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Conte R, Houston PL, Qu C, Li J, Bowman JM. Full-dimensional, ab initio potential energy surface for glycine with characterization of stationary points and zero-point energy calculations by means of diffusion Monte Carlo and semiclassical dynamics. J Chem Phys 2020; 153:244301. [DOI: 10.1063/5.0037175] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Affiliation(s)
- Riccardo Conte
- Dipartimento di Chimica, Università degli Studi di Milano, via Golgi 19, 20133 Milano, Italy
| | - Paul L. Houston
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, USA and Department of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, Georgia 30332, USA
| | - Chen Qu
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland 20742, USA
| | - Jeffrey Li
- Department of Chemistry and Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, USA
| | - Joel M. Bowman
- Department of Chemistry and Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, USA
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2
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Spezia R, Dammak H. On the Use of Quantum Thermal Bath in Unimolecular Fragmentation Simulation. J Phys Chem A 2019; 123:8542-8551. [DOI: 10.1021/acs.jpca.9b06795] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Riccardo Spezia
- Laboratoire de Chimie Théorique, Sorbonne Université and CNRS, F-75005 Paris, France
| | - Hichem Dammak
- Laboratoire Structures, Propriétés et Modélisation des Solides, CentraleSupélec, CNRS, Université Paris-Saclay, F-91190 Gif-sur-Yvette, France
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3
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Classical trajectory studies of collisional energy transfer. ACTA ACUST UNITED AC 2019. [DOI: 10.1016/b978-0-444-64207-3.00003-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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4
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Affiliation(s)
- Thanh Lam Nguyen
- Quantum Theory Project, Department of Chemistry and Physics, University of Florida, Gainesville, Florida 32611, United States
| | - John F. Stanton
- Quantum Theory Project, Department of Chemistry and Physics, University of Florida, Gainesville, Florida 32611, United States
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5
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Di Liberto G, Conte R, Ceotto M. "Divide and conquer" semiclassical molecular dynamics: A practical method for spectroscopic calculations of high dimensional molecular systems. J Chem Phys 2018; 148:014307. [PMID: 29306274 DOI: 10.1063/1.5010388] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023] Open
Abstract
We extensively describe our recently established "divide-and-conquer" semiclassical method [M. Ceotto, G. Di Liberto, and R. Conte, Phys. Rev. Lett. 119, 010401 (2017)] and propose a new implementation of it to increase the accuracy of results. The technique permits us to perform spectroscopic calculations of high-dimensional systems by dividing the full-dimensional problem into a set of smaller dimensional ones. The partition procedure, originally based on a dynamical analysis of the Hessian matrix, is here more rigorously achieved through a hierarchical subspace-separation criterion based on Liouville's theorem. Comparisons of calculated vibrational frequencies to exact quantum ones for a set of molecules including benzene show that the new implementation performs better than the original one and that, on average, the loss in accuracy with respect to full-dimensional semiclassical calculations is reduced to only 10 wavenumbers. Furthermore, by investigating the challenging Zundel cation, we also demonstrate that the "divide-and-conquer" approach allows us to deal with complex strongly anharmonic molecular systems. Overall the method very much helps the assignment and physical interpretation of experimental IR spectra by providing accurate vibrational fundamentals and overtones decomposed into reduced dimensionality spectra.
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Affiliation(s)
- Giovanni Di Liberto
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
| | - Riccardo Conte
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
| | - Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
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6
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Affiliation(s)
- Chen Qu
- Department of Chemistry, Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, USA
| | - Qi Yu
- Department of Chemistry, Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, USA
| | - Joel M. Bowman
- Department of Chemistry, Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, USA
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7
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Buchholz M, Grossmann F, Ceotto M. Simplified approach to the mixed time-averaging semiclassical initial value representation for the calculation of dense vibrational spectra. J Chem Phys 2018; 148:114107. [DOI: 10.1063/1.5020144] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Max Buchholz
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
| | - Frank Grossmann
- Institut für Theoretische Physik, Technische Universität Dresden, 01062 Dresden, Germany
| | - Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
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8
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Di Liberto G, Conte R, Ceotto M. “Divide-and-conquer” semiclassical molecular dynamics: An application to water clusters. J Chem Phys 2018; 148:104302. [DOI: 10.1063/1.5023155] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Giovanni Di Liberto
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
| | - Riccardo Conte
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
| | - Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
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9
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Bao JL, Truhlar DG. Effect of energy dependence of the density of states on pressure-dependent rate constants. Phys Chem Chem Phys 2018; 20:30475-30479. [DOI: 10.1039/c8cp05915b] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The rate of collisional energy transfer is slowed down by the increase in the density of states at higher energies.
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Affiliation(s)
- Junwei Lucas Bao
- Department of Chemistry
- Chemical Theory Center, and Supercomputing Institute
- University of Minnesota
- Minneapolis
- USA
| | - Donald G. Truhlar
- Department of Chemistry
- Chemical Theory Center, and Supercomputing Institute
- University of Minnesota
- Minneapolis
- USA
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10
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DeGregorio N, Iyengar SS. Efficient and Adaptive Methods for Computing Accurate Potential Surfaces for Quantum Nuclear Effects: Applications to Hydrogen-Transfer Reactions. J Chem Theory Comput 2017; 14:30-47. [DOI: 10.1021/acs.jctc.7b00927] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Nicole DeGregorio
- Department of Chemistry and
Department of Physics, Indiana University, 800 E. Kirkwood Avenue, Bloomington, Indiana 47405, United States
| | - Srinivasan S. Iyengar
- Department of Chemistry and
Department of Physics, Indiana University, 800 E. Kirkwood Avenue, Bloomington, Indiana 47405, United States
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11
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Ceotto M, Di Liberto G, Conte R. Semiclassical "Divide-and-Conquer" Method for Spectroscopic Calculations of High Dimensional Molecular Systems. PHYSICAL REVIEW LETTERS 2017; 119:010401. [PMID: 28731742 DOI: 10.1103/physrevlett.119.010401] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Indexed: 05/11/2023]
Abstract
A new semiclassical "divide-and-conquer" method is presented with the aim of demonstrating that quantum dynamics simulations of high dimensional molecular systems are doable. The method is first tested by calculating the quantum vibrational power spectra of water, methane, and benzene-three molecules of increasing dimensionality for which benchmark quantum results are available-and then applied to C_{60}, a system characterized by 174 vibrational degrees of freedom. Results show that the approach can accurately account for quantum anharmonicities, purely quantum features like overtones, and the removal of degeneracy when the molecular symmetry is broken.
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Affiliation(s)
- Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
| | - Giovanni Di Liberto
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
| | - Riccardo Conte
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
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12
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Aieta C, Ceotto M. A quantum method for thermal rate constant calculations from stationary phase approximation of the thermal flux-flux correlation function integral. J Chem Phys 2017; 146:214115. [DOI: 10.1063/1.4984099] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Chiara Aieta
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
| | - Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano, Via C. Golgi 19, 20133 Milano, Italy
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13
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Gabas F, Conte R, Ceotto M. On-the-Fly ab Initio Semiclassical Calculation of Glycine Vibrational Spectrum. J Chem Theory Comput 2017; 13:2378-2388. [PMID: 28489368 PMCID: PMC5472367 DOI: 10.1021/acs.jctc.6b01018] [Citation(s) in RCA: 49] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
We
present an on-the-fly ab initio semiclassical study of vibrational
energy levels of glycine, calculated by Fourier transform of the wavepacket
correlation function. It is based on a multiple coherent states approach
integrated with monodromy matrix regularization for chaotic dynamics.
All four lowest-energy glycine conformers are investigated by means
of single-trajectory semiclassical spectra obtained upon classical
evolution of on-the-fly trajectories with harmonic zero-point energy.
For the most stable conformer I, direct dynamics trajectories are
also run for each vibrational mode with energy equal to the first
harmonic excitation. An analysis of trajectories evolved up to 50 000
atomic time units demonstrates that, in this time span, conformers
II and III can be considered as isolated species, while conformers
I and IV show a pretty facile interconversion. Therefore, previous
perturbative studies based on the assumption of isolated conformers
are often reliable but might be not completely appropriate in the
case of conformer IV and conformer I for which interconversion occurs
promptly.
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Affiliation(s)
- Fabio Gabas
- Dipartimento di Chimica, Università degli Studi di Milano , via Golgi 19, 20133 Milano, Italy
| | - Riccardo Conte
- Dipartimento di Chimica, Università degli Studi di Milano , via Golgi 19, 20133 Milano, Italy
| | - Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano , via Golgi 19, 20133 Milano, Italy
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14
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Olasz B, Szabó I, Czakó G. High-level ab initio potential energy surface and dynamics of the F - + CH 3I S N2 and proton-transfer reactions. Chem Sci 2017; 8:3164-3170. [PMID: 28507692 PMCID: PMC5413972 DOI: 10.1039/c7sc00033b] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2017] [Accepted: 02/15/2017] [Indexed: 11/21/2022] Open
Abstract
Bimolecular nucleophilic substitution (SN2) and proton transfer are fundamental processes in chemistry and F- + CH3I is an important prototype of these reactions. Here we develop the first full-dimensional ab initio analytical potential energy surface (PES) for the F- + CH3I system using a permutationally invariant fit of high-level composite energies obtained with the combination of the explicitly-correlated CCSD(T)-F12b method, the aug-cc-pVTZ basis, core electron correlation effects, and a relativistic effective core potential for iodine. The PES accurately describes the SN2 channel producing I- + CH3F via Walden-inversion, front-side attack, and double-inversion pathways as well as the proton-transfer channel leading to HF + CH2I-. The relative energies of the stationary points on the PES agree well with the new explicitly-correlated all-electron CCSD(T)-F12b/QZ-quality benchmark values. Quasiclassical trajectory computations on the PES show that the proton transfer becomes significant at high collision energies and double-inversion as well as front-side attack trajectories can occur. The computed broad angular distributions and hot internal energy distributions indicate the dominance of indirect mechanisms at lower collision energies, which is confirmed by analyzing the integration time and leaving group velocity distributions. Comparison with available crossed-beam experiments shows usually good agreement.
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Affiliation(s)
- Balázs Olasz
- Department of Physical Chemistry and Materials Science , Institute of Chemistry , University of Szeged , Rerrich Béla tér 1 , Szeged H-6720 , Hungary .
| | - István Szabó
- Department of Physical Chemistry and Materials Science , Institute of Chemistry , University of Szeged , Rerrich Béla tér 1 , Szeged H-6720 , Hungary .
| | - Gábor Czakó
- Department of Physical Chemistry and Materials Science , Institute of Chemistry , University of Szeged , Rerrich Béla tér 1 , Szeged H-6720 , Hungary .
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15
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Sun J, Shao Y, Wu W, Tang Y, Zhang Y, Hu Y, Liu J, Yi H, Chen F, Cheng Y. A quantum chemical study on ˙Cl-initiated atmospheric degradation of acrylonitrile. RSC Adv 2017. [DOI: 10.1039/c7ra01521f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Degradation of acrylonitrile (CH2CHCN) by reaction with atomic chlorine was studied using quantum chemical methods.
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16
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Houston PL, Conte R, Bowman JM. Roaming Under the Microscope: Trajectory Study of Formaldehyde Dissociation. J Phys Chem A 2016; 120:5103-14. [DOI: 10.1021/acs.jpca.6b00488] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Paul L. Houston
- School
of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
- Department
of Chemistry and Chemical Biology, Cornell University, Baker Laboratory, Ithaca, New York 14852, United States
| | - Riccardo Conte
- Department
of Chemistry and Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, United States
- Dipartimento
di Chimica, Università degli Studi di Milano, 20133 Milano, Italy
| | - Joel M. Bowman
- Department
of Chemistry and Cherry L. Emerson Center for Scientific Computation, Emory University, Atlanta, Georgia 30322, United States
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17
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Paul AK, Hase WL. Zero-Point Energy Constraint for Unimolecular Dissociation Reactions. Giving Trajectories Multiple Chances To Dissociate Correctly. J Phys Chem A 2016; 120:372-8. [DOI: 10.1021/acs.jpca.5b11352] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Amit K. Paul
- Department
of Chemistry and
Biochemistry, Texas Tech University, Lubbock, Texas 79409, United States
| | - William L. Hase
- Department
of Chemistry and
Biochemistry, Texas Tech University, Lubbock, Texas 79409, United States
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