation(s)
- Masahiro Higashi
- Department of Chemistry and Supercomputing Institute, 207 Pleasant Street SE, University of Minnesota, Minneapolis, Minnesota 55455-0431
| | - Donald G Truhlar
- Department of Chemistry and Supercomputing Institute, 207 Pleasant Street SE, University of Minnesota, Minneapolis, Minnesota 55455-0431
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Ghosh S, Hammes-Schiffer S. Calculation of Electrochemical Reorganization Energies for Redox Molecules at Self-Assembled Monolayer Modified Electrodes. J Phys Chem Lett 2015; 6:1-5. [PMID: 26263083 DOI: 10.1021/jz5023784] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Electrochemical electron transfer reactions play an important role in energy conversion processes with many technological applications. Electrodes modified by self-assembled monolayers (SAMs) exhibit reduced double layer effects and are used in molecular electronics. An important quantity for calculating the electron transfer rate constant is the reorganization energy, which is associated with changes in the solute geometry and the environment. In this Letter, an approach for calculating the electrochemical reorganization energy for a redox molecule attached to or near a SAM modified electrode is presented. This integral equations formalism polarizable continuum model (IEF-PCM) approach accounts for the detailed electronic structure of the molecule, as well as the contributions from the electrode, SAM, and electronic and inertial solvent responses. The calculated total reorganization energies are in good agreement with experimental data for a series of metal complexes in aqueous solution. This approach will be useful for calculating electron transfer rate constants for molecular electrocatalysts.
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Affiliation(s)
- Soumya Ghosh
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Sharon Hammes-Schiffer
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
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Abstract
The liquid interface is a narrow, highly anisotropic region, characterized by rapidly varying density, polarity, and molecular structure. I review several aspects of interfacial solvation and show how these affect reactivity at liquid/liquid interfaces. I specifically consider ion transfer, electron transfer, and SN2 reactions, showing that solvent effects on these reactions can be understood by examining the unique structure and dynamics of the liquid interface region.
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Affiliation(s)
- Ilan Benjamin
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95064;
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Ghosh S, Horvath S, Soudackov AV, Hammes-Schiffer S. Electrochemical Solvent Reorganization Energies in the Framework of the Polarizable Continuum Model. J Chem Theory Comput 2014; 10:2091-102. [DOI: 10.1021/ct500051e] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Soumya Ghosh
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Samantha Horvath
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Alexander V. Soudackov
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
| | - Sharon Hammes-Schiffer
- Department of Chemistry, University of Illinois at Urbana−Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, United States
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Gingell AD, Bell MT, Oldham JM, Softley TP, Harvey JN. Cold chemistry with electronically excited Ca+ Coulomb crystals. J Chem Phys 2011; 133:194302. [PMID: 21090857 DOI: 10.1063/1.3505142] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Rate constants for chemical reactions of laser-cooled Ca(+) ions and neutral polar molecules (CH(3)F, CH(2)F(2), or CH(3)Cl) have been measured at low collision energies (<E(coll)>/k(B)=5-243 K). Low kinetic energy ensembles of (40)Ca(+) ions are prepared through Doppler laser cooling to form "Coulomb crystals" in which the ions form a latticelike arrangement in the trapping potential. The trapped ions react with translationally cold beams of polar molecules produced by a quadrupole guide velocity selector or with room-temperature gas admitted into the vacuum chamber. Imaging of the Ca(+) ion fluorescence allows the progress of the reaction to be monitored. Product ions are sympathetically cooled into the crystal structure and are unambiguously identified through resonance-excitation mass spectrometry using just two trapped ions. Variations of the laser-cooling parameters are shown to result in different steady-state populations of the electronic states of (40)Ca(+) involved in the laser-cooling cycle, and these are modeled by solving the optical Bloch equations for the eight-level system. Systematic variation of the steady-state populations over a series of reaction experiments allows the extraction of bimolecular rate constants for reactions of the ground state ((2)S(1/2)) and the combined excited states ((2)D(3/2) and (2)P(1/2)) of (40)Ca(+). These results are analyzed in the context of capture theories and ab initio electronic structure calculations of the reaction profiles. In each case, suppression of the ground state rate constant is explained by the presence of a submerged or real barrier on the ground state potential surface. Rate constants for the excited states are generally found to be in line with capture theories.
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Affiliation(s)
- Alexander D Gingell
- Department of Chemistry, University of Oxford, Chemistry Research Laboratory, Oxford OX1 3TA, United Kingdom
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Nelson KV, Benjamin I. Microhydration effects on a model SN2 reaction in a nonpolar solvent. J Chem Phys 2009; 130:194502. [DOI: 10.1063/1.3138902] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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12
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Benjamin I. Empirical valence bond model of an SN2 reaction in polar and nonpolar solvents. J Chem Phys 2008; 129:074508. [DOI: 10.1063/1.2970083] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Higashi M, Truhlar DG. Electrostatically Embedded Multiconfiguration Molecular Mechanics Based on the Combined Density Functional and Molecular Mechanical Method. J Chem Theory Comput 2008; 4:790-803. [DOI: 10.1021/ct800004y] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Masahiro Higashi
- Department of Chemistry and Supercomputing Institute, 207 Pleasant Street SE, University of Minnesota, Minneapolis, Minnesota 55455-0431
| | - Donald G. Truhlar
- Department of Chemistry and Supercomputing Institute, 207 Pleasant Street SE, University of Minnesota, Minneapolis, Minnesota 55455-0431
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14
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Gao J. Methods and Applications of Combined Quantum Mechanical and Molecular Mechanical Potentials. REVIEWS IN COMPUTATIONAL CHEMISTRY 2007. [DOI: 10.1002/9780470125847.ch3] [Citation(s) in RCA: 115] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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15
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Manjari SR, Kim HJ. On the temperature and pressure dependences of cavities in the dielectric continuum picture. J Chem Phys 2005; 123:014504. [PMID: 16035852 DOI: 10.1063/1.1948375] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Cavity size at equilibrium and its variations with thermodynamic conditions are studied in the dielectric continuum framework of solvents. By employing Gibbs' theory of dividing surfaces, the fluctuating cavity description of Kim [H.J. Kim, J. Chem. Phys. 105, 6818 (1996)] is extended to include effects related to the local solvent density inhomogeneity near the cavity. The resulting theory is applied to study cavity size variations with temperature and pressure in dipolar and nondipolar solvents. Model calculations show that the cavity size tends to increase with temperature along an isobar and decrease with pressure along an isotherm.
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Affiliation(s)
- Swati R Manjari
- Department of Chemistry, Carnegie Mellon University, 4400 Fifth Avenue, Pittsburgh, Pennsylvania 15213-2683, USA
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Freedman H, Truong TN. A Coupled Reference Interaction Site Model/Molecular Dynamics Study of the Potential of Mean Force Curve of the SN2 Cl- + CH3Cl Reaction in Water. J Phys Chem B 2005; 109:4726-30. [PMID: 16851554 DOI: 10.1021/jp044944c] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
An application of the coupled reference interaction site model (RISM)/simulation methodology to the calculation of the potential of mean force (PMF) curve in aqueous solution for the identity nucleophilic substitution reaction Cl(-) + CH(3)Cl is performed. The free energy of activation is calculated to be 27.1 kcal/mol which compares very well with the experimentally determined barrier height of 26.6 kcal/mol. Furthermore, the calculated PMF is almost superimposed with that previously calculated using the computationally rigorous Monte Carlo with importance sampling method (Chandrasekhar, J.; Smith, S. F.; Jorgensen, W. L. J. Am. Chem. Soc. 1985, 107, 154). Using the calculated PMF, a crude estimate of the solvated kinetic transmission coefficient also compares well with that of previous more accurate simulations. These results indicate that the coupled RISM/simulation method provides a cost-effective methodology for studying reactions in solution.
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Affiliation(s)
- Holly Freedman
- Henry Eyring Center for Theoretical Chemistry, Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
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17
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Song L, Wu W, Zhang Q, Shaik S. VBPCM: A Valence Bond Method that Incorporates a Polarizable Continuum Model. J Phys Chem A 2004. [DOI: 10.1021/jp049467c] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Lingchun Song
- Department of Chemistry, Center for Theoretical Chemistry, and State Key Laboratory of Physical Chemistry of Solid Surfaces, Xiamen University, Xiamen, Fujian 361005, China, and Department of Organic Chemistry and the Lise Meitner-Minerva Center for Computational Quantum Chemistry, The Hebrew University, Jerusalem 91904, Israel
| | - Wei Wu
- Department of Chemistry, Center for Theoretical Chemistry, and State Key Laboratory of Physical Chemistry of Solid Surfaces, Xiamen University, Xiamen, Fujian 361005, China, and Department of Organic Chemistry and the Lise Meitner-Minerva Center for Computational Quantum Chemistry, The Hebrew University, Jerusalem 91904, Israel
| | - Qianer Zhang
- Department of Chemistry, Center for Theoretical Chemistry, and State Key Laboratory of Physical Chemistry of Solid Surfaces, Xiamen University, Xiamen, Fujian 361005, China, and Department of Organic Chemistry and the Lise Meitner-Minerva Center for Computational Quantum Chemistry, The Hebrew University, Jerusalem 91904, Israel
| | - Sason Shaik
- Department of Chemistry, Center for Theoretical Chemistry, and State Key Laboratory of Physical Chemistry of Solid Surfaces, Xiamen University, Xiamen, Fujian 361005, China, and Department of Organic Chemistry and the Lise Meitner-Minerva Center for Computational Quantum Chemistry, The Hebrew University, Jerusalem 91904, Israel
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18
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Lin H, Pu J, Albu TV, Truhlar DG. Efficient Molecular Mechanics for Chemical Reactions: Multiconfiguration Molecular Mechanics Using Partial Electronic Structure Hessians. J Phys Chem A 2004. [DOI: 10.1021/jp049972+] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Laage D, Burghardt I, Sommerfeld T, Hynes JT. On the Dissociation of Aromatic Radical Anions in Solution. 1. Formulation and Application to p-Cyanochlorobenzene Radical Anion. J Phys Chem A 2003. [DOI: 10.1021/jp035637u] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Damien Laage
- Département de Chimie, CNRS UMR 8640 PASTEUR, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Département de Chimie, CNRS UMR 8642, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 229, D-69120 Heidelberg, Germany, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
| | - Irene Burghardt
- Département de Chimie, CNRS UMR 8640 PASTEUR, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Département de Chimie, CNRS UMR 8642, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 229, D-69120 Heidelberg, Germany, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
| | - Thomas Sommerfeld
- Département de Chimie, CNRS UMR 8640 PASTEUR, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Département de Chimie, CNRS UMR 8642, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 229, D-69120 Heidelberg, Germany, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
| | - James T. Hynes
- Département de Chimie, CNRS UMR 8640 PASTEUR, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Département de Chimie, CNRS UMR 8642, Ecole Normale Supérieure, 24 rue Lhomond, 75231 Paris Cedex 05, France, Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 229, D-69120 Heidelberg, Germany, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215
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Guthrie JP. No-barrier theory: calculating rates of chemical reactions from equilibrium constants and distortion energies. Chemphyschem 2003; 4:809-16. [PMID: 12961977 DOI: 10.1002/cphc.200200327] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
No-barrier theory is a new approach to the calculation of rate constants for reactions in solution, from the corresponding equilibrium constants. It requires relatively small molecular orbital theory calculations, and has been very successful. It is in the spirit of Marcus theory, but does not require an "intrinsic barrier". The approach is explained, with an examination of the way in which the ideas on which it is based were "in the air".
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Affiliation(s)
- J Peter Guthrie
- Department of Chemistry, University of Western Ontario, London, Ont., N6A 5B7, Canada.
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21
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Akiya N, Savage PE. Roles of water for chemical reactions in high-temperature water. Chem Rev 2002; 102:2725-50. [PMID: 12175266 DOI: 10.1021/cr000668w] [Citation(s) in RCA: 705] [Impact Index Per Article: 32.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Naoko Akiya
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109-2136, USA
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22
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Kiefer PM, Hynes JT. Nonlinear Free Energy Relations for Adiabatic Proton Transfer Reactions in a Polar Environment. I. Fixed Proton Donor−Acceptor Separation. J Phys Chem A 2002. [DOI: 10.1021/jp0134244] [Citation(s) in RCA: 92] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Philip M. Kiefer
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215 and Département de Chimie, CNRS UMR 8640 PASTEUR, Ecole Normale Supérieure, 24, rue Lhomond, 75231 Paris, France
| | - James T. Hynes
- Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309-0215 and Département de Chimie, CNRS UMR 8640 PASTEUR, Ecole Normale Supérieure, 24, rue Lhomond, 75231 Paris, France
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Albu TV, Corchado JC, Truhlar DG. Molecular Mechanics for Chemical Reactions: A Standard Strategy for Using Multiconfiguration Molecular Mechanics for Variational Transition State Theory with Optimized Multidimensional Tunneling. J Phys Chem A 2001. [DOI: 10.1021/jp011951h] [Citation(s) in RCA: 83] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Titus V. Albu
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
| | - José C. Corchado
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
| | - Donald G. Truhlar
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
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Cramer CJ, Truhlar DG. Implicit Solvation Models: Equilibria, Structure, Spectra, and Dynamics. Chem Rev 1999; 99:2161-2200. [PMID: 11849023 DOI: 10.1021/cr960149m] [Citation(s) in RCA: 1715] [Impact Index Per Article: 68.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Christopher J. Cramer
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
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Ruiz-López MF, Oliva A, Tuñón I, Bertrán J. Self-Consistent Reaction Field Calculations of Nonequilibrium Solvent Effects on Proton Transfer Processes through Low-Barrier Hydrogen Bonds. J Phys Chem A 1998. [DOI: 10.1021/jp983288b] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- M. F. Ruiz-López
- Laboratoire de Chimie Théorique, UMR CNRS-UHP 7565, Université Henri Poincaré, Nancy I, BP 239, 54506 Vandoeuvre-lès-Nancy Cedex, France, Unitat de Química Física, Universitat Autónoma de Barcelona, 08193 Bellaterra (Barcelona), Spain, and Departamento de Química Física, Universidad de Valencia, 46100 Burjasot, Spain
| | - A. Oliva
- Laboratoire de Chimie Théorique, UMR CNRS-UHP 7565, Université Henri Poincaré, Nancy I, BP 239, 54506 Vandoeuvre-lès-Nancy Cedex, France, Unitat de Química Física, Universitat Autónoma de Barcelona, 08193 Bellaterra (Barcelona), Spain, and Departamento de Química Física, Universidad de Valencia, 46100 Burjasot, Spain
| | - I. Tuñón
- Laboratoire de Chimie Théorique, UMR CNRS-UHP 7565, Université Henri Poincaré, Nancy I, BP 239, 54506 Vandoeuvre-lès-Nancy Cedex, France, Unitat de Química Física, Universitat Autónoma de Barcelona, 08193 Bellaterra (Barcelona), Spain, and Departamento de Química Física, Universidad de Valencia, 46100 Burjasot, Spain
| | - J. Bertrán
- Laboratoire de Chimie Théorique, UMR CNRS-UHP 7565, Université Henri Poincaré, Nancy I, BP 239, 54506 Vandoeuvre-lès-Nancy Cedex, France, Unitat de Química Física, Universitat Autónoma de Barcelona, 08193 Bellaterra (Barcelona), Spain, and Departamento de Química Física, Universidad de Valencia, 46100 Burjasot, Spain
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Basilevsky M, Vener M. Collective medium coordinates and their application in the theory of chemical reactions. ACTA ACUST UNITED AC 1997. [DOI: 10.1016/s0166-1280(96)04973-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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27
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Truhlar DG, Garrett BC, Klippenstein SJ. Current Status of Transition-State Theory. ACTA ACUST UNITED AC 1996. [DOI: 10.1021/jp953748q] [Citation(s) in RCA: 1585] [Impact Index Per Article: 56.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Donald G. Truhlar
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
| | - Bruce C. Garrett
- Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, 902 Battelle Boulevard, MS K1-96, Richland, Washington 99352
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Ruiz‐López MF, Rinaldi D, Bertrán J. Nonequilibrium solvent effects on the SN2 reaction using a self‐consistent reaction field continuum model based on multipole expansions. J Chem Phys 1995. [DOI: 10.1063/1.469985] [Citation(s) in RCA: 23] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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29
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Bianco R, Hynes JT. VB resonance theory in solution. II. I2−■I+I− in acetonitrile. J Chem Phys 1995. [DOI: 10.1063/1.468988] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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31
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Staib A, Borgis D, Hynes JT. Proton transfer in hydrogen‐bonded acid–base complexes in polar solvents. J Chem Phys 1995. [DOI: 10.1063/1.468678] [Citation(s) in RCA: 185] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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