201
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Merritt ICD, Jacquemin D, Vacher M. Attochemistry: Is Controlling Electrons the Future of Photochemistry? J Phys Chem Lett 2021; 12:8404-8415. [PMID: 34436903 DOI: 10.1021/acs.jpclett.1c02016] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Controlling matter with light has always been a great challenge, leading to the ever-expanding field of photochemistry. In addition, since the first generation of light pulses of attosecond (1 as = 10-18 s) duration, a great deal of effort has been devoted to observing and controlling electrons on their intrinsic time scale. Because of their short duration, attosecond pulses have a large spectral bandwidth populating several electronically excited states in a coherent manner, i.e., an electronic wavepacket. Because of interference, such a wavepacket has a new electronic distribution implying a potentially different and totally new reactivity as compared to traditional photochemistry, leading to the novel concept of "attochemistry". This nascent field requires the support of theory right from the start. In this Perspective, we discuss the opportunities offered by attochemistry, the related challenges, and the current and future state-of-the-art developments in theoretical chemistry needed to model it accurately.
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Affiliation(s)
| | - Denis Jacquemin
- Université de Nantes, CNRS, CEISAM, UMR 6230, F-44000 Nantes, France
| | - Morgane Vacher
- Université de Nantes, CNRS, CEISAM, UMR 6230, F-44000 Nantes, France
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202
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Jones CM, List NH, Martínez TJ. Resolving the ultrafast dynamics of the anionic green fluorescent protein chromophore in water. Chem Sci 2021; 12:11347-11363. [PMID: 34667545 PMCID: PMC8447926 DOI: 10.1039/d1sc02508b] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2021] [Accepted: 07/13/2021] [Indexed: 11/21/2022] Open
Abstract
The chromophore of the green fluorescent protein (GFP) is critical for probing environmental influences on fluorescent protein behavior. Using the aqueous system as a bridge between the unconfined vacuum system and a constricting protein scaffold, we investigate the steric and electronic effects of the environment on the photodynamical behavior of the chromophore. Specifically, we apply ab initio multiple spawning to simulate five picoseconds of nonadiabatic dynamics after photoexcitation, resolving the excited-state pathways responsible for internal conversion in the aqueous chromophore. We identify an ultrafast pathway that proceeds through a short-lived (sub-picosecond) imidazolinone-twisted (I-twisted) species and a slower (several picoseconds) channel that proceeds through a long-lived phenolate-twisted (P-twisted) intermediate. The molecule navigates the non-equilibrium energy landscape via an aborted hula-twist-like motion toward the one-bond-flip dominated conical intersection seams, as opposed to following the pure one-bond-flip paths proposed by the excited-state equilibrium picture. We interpret our simulations in the context of time-resolved fluorescence experiments, which use short- and long-time components to describe the fluorescence decay of the aqueous GFP chromophore. Our results suggest that the longer time component is caused by an energetically uphill approach to the P-twisted intersection seam rather than an excited-state barrier to reach the twisted intramolecular charge-transfer species. Irrespective of the location of the nonadiabatic population events, the twisted intersection seams are inefficient at facilitating isomerization in aqueous solution. The disordered and homogeneous nature of the aqueous solvent environment facilitates non-selective stabilization with respect to I- and P-twisted species, offering an important foundation for understanding the consequences of selective stabilization in heterogeneous and rigid protein environments.
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Affiliation(s)
- Chey M Jones
- Department of Chemistry and the PULSE Institute, Stanford University Stanford CA 94305 USA
- SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Nanna H List
- Department of Chemistry and the PULSE Institute, Stanford University Stanford CA 94305 USA
- SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Todd J Martínez
- Department of Chemistry and the PULSE Institute, Stanford University Stanford CA 94305 USA
- SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
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203
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Weight BM, Mandal A, Huo P. Ab initio symmetric quasi-classical approach to investigate molecular Tully models. J Chem Phys 2021; 155:084106. [PMID: 34470343 DOI: 10.1063/5.0061934] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We perform on-the-fly non-adiabatic molecular dynamics simulations using the symmetrical quasi-classical (SQC) approach with the recently suggested molecular Tully models: ethylene and fulvene. We attempt to provide benchmarks of the SQC methods using both the square and triangle windowing schemes as well as the recently proposed electronic zero-point-energy correction scheme (the so-called γ correction). We use the quasi-diabatic propagation scheme to directly interface the diabatic SQC methods with adiabatic electronic structure calculations. Our results showcase the drastic improvement of the accuracy by using the trajectory-adjusted γ-corrections, which outperform the widely used trajectory surface hopping method with decoherence corrections. These calculations provide useful and non-trivial tests to systematically investigate the numerical performance of various diabatic quantum dynamics approaches, going beyond simple diabatic model systems that have been used as the major workhorse in the quantum dynamics field. At the same time, these available benchmark studies will also likely foster the development of new quantum dynamics approaches based on these techniques.
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Affiliation(s)
- Braden M Weight
- Department of Physics and Astronomy, University of Rochester, Rochester, New York 14627, USA
| | - Arkajit Mandal
- Department of Chemistry, University of Rochester, Rochester, New York 14627, USA
| | - Pengfei Huo
- Department of Chemistry, University of Rochester, Rochester, New York 14627, USA
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204
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Westermayr J, Marquetand P. Machine Learning for Electronically Excited States of Molecules. Chem Rev 2021; 121:9873-9926. [PMID: 33211478 PMCID: PMC8391943 DOI: 10.1021/acs.chemrev.0c00749] [Citation(s) in RCA: 162] [Impact Index Per Article: 54.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2020] [Indexed: 12/11/2022]
Abstract
Electronically excited states of molecules are at the heart of photochemistry, photophysics, as well as photobiology and also play a role in material science. Their theoretical description requires highly accurate quantum chemical calculations, which are computationally expensive. In this review, we focus on not only how machine learning is employed to speed up such excited-state simulations but also how this branch of artificial intelligence can be used to advance this exciting research field in all its aspects. Discussed applications of machine learning for excited states include excited-state dynamics simulations, static calculations of absorption spectra, as well as many others. In order to put these studies into context, we discuss the promises and pitfalls of the involved machine learning techniques. Since the latter are mostly based on quantum chemistry calculations, we also provide a short introduction into excited-state electronic structure methods and approaches for nonadiabatic dynamics simulations and describe tricks and problems when using them in machine learning for excited states of molecules.
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Affiliation(s)
- Julia Westermayr
- Institute
of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Strasse 17, 1090 Vienna, Austria
| | - Philipp Marquetand
- Institute
of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Strasse 17, 1090 Vienna, Austria
- Vienna
Research Platform on Accelerating Photoreaction Discovery, University of Vienna, Währinger Strasse 17, 1090 Vienna, Austria
- Data
Science @ Uni Vienna, University of Vienna, Währinger Strasse 29, 1090 Vienna, Austria
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205
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Keith JA, Vassilev-Galindo V, Cheng B, Chmiela S, Gastegger M, Müller KR, Tkatchenko A. Combining Machine Learning and Computational Chemistry for Predictive Insights Into Chemical Systems. Chem Rev 2021; 121:9816-9872. [PMID: 34232033 PMCID: PMC8391798 DOI: 10.1021/acs.chemrev.1c00107] [Citation(s) in RCA: 190] [Impact Index Per Article: 63.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Indexed: 12/23/2022]
Abstract
Machine learning models are poised to make a transformative impact on chemical sciences by dramatically accelerating computational algorithms and amplifying insights available from computational chemistry methods. However, achieving this requires a confluence and coaction of expertise in computer science and physical sciences. This Review is written for new and experienced researchers working at the intersection of both fields. We first provide concise tutorials of computational chemistry and machine learning methods, showing how insights involving both can be achieved. We follow with a critical review of noteworthy applications that demonstrate how computational chemistry and machine learning can be used together to provide insightful (and useful) predictions in molecular and materials modeling, retrosyntheses, catalysis, and drug design.
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Affiliation(s)
- John A. Keith
- Department
of Chemical and Petroleum Engineering Swanson School of Engineering, University of Pittsburgh, Pittsburgh, Pennsylvania 15261, United States
| | - Valentin Vassilev-Galindo
- Department
of Physics and Materials Science, University
of Luxembourg, L-1511 Luxembourg City, Luxembourg
| | - Bingqing Cheng
- Accelerate
Programme for Scientific Discovery, Department
of Computer Science and Technology, 15 J. J. Thomson Avenue, Cambridge CB3 0FD, United Kingdom
| | - Stefan Chmiela
- Department
of Software Engineering and Theoretical Computer Science, Technische Universität Berlin, 10587, Berlin, Germany
| | - Michael Gastegger
- Department
of Software Engineering and Theoretical Computer Science, Technische Universität Berlin, 10587, Berlin, Germany
| | - Klaus-Robert Müller
- Machine
Learning Group, Technische Universität
Berlin, 10587, Berlin, Germany
- Department
of Artificial Intelligence, Korea University, Anam-dong, Seongbuk-gu, Seoul, 02841, Korea
- Max-Planck-Institut für Informatik, 66123 Saarbrücken, Germany
- Google Research, Brain Team, 10117 Berlin, Germany
| | - Alexandre Tkatchenko
- Department
of Physics and Materials Science, University
of Luxembourg, L-1511 Luxembourg City, Luxembourg
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206
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Jankowska J, Sobolewski AL. Modern Theoretical Approaches to Modeling the Excited-State Intramolecular Proton Transfer: An Overview. Molecules 2021; 26:molecules26175140. [PMID: 34500574 PMCID: PMC8434569 DOI: 10.3390/molecules26175140] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Revised: 08/20/2021] [Accepted: 08/23/2021] [Indexed: 02/02/2023] Open
Abstract
The excited-state intramolecular proton transfer (ESIPT) phenomenon is nowadays widely acknowledged to play a crucial role in many photobiological and photochemical processes. It is an extremely fast transformation, often taking place at sub-100 fs timescales. While its experimental characterization can be highly challenging, a rich manifold of theoretical approaches at different levels is nowadays available to support and guide experimental investigations. In this perspective, we summarize the state-of-the-art quantum-chemical methods, as well as molecular- and quantum-dynamics tools successfully applied in ESIPT process studies, focusing on a critical comparison of their specific properties.
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Affiliation(s)
- Joanna Jankowska
- Faculty of Chemistry, University of Warsaw, 02-093 Warsaw, Poland
- Correspondence:
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207
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Abstract
Electronically excited states of molecules are at the heart of photochemistry, photophysics, as well as photobiology and also play a role in material science. Their theoretical description requires highly accurate quantum chemical calculations, which are computationally expensive. In this review, we focus on not only how machine learning is employed to speed up such excited-state simulations but also how this branch of artificial intelligence can be used to advance this exciting research field in all its aspects. Discussed applications of machine learning for excited states include excited-state dynamics simulations, static calculations of absorption spectra, as well as many others. In order to put these studies into context, we discuss the promises and pitfalls of the involved machine learning techniques. Since the latter are mostly based on quantum chemistry calculations, we also provide a short introduction into excited-state electronic structure methods and approaches for nonadiabatic dynamics simulations and describe tricks and problems when using them in machine learning for excited states of molecules.
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Affiliation(s)
- Julia Westermayr
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Strasse 17, 1090 Vienna, Austria
| | - Philipp Marquetand
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Strasse 17, 1090 Vienna, Austria
- Vienna Research Platform on Accelerating Photoreaction Discovery, University of Vienna, Währinger Strasse 17, 1090 Vienna, Austria
- Data Science @ Uni Vienna, University of Vienna, Währinger Strasse 29, 1090 Vienna, Austria
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208
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Hao D, Zhang Z, Ji Y. Responsive polymeric drug delivery systems for combination anticancer therapy: experimental design and computational insights. INT J POLYM MATER PO 2021. [DOI: 10.1080/00914037.2021.1960340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Dule Hao
- Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, China
| | - Zheng Zhang
- Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, China
| | - Yuanhui Ji
- Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, China
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209
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Matsika S. Electronic Structure Methods for the Description of Nonadiabatic Effects and Conical Intersections. Chem Rev 2021; 121:9407-9449. [PMID: 34156838 DOI: 10.1021/acs.chemrev.1c00074] [Citation(s) in RCA: 50] [Impact Index Per Article: 16.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Nonadiabatic effects are ubiquitous in photophysics and photochemistry, and therefore, many theoretical developments have been made to properly describe them. Conical intersections are central in nonadiabatic processes, as they promote efficient and ultrafast nonadiabatic transitions between electronic states. A proper theoretical description requires developments in electronic structure and specifically in methods that describe conical intersections between states and nonadiabatic coupling terms. This review focuses on the electronic structure aspects of nonadiabatic processes. We discuss the requirements of electronic structure methods to describe conical intersections and nonadiabatic couplings, how the most common excited state methods perform in describing these effects, and what the recent developments are in expanding the methodology and implementing nonadiabatic couplings.
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Affiliation(s)
- Spiridoula Matsika
- Department of Chemistry, Temple University, Philadelphia, Pennsylvania 19122, United States
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210
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Zhao B, Han S, Malbon CL, Manthe U, Yarkony DR, Guo H. Full-dimensional quantum stereodynamics of the non-adiabatic quenching of OH(A 2Σ +) by H 2. Nat Chem 2021; 13:909-915. [PMID: 34373597 PMCID: PMC8440216 DOI: 10.1038/s41557-021-00730-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Accepted: 05/11/2021] [Indexed: 11/16/2022]
Abstract
The Born–Oppenheimer approximation, assuming separable nuclear and electronic motion, is widely adopted for characterizing chemical reactions in a single electronic state. However, the breakdown of the Born–Oppenheimer approximation is omnipresent in chemistry, and a detailed understanding of the non-adiabatic dynamics is still incomplete. Here we investigate the non-adiabatic quenching of electronically excited OH(A2Σ+) molecules by H2 molecules using full-dimensional quantum dynamics calculations for zero total nuclear angular momentum using a high-quality diabatic-potential-energy matrix. Good agreement with experimental observations is found for the OH(X2Π) ro-vibrational distribution, and the non-adiabatic dynamics are shown to be controlled by stereodynamics, namely the relative orientation of the two reactants. The uncovering of a major (in)elastic channel, neglected in a previous analysis but confirmed by a recent experiment, resolves a long-standing experiment–theory disagreement concerning the branching ratio of the two electronic quenching channels. ![]()
The breakdown of the Born–Oppenheimer approximation is omnipresent in chemistry and detailed understanding of non-adiabatic dynamics is still incomplete. Now, the non-adiabatic quenching of electronically excited OH(A2Σ+) molecules by H2 has been investigated using full-dimensional quantum dynamics calculations and a high-quality diabatic-potential-energy matrix, providing insight into the branching ratio of the two electronic quenching channels.
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Affiliation(s)
- Bin Zhao
- Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, NM, USA. .,Theoretische Chemie, Fakultät für Chemie, Universität Bielefeld, Bielefeld, Germany.
| | - Shanyu Han
- Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, NM, USA
| | | | - Uwe Manthe
- Theoretische Chemie, Fakultät für Chemie, Universität Bielefeld, Bielefeld, Germany.
| | - David R Yarkony
- Department of Chemistry, Johns Hopkins University, Baltimore, MD, USA.
| | - Hua Guo
- Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, NM, USA.
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211
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Avagliano D, Bonfanti M, Garavelli M, González L. QM/MM Nonadiabatic Dynamics: the SHARC/COBRAMM Approach. J Chem Theory Comput 2021; 17:4639-4647. [PMID: 34114454 DOI: 10.1021/acs.jctc.1c00318] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We present the SHARC/COBRAMM approach to enable easy and efficient excited-state dynamics simulations at different levels of electronic structure theory in the presence of complex environments using a quantum mechanics/molecular mechanics (QM/MM) setup. SHARC is a trajectory surface-hoping method that can incorporate the simultaneous effects of nonadiabatic and spin-orbit couplings in the excited-state dynamics of molecular systems. COBRAMM allows ground- and excited-state QM/MM calculations using a subtractive scheme, with electrostatic embedding and a hydrogen link-atom approach. The combination of both free and open-source program packages provides a modular and extensive framework to model nonadiabatic processes after light irradiation from the atomistic scale to the nano-scale. As an example, the relaxation of acrolein from S1 to T1 in solution is provided.
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Affiliation(s)
- Davide Avagliano
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, A-1180 Vienna, Austria
| | - Matteo Bonfanti
- Dipartimento di Chimica Industriale "Toso Montanari", Università degli Studi di Bologna, Viale Del Risorgimento, 4, I-40136 Bologna, Italy
| | - Marco Garavelli
- Dipartimento di Chimica Industriale "Toso Montanari", Università degli Studi di Bologna, Viale Del Risorgimento, 4, I-40136 Bologna, Italy
| | - Leticia González
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, A-1180 Vienna, Austria.,Vienna Research Platform on Accelerating Photoreaction Discovery, University of Vienna, Währinger Straße 17, A-1180 Vienna, Austria
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212
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Hammes-Schiffer S. Nuclear-electronic orbital methods: Foundations and prospects. J Chem Phys 2021; 155:030901. [PMID: 34293877 DOI: 10.1063/5.0053576] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
Abstract
The incorporation of nuclear quantum effects and non-Born-Oppenheimer behavior into quantum chemistry calculations and molecular dynamics simulations is a longstanding challenge. The nuclear-electronic orbital (NEO) approach treats specified nuclei, typically protons, quantum mechanically on the same level as the electrons with wave function and density functional theory methods. This approach inherently includes nuclear delocalization and zero-point energy in molecular energy calculations, geometry optimizations, reaction paths, and dynamics. It can also provide accurate descriptions of excited electronic, vibrational, and vibronic states as well as nuclear tunneling and nonadiabatic dynamics. Nonequilibrium nuclear-electronic dynamics simulations beyond the Born-Oppenheimer approximation can be used to investigate a wide range of excited state processes. This Perspective provides an overview of the foundational NEO methods and enumerates the prospects for using these methods as building blocks for future developments. The conceptual simplicity and computational efficiency of the NEO approach will enhance its accessibility and applicability to diverse chemical and biological systems.
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213
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Karlsson D, van Leeuwen R, Pavlyukh Y, Perfetto E, Stefanucci G. Fast Green's Function Method for Ultrafast Electron-Boson Dynamics. PHYSICAL REVIEW LETTERS 2021; 127:036402. [PMID: 34328754 DOI: 10.1103/physrevlett.127.036402] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Revised: 03/29/2021] [Accepted: 05/20/2021] [Indexed: 06/13/2023]
Abstract
The interaction of electrons with quantized phonons and photons underlies the ultrafast dynamics of systems ranging from molecules to solids, and it gives rise to a plethora of physical phenomena experimentally accessible using time-resolved techniques. Green's function methods offer an invaluable interpretation tool since scattering mechanisms of growing complexity can be selectively incorporated in the theory. Currently, however, real-time Green's function simulations are either prohibitively expensive due to the cubic scaling with the propagation time or do neglect the feedback of electrons on the bosons, thus violating energy conservation. We put forward a computationally efficient Green's function scheme which overcomes both limitations. The numerical effort scales linearly with the propagation time while the simultaneous dressing of electrons and bosons guarantees the fulfillment of all fundamental conservation laws. We present a real-time study of the phonon-driven relaxation dynamics in an optically excited narrow band-gap insulator, highlighting the nonthermal behavior of the phononic degrees of freedom. Our formulation paves the way to first-principles simulations of electron-boson systems with unprecedented long propagation times.
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Affiliation(s)
- Daniel Karlsson
- Department of Physics, Nanoscience Center, University of Jyväskylä, P.O. Box 35, FI-40014 Jyväskylä, Finland
| | - Robert van Leeuwen
- Department of Physics, Nanoscience Center, University of Jyväskylä, P.O. Box 35, FI-40014 Jyväskylä, Finland
| | - Yaroslav Pavlyukh
- Institut für Physik, Martin-Luther-Universität Halle-Wittenberg, 06120 Halle, Germany
- Dipartimento di Fisica, Università di Roma Tor Vergata, Via della Ricerca Scientifica 1, 00133 Rome, Italy
| | - Enrico Perfetto
- Dipartimento di Fisica, Università di Roma Tor Vergata, Via della Ricerca Scientifica 1, 00133 Rome, Italy
- INFN, Sezione di Roma Tor Vergata, Via della Ricerca Scientifica 1, 00133 Rome, Italy
| | - Gianluca Stefanucci
- Dipartimento di Fisica, Università di Roma Tor Vergata, Via della Ricerca Scientifica 1, 00133 Rome, Italy
- INFN, Sezione di Roma Tor Vergata, Via della Ricerca Scientifica 1, 00133 Rome, Italy
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214
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Williams M, Forbes R, Weir H, Veyrinas K, MacDonell RJ, Boguslavskiy AE, Schuurman MS, Stolow A, Martinez TJ. Unmasking the cis-Stilbene Phantom State via Vacuum Ultraviolet Time-Resolved Photoelectron Spectroscopy and Ab Initio Multiple Spawning. J Phys Chem Lett 2021; 12:6363-6369. [PMID: 34231356 DOI: 10.1021/acs.jpclett.1c01227] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
We present the first vacuum ultraviolet time-resolved photoelectron spectroscopy (VUV-TRPES) study of photoisomerization dynamics in the paradigmatic molecule cis-stilbene. A key reaction intermediate in its dynamics, known as the phantom state, has often been invoked but never directly detected in the gas phase. We report direct spectral signatures of the phantom state in isolated cis-stilbene, observed and characterized through a combination of VUV-TRPES and ab initio multiple spawning (AIMS) nonadiabatic dynamics simulations of the channel-resolved observable. The high VUV probe photon energy tracks the complete excited-state dynamics via multiple photoionization channels, from initial excitation to its return to the "hot" ground state. The TRPES was compared with AIMS simulations of the dynamics from initial excitation, to the phantom-state intermediate (an S1 minimum), through to the ultimate electronic decay to the ground state. This combination revealed the unique spectral signatures and time-dependent dynamics of the phantom-state intermediate, permitting us to report here its direct observation.
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Affiliation(s)
- Monika Williams
- Department of Chemistry and The PULSE Institute, Stanford University, Stanford, California 94305, United States
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, United States
| | - Ruaridh Forbes
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, United States
- Department of Physics, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
| | - Hayley Weir
- Department of Chemistry and The PULSE Institute, Stanford University, Stanford, California 94305, United States
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, United States
| | - Kévin Veyrinas
- Department of Physics, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
| | - Ryan J MacDonell
- Department of Chemistry and Biomolecular Sciences, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
- National Research Council Canada, 100 Sussex Drive, Ottawa, ON K1A 0R6, Canada
| | - Andrey E Boguslavskiy
- Department of Physics, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
- Department of Chemistry and Biomolecular Sciences, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
- National Research Council Canada, 100 Sussex Drive, Ottawa, ON K1A 0R6, Canada
- Joint Centre for Extreme Photonics, NRC-University of Ottawa, Ottawa, ON K1A 0R6, Canada
| | - Michael S Schuurman
- Department of Chemistry and Biomolecular Sciences, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
- National Research Council Canada, 100 Sussex Drive, Ottawa, ON K1A 0R6, Canada
| | - Albert Stolow
- Department of Physics, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
- Department of Chemistry and Biomolecular Sciences, University of Ottawa, 150 Louis Pasteur, Ottawa, ON K1N 6N5, Canada
- National Research Council Canada, 100 Sussex Drive, Ottawa, ON K1A 0R6, Canada
- Joint Centre for Extreme Photonics, NRC-University of Ottawa, Ottawa, ON K1A 0R6, Canada
| | - Todd J Martinez
- Department of Chemistry and The PULSE Institute, Stanford University, Stanford, California 94305, United States
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, United States
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215
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Song C, Martínez TJ, Neaton JB. A diagrammatic approach for automatically deriving analytical gradients of tensor hyper-contracted electronic structure methods. J Chem Phys 2021; 155:024108. [PMID: 34266268 DOI: 10.1063/5.0055914] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We introduce a diagrammatic approach to facilitate the automatic derivation of analytical nuclear gradients for tensor hyper-contraction (THC) based electronic structure methods. The automatically derived gradients are guaranteed to have the same scaling in terms of both operation count and memory footprint as the underlying energy calculations, and the computation of a gradient is roughly three times as costly as the underlying energy. The new diagrammatic approach enables the first cubic scaling implementation of nuclear derivatives for THC tensors fitted in molecular orbital basis (MO-THC). Furthermore, application of this new approach to THC-MP2 analytical gradients leads to an implementation, which is at least four times faster than the previously reported, manually derived implementation. Finally, we apply the new approach to the 14 tensor contraction patterns appearing in the supporting subspace formulation of multireference perturbation theory, laying the foundation for developments of analytical nuclear gradients and nonadiabatic coupling vectors for multi-state CASPT2.
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Affiliation(s)
- Chenchen Song
- Department of Physics, University of California Berkeley, Berkeley, California 94720, USA
| | - Todd J Martínez
- Department of Chemistry and the PULSE Institute, Stanford University, Stanford, California 94305, USA
| | - Jeffrey B Neaton
- Department of Physics, University of California Berkeley, Berkeley, California 94720, USA
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216
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Vindel-Zandbergen P, Ibele LM, Ha JK, Min SK, Curchod BFE, Maitra NT. Study of the Decoherence Correction Derived from the Exact Factorization Approach for Nonadiabatic Dynamics. J Chem Theory Comput 2021; 17:3852-3862. [PMID: 34138553 PMCID: PMC8280698 DOI: 10.1021/acs.jctc.1c00346] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
![]()
We present a detailed
study of the decoherence correction to surface
hopping that was recently derived from the exact factorization approach.
Ab initio multiple spawning calculations that use the same initial
conditions and the same electronic structure method are used as a
reference for three molecules: ethylene, the methaniminium cation,
and fulvene, for which nonadiabatic dynamics follows a photoexcitation.
A comparison with the Granucci–Persico energy-based decoherence
correction and the augmented fewest-switches surface-hopping scheme
shows that the three decoherence-corrected methods operate on individual
trajectories in a qualitatively different way, but the results averaged
over trajectories are similar for these systems.
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Affiliation(s)
| | - Lea M Ibele
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, U.K
| | - Jong-Kwon Ha
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
| | - Seung Kyu Min
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
| | - Basile F E Curchod
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, U.K
| | - Neepa T Maitra
- Department of Physics, Rutgers University, Newark, New Jersey 07102, United States
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217
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Hao Y, Liu L, Fang WH. Photo-dissociation mechanism of trifluoroacetyl chloride in the gas phase: AIMS dynamic simulations. J Chem Phys 2021; 154:244303. [PMID: 34241342 DOI: 10.1063/5.0046451] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this article, the structures and energies of CF3COCl in the low-lying electronic states have been determined by SA-2-CAS(8,7)/6-31G* and SA-2-MSPT2(8,7)/6-31G* calculations, which include equilibrium geometries, transition states, and three minimum-energy conical intersections (CI-1, CI-2, and CI-3) between S0 and S1 states. The AIMS method was used to carry out non-adiabatic dynamic simulations with the ab initio calculation performed at the SA-2-CAS(8,7)/6-31G* level. Upon irradiation to the S1 state, CF3COCl first relaxes to S1 minimum and then overcomes the ∼10 kcal/mol (TSS1_CCl) or ∼30 kcal/mol (TSS1_CO) barrier to the conical intersection region CI-1 or CI-3 (minor), with the S1 → S0 transition probability of 63:1. After non-adiabatic transition to the S0 state through CI-1, trajectories mainly distribute to three different reaction pathways, with one going back to S0 minimum through shortening of the C-Cl bond, the other forming CF3CO and Cl radicals by continuous elongation of the C-Cl distance, and another dissociating into CF3 + CO + Cl and running into the CI-3 region through elongation of C-C and C-Cl distances. Moreover, we found that the trajectories would recross to the S1 state with the recrossing probability of 13.9% through the CI-3 region due to the extremely sloped topographic character of CI-3. On the basis of time evolution of wavefunctions simulated here, the product ratio of CF3 + CO + Cl and CF3CO + Cl is 53.5%:18.4%, which is consistent with the experimental value of 3:1. We further explain the photo-dissociation wavelength dependence of CF3COCl, and the product ratio of CF3 + CO + Cl increases with the increase in total energy.
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Affiliation(s)
- Yuxia Hao
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Lihong Liu
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Wei-Hai Fang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
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218
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Abstract
The ab initio determination of electronic excited state (ES) properties is the cornerstone of theoretical photochemistry. Yet, traditional ES methods become impractical when applied to fairly large molecules, or when used on thousands of systems. Machine learning (ML) techniques have demonstrated their accuracy at retrieving ES properties of large molecular databases at a reduced computational cost. For these applications, nonlinear algorithms tend to be specialized in targeting individual properties. Learning fundamental quantum objects potentially represents a more efficient, yet complex, alternative as a variety of molecular properties could be extracted through postprocessing. Herein, we report a general framework able to learn three fundamental objects: the hole and particle densities, as well as the transition density. We demonstrate the advantages of targeting those outputs and apply our predictions to obtain properties, including the state character and the exciton topological descriptors, for the two bands (nπ* and ππ*) of 3427 azoheteroarene photoswitches.
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Affiliation(s)
- Sergi Vela
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), Laboratory for Computational Molecular Design, Lausanne, CH-1015, Switzerland
| | - Alberto Fabrizio
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), Laboratory for Computational Molecular Design, Lausanne, CH-1015, Switzerland
| | - Ksenia R Briling
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), Laboratory for Computational Molecular Design, Lausanne, CH-1015, Switzerland
| | - Clémence Corminboeuf
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), Laboratory for Computational Molecular Design, Lausanne, CH-1015, Switzerland
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219
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Lee IS, Ha JK, Han D, Kim TI, Moon SW, Min SK. PyUNIxMD: A Python-based excited state molecular dynamics package. J Comput Chem 2021; 42:1755-1766. [PMID: 34197646 PMCID: PMC8362049 DOI: 10.1002/jcc.26711] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 06/10/2021] [Accepted: 06/16/2021] [Indexed: 01/17/2023]
Abstract
Theoretical/computational description of excited state molecular dynamics is nowadays a crucial tool for understanding light-matter interactions in many materials. Here we present an open-source Python-based nonadiabatic molecular dynamics program package, namely PyUNIxMD, to deal with mixed quantum-classical dynamics for correlated electron-nuclear propagation. The PyUNIxMD provides many interfaces for quantum chemical calculation methods with commercial and noncommercial ab initio and semiempirical quantum chemistry programs. In addition, the PyUNIxMD offers many nonadiabatic molecular dynamics algorithms such as fewest-switch surface hopping and its derivatives as well as decoherence-induced surface hopping based on the exact factorization (DISH-XF) and coupled-trajectory mixed quantum-classical dynamics (CTMQC) for general purposes. Detailed structures and flows of PyUNIxMD are explained for the further implementations by developers. We perform a nonadiabatic molecular dynamics simulation for a molecular motor system as a simple demonstration.
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Affiliation(s)
- In Seong Lee
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), Ulsan, South Korea
| | - Jong-Kwon Ha
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), Ulsan, South Korea
| | - Daeho Han
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), Ulsan, South Korea
| | - Tae In Kim
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), Ulsan, South Korea
| | - Sung Wook Moon
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), Ulsan, South Korea
| | - Seung Kyu Min
- Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST), Ulsan, South Korea
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220
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Shao C, Xu J, Wang L. Branching and phase corrected surface hopping: A benchmark of nonadiabatic dynamics in multilevel systems. J Chem Phys 2021; 154:234109. [PMID: 34241240 DOI: 10.1063/5.0056224] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Since the seminal work of Tully [J. Chem. Phys. 93, 1061 (1990)], two-level scattering models have been extensively adopted as the standard benchmark systems to assess the performance of different trajectory surface hopping methods for nonadiabatic dynamics simulations. Here, we extend the branching and phase corrections to multilevel systems and combine them with both the traditional fewest switches surface hopping (FSSH) and its variant global flux surface hopping (GFSH) algorithms. To get a comprehensive evaluation of the proposed methods, we construct a series of more challenging and diverse three-level and four-level scattering models and use exact quantum solutions as references. Encouragingly, both FSSH and GFSH with the branching and phase corrections produce excellent and nearly identical results in all investigated systems, indicating that the new surface hopping methods are robust to describe multilevel problems and the reliability is insensitive to the definition of self-consistent hopping probabilities in the adiabatic representation. Furthermore, the branching correction is found to be especially important when dealing with strongly repulsive potential energy surfaces, which are common in realistic systems, thus promising for general applications.
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Affiliation(s)
- Cancan Shao
- Key Laboratory of Excited-State Materials of Zhejiang Province, Department of Chemistry, Zhejiang University, Hangzhou 310027, China
| | - Jiabo Xu
- Key Laboratory of Excited-State Materials of Zhejiang Province, Department of Chemistry, Zhejiang University, Hangzhou 310027, China
| | - Linjun Wang
- Key Laboratory of Excited-State Materials of Zhejiang Province, Department of Chemistry, Zhejiang University, Hangzhou 310027, China
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221
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Craft CL, Lemler PM, Vaccaro PH. Optical Activity in Saturated Cyclic Amines: Untangling the Roles of Nitrogen-Inversion and Ring-Puckering Dynamics. J Phys Chem A 2021; 125:5562-5584. [PMID: 34142836 DOI: 10.1021/acs.jpca.1c03882] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The dispersive optical activity of two saturated cyclic amines, (R)-2-methylpyrrolidine (R-2MPY) and (S)-2-methylpiperidine (S-2MPI), has been interrogated under isolated and solvated conditions to elucidate the roles of large-amplitude motion associated with nitrogen-center inversion and ring-puckering dynamics. Experimental optical rotatory dispersion profiles were almost mirror images of one another and displayed parallel solvent dependencies. Quantum-chemical analyses built on density-functional and coupled-cluster methods revealed four low-lying conformers for each molecule, which are distinguished by axial/equatorial orientations of their amino hydrogens and methyl substituents. Chiroptical signatures predicted for these species were combined through an independent-conformer ansatz to simulate the ensemble-averaged response, with a polarizable continuum model (PCM) being used to treat implicit solute-solvent interactions. The intrinsic behavior observed for isolated (gaseous) R-2MPY and S-2MPI was reproduced best by merging coupled-cluster (CCSD) estimates of rotatory powers with thermal population fractions deduced from complete basis set (CBS-APNO) free-energy calculations. Although prior claims of sizable chiroptical contributions arising from helically twisted (chiral) heterocyclic frameworks could be discounted, less satisfactory agreement between experiment and theory was realized for solution phases. Response properties sustained modest isomer-dependent changes in the presence of PCM solvation, but the corresponding energy metrics showed systematic trends, whereby structures having larger electric-dipole moments were stabilized preferentially in media of high polarity. Despite the fact that R-2MPY conformations were predicted to undergo a progressive reordering of their relative energies across the six solvents of interest, S-2MPI was found to exhibit more pronounced solvent-induced perturbations at long wavelengths (viz., in regions far removed from electronic resonances). Experimental results are discussed in terms of the distinct ring-puckering mechanisms for R-2MPY and S-2MPI, which are expected to be dominated by hindered pseudorotation among envelope/twist motifs and semi-inversion between chairlike antipodes, respectively.
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Affiliation(s)
- Clayton L Craft
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Paul M Lemler
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Patrick H Vaccaro
- Department of Chemistry, Yale University, P.O. Box 208107, New Haven, Connecticut 06520-8107, United States
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222
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Lassmann Y, Curchod BFE. AIMSWISS-Ab initio multiple spawning with informed stochastic selections. J Chem Phys 2021; 154:211106. [PMID: 34240975 DOI: 10.1063/5.0052118] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023] Open
Abstract
Ab initio multiple spawning (AIMS) offers a reliable strategy to describe the excited-state dynamics and nonadiabatic processes of molecular systems. AIMS represents nuclear wavefunctions as linear combinations of traveling, coupled Gaussians called trajectory basis functions (TBFs) and uses a spawning algorithm to increase as needed the size of this basis set during nonadiabatic transitions. While the success of AIMS resides in this spawning algorithm, the dramatic increase in TBFs generated by multiple crossings between electronic states can rapidly lead to intractable dynamics. In this Communication, we introduce a new flavor of AIMS, coined ab initio multiple spawning with informed stochastic selections (AIMSWISS), which proposes a parameter-free strategy to beat the growing number of TBFs in an AIMS dynamics while preserving its accurate description of nonadiabatic transitions. The performance of AIMSWISS is validated against the photodynamics of ethylene, cyclopropanone, and fulvene. This technique, built upon the recently developed stochastic-selection AIMS, is intended to serve as a computationally affordable starting point for multiple spawning simulations.
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Affiliation(s)
- Yorick Lassmann
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, United Kingdom
| | - Basile F E Curchod
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, United Kingdom
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223
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Wang Y, Ren J, Shuai Z. Evaluating the anharmonicity contributions to the molecular excited state internal conversion rates with finite temperature TD-DMRG. J Chem Phys 2021; 154:214109. [PMID: 34240969 DOI: 10.1063/5.0052804] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this work, we propose a new method to calculate molecular nonradiative electronic relaxation rates based on the numerically exact time-dependent density matrix renormalization group theory. This method could go beyond the existing frameworks under the harmonic approximation (HA) of the potential energy surface (PES) so that the anharmonic effect could be considered, which is of vital importance when the electronic energy gap is much larger than the vibrational frequency. We calculate the internal conversion (IC) rates in a two-mode model with Morse potential to investigate the validity of HA. We find that HA is unsatisfactory unless only the lowest several vibrational states of the lower electronic state are involved in the transition process when the adiabatic excitation energy is relatively low. As the excitation energy increases, HA first underestimates and then overestimates the IC rates when the excited state PES shifts toward the dissociative side of the ground state PES. On the contrary, HA slightly overestimates the IC rates when the excited state PES shifts toward the repulsive side. In both cases, a higher temperature enlarges the error of HA. As a real example to demonstrate the effectiveness and scalability of the method, we calculate the IC rates of azulene from S1 to S0 on the ab initio anharmonic PES approximated by the one-mode representation. The calculated IC rates of azulene under HA are consistent with the analytically exact results. The rates on the anharmonic PES are 30%-40% higher than the rates under HA.
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Affiliation(s)
- Yuanheng Wang
- MOE Key Laboratory of Organic OptoElectronics and Molecular Engineering, Department of Chemistry, Tsinghua University, Beijing 100084, People's Republic of China
| | - Jiajun Ren
- MOE Key Laboratory of Organic OptoElectronics and Molecular Engineering, Department of Chemistry, Tsinghua University, Beijing 100084, People's Republic of China
| | - Zhigang Shuai
- MOE Key Laboratory of Organic OptoElectronics and Molecular Engineering, Department of Chemistry, Tsinghua University, Beijing 100084, People's Republic of China
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224
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Janesko BG. Replacing hybrid density functional theory: motivation and recent advances. Chem Soc Rev 2021; 50:8470-8495. [PMID: 34060549 DOI: 10.1039/d0cs01074j] [Citation(s) in RCA: 55] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Density functional theory (DFT) is the most widely-used electronic structure approximation across chemistry, physics, and materials science. Every year, thousands of papers report hybrid DFT simulations of chemical structures, mechanisms, and spectra. Unfortunately, hybrid DFT's accuracy is ultimately limited by tradeoffs between over-delocalization and under-binding. This review summarizes these tradeoffs, and introduces six modern attempts to go beyond them while maintaining hybrid DFT's relatively low computational cost: DFT+U, self-interaction corrections, localized orbital scaling corrections, local hybrid functionals, real-space nondynamical correlation, and our rung-3.5 approach. The review concludes with practical suggestions for DFT users to identify and mitigate these tradeoffs' impact on their simulations.
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Affiliation(s)
- Benjamin G Janesko
- Department of Chemistry & Biochemistry, Texas Christian University, 2800 S. University Dr, Fort Worth, TX 76129, USA.
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225
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Hu D, Xie Y, Peng J, Lan Z. On-the-Fly Symmetrical Quasi-Classical Dynamics with Meyer-Miller Mapping Hamiltonian for the Treatment of Nonadiabatic Dynamics at Conical Intersections. J Chem Theory Comput 2021; 17:3267-3279. [PMID: 34028268 DOI: 10.1021/acs.jctc.0c01249] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The on-the-fly version of the symmetrical quasi-classical dynamics method based on the Meyer-Miller mapping Hamiltonian (SQC/MM) is implemented to study the nonadiabatic dynamics at conical intersections of polyatomic systems. The current on-the-fly implementation of the SQC/MM method is based on the adiabatic representation and the dressed momentum. To include the zero-point energy (ZPE) correction of the electronic mapping variables, we employ both the γ-adjusted and γ-fixed approaches. Nonadiabatic dynamics of the methaniminium cation (CH2NH2+) and azomethane are simulated using the on-the-fly SQC/MM method. For CH2NH2+, both ZPE correction approaches give reasonable and consistent results. However, for azomethane, the γ-adjusted version of the SQC/MM dynamics behaves much better than the γ-fixed version. Further analysis indicates that it is always recommended to use the γ-adjusted SQC/MM dynamics in the on-the-fly simulation of photoinduced dynamics of polyatomic systems, particularly when the excited state is well separated from the ground state in the Franck-Condon region. This work indicates that the on-the-fly SQC/MM method is a powerful simulation protocol to deal with the nonadiabatic dynamics of realistic polyatomic systems.
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Affiliation(s)
- Deping Hu
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Environmental Theoretical Chemistry, South China Normal University, Guangzhou 510006, China.,School of Environment, South China Normal University, Guangzhou 510006, China
| | - Yu Xie
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Environmental Theoretical Chemistry, South China Normal University, Guangzhou 510006, China.,School of Environment, South China Normal University, Guangzhou 510006, China
| | - Jiawei Peng
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Environmental Theoretical Chemistry, South China Normal University, Guangzhou 510006, China.,School of Environment, South China Normal University, Guangzhou 510006, China
| | - Zhenggang Lan
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Environmental Theoretical Chemistry, South China Normal University, Guangzhou 510006, China.,School of Environment, South China Normal University, Guangzhou 510006, China
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226
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Abstract
Theoretical simulations of electronic excitations and associated processes in molecules are indispensable for fundamental research and technological innovations. However, such simulations are notoriously challenging to perform with quantum mechanical methods. Advances in machine learning open many new avenues for assisting molecular excited-state simulations. In this Review, we track such progress, assess the current state of the art and highlight the critical issues to solve in the future. We overview a broad range of machine learning applications in excited-state research, which include the prediction of molecular properties, improvements of quantum mechanical methods for the calculations of excited-state properties and the search for new materials. Machine learning approaches can help us understand hidden factors that influence photo-processes, leading to a better control of such processes and new rules for the design of materials for optoelectronic applications.
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227
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Liang R. First-Principles Nonadiabatic Dynamics Simulation of Azobenzene Photodynamics in Solutions. J Chem Theory Comput 2021; 17:3019-3030. [PMID: 33882676 DOI: 10.1021/acs.jctc.1c00105] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The photoisomerization of azobenzene is a prototypical reaction of various light-activated processes in material and biomedical sciences. However, its reaction mechanism has been under debate for decades, partly due to the challenges in computational simulations to accurately describe the molecule's photodynamics. A recent study (J. Am. Chem. Soc. 2020, 142 (49), 20,680-20,690) addressed the challenges by combining the hole-hole Tamm-Dancoff Approximated (hh-TDA) density functional theory (DFT) method with the ab initio multiple spawning (AIMS) algorithm. The hh-TDA-DFT/AIMS method was applied to first-principles nonadiabatic dynamics simulation of azobenzene's photodynamics in the vacuum. However, it remains necessary to benchmark this new method in realistic molecular environments against experimental data. In the current work, the hh-TDA-DFT/AIMS method was employed in a quantum mechanics/molecular mechanics setting to characterize the trans azobenzene's photodynamics in explicit methanol and n-hexane solvents, following both the S1 (nπ*) and S2 (ππ*) excitations. The simulated absorption and fluorescence spectra following the S2 excitation quantitatively agree with the experiments. However, the hh-TDA-DFT method overestimates the torsional barrier on the S1 state, leading to an overestimation of the S1 state lifetime. The excited-state population decays to the ground state through two competing channels. The reactive channel partially yields the cis azobenzene photoproduct, and the unreactive channel exclusively leads to the reactant. The S2 excitation increases the decay through the unreactive channel and thus decreases the isomerization quantum yield compared to the S1 excitation. The solvent slows down the azobenzene's torsional dynamics on the S1 state, but its polarity minimally affects the reaction kinetics and quantum yields. Interestingly, the dynamics of the central torsion and angles of azobenzene play a critical role in determining the final isomer of the azobenzene. This benchmark study validates the hh-TDA-DFT/AIMS method's accuracy for simulating the azobenzene's photodynamics in realistic molecular environments.
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Affiliation(s)
- Ruibin Liang
- Department of Chemistry and Biochemistry, Texas Tech University, Lubbock, Texas 79409, United States
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228
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Maeda S, Harabuchi Y. Exploring paths of chemical transformations in molecular and periodic systems: An approach utilizing force. WIRES COMPUTATIONAL MOLECULAR SCIENCE 2021. [DOI: 10.1002/wcms.1538] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Satoshi Maeda
- Institute for Chemical Reaction Design and Discovery (WPI‐ICReDD), Hokkaido University Sapporo Hokkaido Japan
- Department of Chemistry, Faculty of Science Hokkaido University Sapporo Hokkaido Japan
- JST, ERATO Maeda Artificial Intelligence for Chemical Reaction Design and Discovery Project Sapporo Hokkaido Japan
- National Institute for Materials Science (NIMS) Research and Services Division of Materials Data and Integrated System (MaDIS) Tsukuba Ibaraki Japan
| | - Yu Harabuchi
- Institute for Chemical Reaction Design and Discovery (WPI‐ICReDD), Hokkaido University Sapporo Hokkaido Japan
- Department of Chemistry, Faculty of Science Hokkaido University Sapporo Hokkaido Japan
- JST, ERATO Maeda Artificial Intelligence for Chemical Reaction Design and Discovery Project Sapporo Hokkaido Japan
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229
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Pieri E, Lahana D, Chang AM, Aldaz CR, Thompson KC, Martínez TJ. The non-adiabatic nanoreactor: towards the automated discovery of photochemistry. Chem Sci 2021; 12:7294-7307. [PMID: 34163820 PMCID: PMC8171323 DOI: 10.1039/d1sc00775k] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The ab initio nanoreactor has previously been introduced to automate reaction discovery for ground state chemistry. In this work, we present the nonadiabatic nanoreactor, an analogous framework for excited state reaction discovery. We automate the study of nonadiabatic decay mechanisms of molecules by probing the intersection seam between adiabatic electronic states with hyper-real metadynamics, sampling the branching plane for relevant conical intersections, and performing seam-constrained path searches. We illustrate the effectiveness of the nonadiabatic nanoreactor by applying it to benzene, a molecule with rich photochemistry and a wide array of photochemical products. Our study confirms the existence of several types of S0/S1 and S1/S2 conical intersections which mediate access to a variety of ground state stationary points. We elucidate the connections between conical intersection energy/topography and the resulting photoproduct distribution, which changes smoothly along seam space segments. The exploration is performed with minimal user input, and the protocol requires no previous knowledge of the photochemical behavior of a target molecule. We demonstrate that the nonadiabatic nanoreactor is a valuable tool for the automated exploration of photochemical reactions and their mechanisms.
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Affiliation(s)
- Elisa Pieri
- Department of Chemistry, The PULSE Institute, Stanford University Stanford CA 94305 USA .,SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Dean Lahana
- Department of Chemistry, The PULSE Institute, Stanford University Stanford CA 94305 USA .,SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Alexander M Chang
- Department of Chemistry, The PULSE Institute, Stanford University Stanford CA 94305 USA .,SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Cody R Aldaz
- Department of Chemistry, The PULSE Institute, Stanford University Stanford CA 94305 USA .,SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Keiran C Thompson
- Department of Chemistry, The PULSE Institute, Stanford University Stanford CA 94305 USA .,SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
| | - Todd J Martínez
- Department of Chemistry, The PULSE Institute, Stanford University Stanford CA 94305 USA .,SLAC National Accelerator Laboratory 2575 Sand Hill Road Menlo Park CA 94025 USA
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230
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Fedorov DA, Otten MJ, Gray SK, Alexeev Y. Ab initio molecular dynamics on quantum computers. J Chem Phys 2021; 154:164103. [PMID: 33940828 DOI: 10.1063/5.0046930] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Ab initio molecular dynamics (AIMD) is a valuable technique for studying molecules and materials at finite temperatures where the nuclei evolve on potential energy surfaces obtained from accurate electronic structure calculations. In this work, we present an approach to running AIMD simulations on noisy intermediate-scale quantum (NISQ)-era quantum computers. The electronic energies are calculated on a quantum computer using the variational quantum eigensolver (VQE) method. Algorithms for computation of analytical gradients entirely on a quantum computer require quantum fault-tolerant hardware, which is beyond NISQ-era. Therefore, we compute the energy gradients numerically using finite differences, the Hellmann-Feynman theorem, and a correlated sampling technique. This method only requires additional classical calculations of electron integrals for each degree of freedom without any additional computations on a quantum computer beyond the initial VQE run. As a proof of concept, AIMD simulations are demonstrated for the H2 molecule on IBM quantum devices. In addition, we demonstrate the validity of the method for larger molecules using full configuration interaction wave functions. As quantum hardware and noise mitigation techniques continue to improve, the method can be utilized for studying larger molecular systems.
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Affiliation(s)
- Dmitry A Fedorov
- Oak Ridge Associated Universities, 100 Orau Way, Oak Ridge, Tennessee 37830, USA
| | - Matthew J Otten
- Center for Nanoscale Materials, Argonne National Laboratory, Lemont, Illinois 60439, USA
| | - Stephen K Gray
- Center for Nanoscale Materials, Argonne National Laboratory, Lemont, Illinois 60439, USA
| | - Yuri Alexeev
- Computational Science Division, Argonne National Laboratory, Lemont, Illinois 60439, USA
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231
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Lykhin AO, Truhlar DG, Gagliardi L. Role of Triplet States in the Photodynamics of Aniline. J Am Chem Soc 2021; 143:5878-5889. [PMID: 33843225 DOI: 10.1021/jacs.1c00989] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The dynamics of excited heteroaromatic molecules is a key to understanding the photoprotective properties of many biologically relevant chromophores that dissipate their excitation energy nonreactively and thereby prevent the detrimental effects of ultraviolet radiation. Despite their structural variability, most substituted aromatic compounds share a common feature of a repulsive 1πσ* potential energy surface. This surface can lead to photoproducts, and it can also facilitate the population transfer back to the ground electronic state by means of a 1πσ*/S0 conical intersection. Here, we explore a hidden relaxation route involving the triplet electronic state of aniline, which has recently been discovered by means of time-selected photofragment translational spectroscopy [J. Chem. Phys. 2019, 151, 141101]. By using the recently available analytical gradients for multiconfiguration pair-density functional theory, it is now possible to locate the minimum-energy crossing points between states of different spin and therefore compute the intersystem crossing rates with a multireference method, rather than with the less reliable single-reference methods. Using such calculations, we demonstrate that the population loss of aniline in the T1(3ππ*) state is dominated by C6H5NH2 → C6H5NH· + H· dissociation, and we explain the long nonradiative lifetimes of the T1(3ππ*) state at the excitation wavelengths of 294-264 nm.
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Affiliation(s)
- Aleksandr O Lykhin
- Department of Chemistry, Pritzker School of Molecular Engineering, The James Franck Institute and Chicago Center for Theoretical Chemistry, The University of Chicago, Chicago, Illinois 60637, United States
| | - Donald G Truhlar
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Laura Gagliardi
- Department of Chemistry, Pritzker School of Molecular Engineering, The James Franck Institute and Chicago Center for Theoretical Chemistry, The University of Chicago, Chicago, Illinois 60637, United States
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232
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Nottoli M, Cupellini L, Lipparini F, Granucci G, Mennucci B. Multiscale Models for Light-Driven Processes. Annu Rev Phys Chem 2021; 72:489-513. [PMID: 33561359 DOI: 10.1146/annurev-physchem-090419-104031] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Multiscale models combining quantum mechanical and classical descriptions are a very popular strategy to simulate properties and processes of complex systems. Many alternative formulations have been developed, and they are now available in all of the most widely used quantum chemistry packages. Their application to the study of light-driven processes, however, is more recent, and some methodological and numerical problems have yet to be solved. This is especially the case for the polarizable formulation of these models, the recent advances in which we review here. Specifically, we identify and describe the most important specificities that the polarizable formulation introduces into both the simulation of excited-state dynamics and the modeling of excitation energy and electron transfer processes.
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Affiliation(s)
- Michele Nottoli
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, 56124 Pisa, Italy;
| | - Lorenzo Cupellini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, 56124 Pisa, Italy;
| | - Filippo Lipparini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, 56124 Pisa, Italy;
| | - Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, 56124 Pisa, Italy;
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, 56124 Pisa, Italy;
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233
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Zhao L, Wildman A, Pavošević F, Tully JC, Hammes-Schiffer S, Li X. Excited State Intramolecular Proton Transfer with Nuclear-Electronic Orbital Ehrenfest Dynamics. J Phys Chem Lett 2021; 12:3497-3502. [PMID: 33792317 DOI: 10.1021/acs.jpclett.1c00564] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The recent development of the Ehrenfest dynamics approach in the nuclear-electronic orbital (NEO) framework provides a promising way to simulate coupled nuclear-electronic dynamics. Our previous study showed that the NEO-Ehrenfest approach with a semiclassical traveling proton basis method yields accurate predictions of molecular vibrational frequencies. In this work, we provide a more thorough analysis of the semiclassical traveling proton basis method to elucidate its validity and convergence behavior. We also conduct NEO-Ehrenfest dynamics simulations to study an excited state intramolecular proton transfer process. These simulations reveal that nuclear quantum effects influence the predictions of proton transfer reaction rates and kinetic isotope effects due to the intrinsic delocalized nature of the quantum nuclear wave function. This work illustrates the importance of nuclear quantum effects in coupled nuclear-electronic dynamical processes and shows that the NEO-Ehrenfest approach can be a powerful tool for providing insights and predictions for these processes.
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Affiliation(s)
- Luning Zhao
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Andrew Wildman
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Fabijan Pavošević
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - John C Tully
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Sharon Hammes-Schiffer
- Department of Chemistry, Yale University, 225 Prospect Street, New Haven, Connecticut 06520, United States
| | - Xiaosong Li
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
- Pacific Northwest National Laboratory, Richland, Washington 99354, United States
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234
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Santoro F, Green JA, Martinez-Fernandez L, Cerezo J, Improta R. Quantum and semiclassical dynamical studies of nonadiabatic processes in solution: achievements and perspectives. Phys Chem Chem Phys 2021; 23:8181-8199. [PMID: 33875988 DOI: 10.1039/d0cp05907b] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
We concisely review the main methodological approaches to model nonadiabatic dynamics in isotropic solutions and their applications. Three general classes of models are identified as the most used to include solvent effects in the simulations. The first model describes the solvent as a set of harmonic collective modes coupled to the solute degrees of freedom, and the second as a continuum, while the third explicitly includes solvent molecules in the calculations. The issues related to the use of these models in semiclassical and quantum dynamical simulations are discussed, as well as the main limitations and perspectives of each approach.
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Affiliation(s)
- Fabrizio Santoro
- CNR-Consiglio Nazionale delle Ricerche, Istituto di Chimica dei Composti Organo Metallici (ICCOM-CNR), SS di Pisa, Area della Ricerca, via G. Moruzzi 1, I-56124 Pisa, Italy.
| | - James A Green
- CNR-Consiglio Nazionale delle Ricerche, Istituto di Biostrutture e Bioimmagini (IBB-CNR), via Mezzocannone 16, I-80136 Napoli, Italy.
| | - Lara Martinez-Fernandez
- Departamento de Química, Facultad de Ciencias and Institute for Advanced Research in Chemistry (IADCHEM), Universidad Autónoma de Madrid, Campus de Excelencia UAM-CSIC, 28049 Madrid, Spain
| | - Javier Cerezo
- Departamento de Química, Facultad de Ciencias and Institute for Advanced Research in Chemistry (IADCHEM), Universidad Autónoma de Madrid, Campus de Excelencia UAM-CSIC, 28049 Madrid, Spain
| | - Roberto Improta
- CNR-Consiglio Nazionale delle Ricerche, Istituto di Biostrutture e Bioimmagini (IBB-CNR), via Mezzocannone 16, I-80136 Napoli, Italy.
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235
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Feng M, Gilson MK. Mechanistic analysis of light-driven overcrowded alkene-based molecular motors by multiscale molecular simulations. Phys Chem Chem Phys 2021; 23:8525-8540. [PMID: 33876015 PMCID: PMC8102045 DOI: 10.1039/d0cp06685k] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
We analyze light-driven overcrowded alkene-based molecular motors, an intriguing class of small molecules that have the potential to generate MHz-scale rotation rates. The full rotation process is simulated at multiple scales by combining quantum surface-hopping molecular dynamics (MD) simulations for the photoisomerization step with classical MD simulations for the thermal helix inversion step. A Markov state analysis resolves conformational substates, their interconversion kinetics, and their roles in the motor's rotation process. Furthermore, motor performance metrics, including rotation rate and maximal power output, are computed to validate computations against experimental measurements and to inform future designs. Lastly, we find that to correctly model these motors, the force field must be optimized by fitting selected parameters to reference quantum mechanical energy surfaces. Overall, our simulations yield encouraging agreement with experimental observables such as rotation rates, and provide mechanistic insights that may help future designs.
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Affiliation(s)
- Mudong Feng
- Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, 92093, USA.
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236
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Chowdhury SN, Huo P. Non-adiabatic Matsubara dynamics and non-adiabatic ring-polymer molecular dynamics. J Chem Phys 2021; 154:124124. [PMID: 33810665 DOI: 10.1063/5.0042136] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
We present the non-adiabatic Matsubara dynamics, a general framework for computing the time-correlation function (TCF) of electronically non-adiabatic systems. This new formalism is derived based on the generalized Kubo-transformed TCF using the Wigner representation for both the nuclear degrees of freedom and the electronic mapping variables. By dropping the non-Matsubara nuclear normal modes in the quantum Liouvillian and explicitly integrating these modes out from the expression of the TCF, we derived the non-adiabatic Matsubara dynamics approach. Further making the approximation to drop the imaginary part of the Matsubara Liouvillian and enforce the nuclear momentum integral to be real, we arrived at the non-adiabatic ring-polymer molecular dynamics (NRPMD) approach. We have further justified the capability of NRPMD for simulating the non-equilibrium TCF. This work provides the rigorous theoretical foundation for several recently proposed state-dependent RPMD approaches and offers a general framework for developing new non-adiabatic quantum dynamics methods in the future.
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Affiliation(s)
- Sutirtha N Chowdhury
- Department of Chemistry, University of Rochester, 120 Trustee Road, Rochester, New York 14627, USA
| | - Pengfei Huo
- Department of Chemistry, University of Rochester, 120 Trustee Road, Rochester, New York 14627, USA
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237
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Fábri C, Halász GJ, Cederbaum LS, Vibók Á. Signatures of light-induced nonadiabaticity in the field-dressed vibronic spectrum of formaldehyde. J Chem Phys 2021; 154:124308. [PMID: 33810660 DOI: 10.1063/5.0045069] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Nonadiabatic coupling is absent between the electronic ground X and first excited (singlet) A states of formaldehyde. As laser fields can induce conical intersections between these two electronic states, formaldehyde is particularly suitable for investigating light-induced nonadiabaticity in a polyatomic molecule. The present work reports on the spectrum induced by light-the so-called field-dressed spectrum-probed by a weak laser pulse. A full-dimensional ab initio approach in the framework of Floquet-state representation is applied. The low-energy spectrum, which without the dressing field would correspond to an infrared vibrational spectrum in the X-state, and the high-energy spectrum, which without the dressing field would correspond to the X → A spectrum, are computed and analyzed. The spectra are shown to be highly sensitive to the frequency of the dressing light allowing one to isolate different nonadiabatic phenomena.
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Affiliation(s)
- Csaba Fábri
- Laboratory of Molecular Structure and Dynamics, Institute of Chemistry, Eötvös Loránd University, Pázmány Péter sétány 1/A, H-1117 Budapest, Hungary
| | - Gábor J Halász
- Department of Information Technology, University of Debrecen, P.O. Box 400, H-4002 Debrecen, Hungary
| | - Lorenz S Cederbaum
- Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 229, 69120 Heidelberg, Germany
| | - Ágnes Vibók
- Department of Theoretical Physics, University of Debrecen, P.O. Box 400, H-4002 Debrecen, Hungary
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238
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Christopoulou G, Freibert A, Worth GA. Improved algorithm for the direct dynamics variational multi-configurational Gaussian method. J Chem Phys 2021; 154:124127. [PMID: 33810697 DOI: 10.1063/5.0043720] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The Direct Dynamics variational Multi-Configurational Gaussian (DD-vMCG) method provides a fully quantum mechanical solution to the time-dependent Schrödinger equation for the time evolution of nuclei with potential surfaces calculated on-the-fly using a quantum chemistry program. Initial studies have shown its potential for flexible and accurate simulations of non-adiabatic excited-state molecular dynamics. In this paper, we present developments to the DD-vMCG algorithm that improve both its accuracy and efficiency. First, a new, efficient parallel algorithm to control the DD-vMCG database of quantum chemistry points is presented along with improvements to the Shepard interpolation scheme. Second, the use of symmetry in describing the potential surfaces is introduced along with a new phase convention in the propagation diabatization. Benchmark calculations on the allene radical cation including all degrees of freedom then show that the new scheme is able to produce a consistent non-adiabatic coupling vector field. This new DD-vMCG version thus opens the route for effectively and accurately treating complex chemical systems using quantum dynamics simulations.
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Affiliation(s)
| | - Antonia Freibert
- Department of Chemistry, University College London, London WC1H 0AJ, United Kingdom
| | - Graham A Worth
- Department of Chemistry, University College London, London WC1H 0AJ, United Kingdom
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239
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Begušić T, Vaníček J. Finite-Temperature, Anharmonicity, and Duschinsky Effects on the Two-Dimensional Electronic Spectra from Ab Initio Thermo-Field Gaussian Wavepacket Dynamics. J Phys Chem Lett 2021; 12:2997-3005. [PMID: 33733773 PMCID: PMC8006135 DOI: 10.1021/acs.jpclett.1c00123] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 03/08/2021] [Indexed: 05/28/2023]
Abstract
Accurate description of finite-temperature vibrational dynamics is indispensable in the computation of two-dimensional electronic spectra. Such simulations are often based on the density matrix evolution, statistical averaging of initial vibrational states, or approximate classical or semiclassical limits. While many practical approaches exist, they are often of limited accuracy and difficult to interpret. Here, we use the concept of thermo-field dynamics to derive an exact finite-temperature expression that lends itself to an intuitive wavepacket-based interpretation. Furthermore, an efficient method for computing finite-temperature two-dimensional spectra is obtained by combining the exact thermo-field dynamics approach with the thawed Gaussian approximation for the wavepacket dynamics, which is exact for any displaced, distorted, and Duschinsky-rotated harmonic potential but also accounts partially for anharmonicity effects in general potentials. Using this new method, we directly relate a symmetry breaking of the two-dimensional signal to the deviation from the conventional Brownian oscillator picture.
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240
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Freixas VM, White AJ, Nelson T, Song H, Makhov DV, Shalashilin D, Fernandez-Alberti S, Tretiak S. Nonadiabatic Excited-State Molecular Dynamics Methodologies: Comparison and Convergence. J Phys Chem Lett 2021; 12:2970-2982. [PMID: 33730495 DOI: 10.1021/acs.jpclett.1c00266] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Direct atomistic simulation of nonadiabatic molecular dynamics is a challenging goal that allows important insights into fundamental physical phenomena. A variety of frameworks, ranging from fully quantum treatment of nuclei to semiclassical and mixed quantum-classical approaches, were developed. These algorithms are then coupled to specific electronic structure techniques. Such diversity and lack of standardized implementation make it difficult to compare the performance of different methodologies when treating realistic systems. Here, we compare three popular methods for large chromophores: Ehrenfest, surface hopping, and multiconfigurational Ehrenfest with ab initio multiple cloning (MCE-AIMC). These approaches are implemented in the NEXMD software, which features a common computational chemistry model. The resulting comparisons reveal the method performance for population relaxation and coherent vibronic dynamics. Finally, we study the numerical convergence of MCE-AIMC algorithms by considering the number of trajectories, cloning thresholds, and Gaussian wavepacket width. Our results provide helpful reference data for selecting an optimal methodology for simulating excited-state molecular dynamics.
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Affiliation(s)
- Victor M Freixas
- Universidad Nacional de Quilmes, Roque Saénz Peña 352, B1876BXD Bernal, Argentina
| | - Alexander J White
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Tammie Nelson
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Huajing Song
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Dmitry V Makhov
- School of Chemistry, University of Leeds, Leeds LS2 9JT, U.K
- School of Mathematics, University of Bristol, Bristol BS8 1TW, U.K
| | | | | | - Sergei Tretiak
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
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241
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Gelin MF, Huang X, Xie W, Chen L, Došlić NA, Domcke W. Ab Initio Surface-Hopping Simulation of Femtosecond Transient-Absorption Pump-Probe Signals of Nonadiabatic Excited-State Dynamics Using the Doorway-Window Representation. J Chem Theory Comput 2021; 17:2394-2408. [PMID: 33755464 DOI: 10.1021/acs.jctc.1c00109] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
An ab initio theoretical framework for the simulation of femtosecond time-resolved transient absorption (TA) pump-probe (PP) spectra with quasi-classical trajectories is presented. The simulations are based on the classical approximation to the doorway-window (DW) representation of third-order four-wave-mixing signals. The DW formula accounts for the finite duration and spectral shape of the pump and probe pulses. In the classical DW formalism, classical trajectories are stochastically sampled from a positive definite doorway distribution, and the signals are evaluated by averaging over a positive definite window distribution. Nonadiabatic excited-state dynamics is described by a stochastic surface-hopping algorithm. The method has been implemented for the pyrazine molecule with the second-order algebraic-diagrammatic construction (ADC(2)) ab initio electronic-structure method. The methodology is illustrated by ab initio simulations of the ground-state bleach, stimulated emission, and excited-state absorption contributions to the TA PP spectrum of gas-phase pyrazine.
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Affiliation(s)
- Maxim F Gelin
- School of Sciences, Hangzhou Dianzi University, Hangzhou 310018, China
| | - Xiang Huang
- Department of Chemistry, Technical University of Munich, D-85747 Garching, Germany
| | - Weiwei Xie
- Institute of Physical Chemistry, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany
| | - Lipeng Chen
- Max Planck Institute for the Physics of Complex Systems, D-01187 Dresden, Germany
| | - Nad A Došlić
- Department of Physical Chemistry, Ruder Boscovic Institute, HR-10000 Zagreb, Croatia
| | - Wolfgang Domcke
- Department of Chemistry, Technical University of Munich, D-85747 Garching, Germany
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242
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Tantillo DJ. Dynamic effects on organic reactivity—Pathways to (and from) discomfort. J PHYS ORG CHEM 2021. [DOI: 10.1002/poc.4202] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Dean J. Tantillo
- Department of Chemistry University of California, Davis Davis California USA
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243
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Rankine CD, Penfold TJ. Progress in the Theory of X-ray Spectroscopy: From Quantum Chemistry to Machine Learning and Ultrafast Dynamics. J Phys Chem A 2021; 125:4276-4293. [DOI: 10.1021/acs.jpca.0c11267] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- C. D. Rankine
- Chemistry—School of Natural and Environmental Sciences, Newcastle University, Newcastle upon Tyne, NE1 7RU, U.K
| | - T. J. Penfold
- Chemistry—School of Natural and Environmental Sciences, Newcastle University, Newcastle upon Tyne, NE1 7RU, U.K
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244
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Ibele LM, Lassmann Y, Martínez TJ, Curchod BFE. Comparing (stochastic-selection) ab initio multiple spawning with trajectory surface hopping for the photodynamics of cyclopropanone, fulvene, and dithiane. J Chem Phys 2021; 154:104110. [DOI: 10.1063/5.0045572] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Affiliation(s)
- Lea M. Ibele
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, United Kingdom
| | - Yorick Lassmann
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, United Kingdom
| | - Todd J. Martínez
- Department of Chemistry, Stanford University, Stanford, California 94305, USA and PULSE Institute, SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA
| | - Basile F. E. Curchod
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, United Kingdom
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245
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Peng J, Xie Y, Hu D, Lan Z. Analysis of bath motion in MM-SQC dynamics via dimensionality reduction approach: Principal component analysis. J Chem Phys 2021; 154:094122. [PMID: 33685149 DOI: 10.1063/5.0039743] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The system-plus-bath model is an important tool to understand the nonadiabatic dynamics of large molecular systems. Understanding the collective motion of a large number of bath modes is essential for revealing their key roles in the overall dynamics. Here, we applied principal component analysis (PCA) to investigate the bath motion in the basis of a large dataset generated from the symmetrical quasi-classical dynamics method based on the Meyer-Miller mapping Hamiltonian nonadiabatic dynamics for the excited-state energy transfer in the Frenkel-exciton model. The PCA method clearly elucidated that two types of bath modes, which either display strong vibronic coupling or have frequencies close to that of the electronic transition, are important to the nonadiabatic dynamics. These observations were fully consistent with the physical insights. The conclusions were based on the PCA of the trajectory data and did not involve significant pre-defined physical knowledge. The results show that the PCA approach, which is one of the simplest unsupervised machine learning dimensionality reduction methods, is a powerful one for analyzing complicated nonadiabatic dynamics in the condensed phase with many degrees of freedom.
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Affiliation(s)
- Jiawei Peng
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
| | - Yu Xie
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
| | - Deping Hu
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
| | - Zhenggang Lan
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
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246
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Chen L, Sun K, Shalashilin DV, Gelin MF, Zhao Y. Efficient simulation of time- and frequency-resolved four-wave-mixing signals with a multiconfigurational Ehrenfest approach. J Chem Phys 2021; 154:054105. [PMID: 33557567 DOI: 10.1063/5.0038824] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023] Open
Abstract
We have extended the multiconfigurational Ehrenfest approach to the simulation of four-wave-mixing signals of systems involving multiple electronic and vibrational degrees of freedom. As an illustration, we calculate signals of three widely used spectroscopic techniques, time- and frequency-resolved fluorescence spectroscopy, transient absorption spectroscopy, and two-dimensional (2D) electronic spectroscopy, for a two-electronic-state, twenty-four vibrational-mode conical intersection model. It has been shown that all these three spectroscopic signals characterize fast population transfer from the higher excited electronic state to the lower excited electronic state. While the time- and frequency-resolved spectrum maps the wave packet propagation exclusively on the electronically excited states, the transient absorption and 2D electronic spectra reflect the wave packet dynamics on both electronically excited states and the electronic ground state. Combining trajectory-guided Gaussian basis functions and the nonlinear response function formalism, the present approach provides a promising general technique for the applications of various Gaussian basis methods to the calculations of four-wave-mixing spectra of polyatomic molecules.
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Affiliation(s)
- Lipeng Chen
- Max Planck Institute for the Physics of Complex Systems, Nöthnitzer Str. 38, Dresden, Germany
| | - Kewei Sun
- School of Science, Hangzhou Dianzi University, Hangzhou 310018, China
| | | | - Maxim F Gelin
- School of Science, Hangzhou Dianzi University, Hangzhou 310018, China
| | - Yang Zhao
- Division of Materials Science, Nanyang Technological University, Singapore 639798, Singapore
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247
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Chowdhury SN, Mandal A, Huo P. Ring polymer quantization of the photon field in polariton chemistry. J Chem Phys 2021; 154:044109. [PMID: 33514102 DOI: 10.1063/5.0038330] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
We use the ring polymer (RP) representation to quantize the radiation field inside an optical cavity to investigate polariton quantum dynamics. Using a charge transfer model coupled to an optical cavity, we demonstrate that the RP quantization of the photon field provides accurate rate constants of the polariton mediated electron transfer reaction compared to Fermi's golden rule. Because RP quantization uses extended phase space to describe the photon field, it significantly reduces the computational costs compared to the commonly used Fock state description of the radiation field. Compared to the other quasi-classical descriptions of the photon field, such as the classical Wigner based mean-field Ehrenfest model, the RP representation provides a much more accurate description of the polaritonic quantum dynamics because it alleviates the potential quantum distribution leakage problem associated with the photonic degrees of freedom (DOF). This work demonstrates the possibility of using the ring polymer description to treat the quantized radiation field in polariton chemistry, offering an accurate and efficient approach for future investigations in cavity quantum electrodynamics.
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Affiliation(s)
- Sutirtha N Chowdhury
- Department of Chemistry, University of Rochester, 120 Trustee Road, Rochester, New York 14627, USA
| | - Arkajit Mandal
- Department of Chemistry, University of Rochester, 120 Trustee Road, Rochester, New York 14627, USA
| | - Pengfei Huo
- Department of Chemistry, University of Rochester, 120 Trustee Road, Rochester, New York 14627, USA
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248
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Pieroni C, Marsili E, Lauvergnat D, Agostini F. Relaxation dynamics through a conical intersection: Quantum and quantum-classical studies. J Chem Phys 2021; 154:034104. [PMID: 33499611 DOI: 10.1063/5.0036726] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
We study the relaxation process through a conical intersection of a photo-excited retinal chromophore model. The analysis is based on a two-electronic-state two-dimensional Hamiltonian developed by Hahn and Stock [J. Phys. Chem. B 104 1146 (2000)] to reproduce, with a minimal model, the main features of the 11-cis to all-trans isomerization of the retinal of rhodopsin. In particular, we focus on the performance of various trajectory-based schemes to nonadiabatic dynamics, and we compare quantum-classical results to the numerically exact quantum vibronic wavepacket dynamics. The purpose of this work is to investigate, by analyzing electronic and nuclear observables, how the sampling of initial conditions for the trajectories affects the subsequent dynamics.
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Affiliation(s)
- Carlotta Pieroni
- Université Paris-Saclay, CNRS, Institut de Chimie Physique UMR8000, 91405 Orsay, France
| | - Emanuele Marsili
- Department of Chemistry, Durham University, South Road, Durham DH1 3LE, United Kingdom
| | - David Lauvergnat
- Université Paris-Saclay, CNRS, Institut de Chimie Physique UMR8000, 91405 Orsay, France
| | - Federica Agostini
- Université Paris-Saclay, CNRS, Institut de Chimie Physique UMR8000, 91405 Orsay, France
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Temen S, Akimov AV. A Simple Solution to Trivial Crossings: A Stochastic State Tracking Approach. J Phys Chem Lett 2021; 12:850-860. [PMID: 33427475 DOI: 10.1021/acs.jpclett.0c03428] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
We present a new state tracking algorithm based on a stochastic state reassignment that reflects the quantum mechanical interpretation of the state time-overlaps. We assess the new method with a range of model Hamiltonians and demonstrate that it yields the results generally consistent with the deterministic min-cost algorithm. However, the stochastic state tracking algorithm reduces magnitudes of the state population fluctuations as the quantum system evolves toward its equilibrium. The new algorithm facilitates the thermalization of quantum state populations and suppresses the population revivals and oscillations near the equilibrium in many-state systems. The new stochastic algorithm has a favorable computational scaling, is easy to implement due to its conceptual transparency, and treats various types of state identity changes (trivial or avoided crossings and any intermediate cases) on equal footing.
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Affiliation(s)
- Story Temen
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260, United States
| | - Alexey V Akimov
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260, United States
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250
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Smith B, Shakiba M, Akimov AV. Nonadiabatic Dynamics in Si and CdSe Nanoclusters: Many-Body vs Single-Particle Treatment of Excited States. J Chem Theory Comput 2021; 17:678-693. [DOI: 10.1021/acs.jctc.0c01009] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Brendan Smith
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260 United States
| | - Mohammad Shakiba
- Department of Materials Science and Engineering, Shahid Bahonar University of Kerman, Kerman 76169-14111, Iran
| | - Alexey V. Akimov
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260 United States
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