101
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Tran LN, Shea JAR, Neuscamman E. Tracking Excited States in Wave Function Optimization Using Density Matrices and Variational Principles. J Chem Theory Comput 2019; 15:4790-4803. [DOI: 10.1021/acs.jctc.9b00351] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Lan Nguyen Tran
- Department of Chemistry, University of California, Berkeley, California 94720, United States
- Ho Chi Minh City Institute of Physics, VAST, Ho Chi Minh City 700000, Vietnam
| | - Jacqueline A. R. Shea
- Department of Chemistry, University of California, Berkeley, California 94720, United States
| | - Eric Neuscamman
- Department of Chemistry, University of California, Berkeley, California 94720, United States
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
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102
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Westermayr J, Gastegger M, Menger MFSJ, Mai S, González L, Marquetand P. Machine learning enables long time scale molecular photodynamics simulations. Chem Sci 2019; 10:8100-8107. [PMID: 31857878 PMCID: PMC6849489 DOI: 10.1039/c9sc01742a] [Citation(s) in RCA: 108] [Impact Index Per Article: 21.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Accepted: 08/02/2019] [Indexed: 02/04/2023] Open
Abstract
Photo-induced processes are fundamental in nature but accurate simulations of their dynamics are seriously limited by the cost of the underlying quantum chemical calculations, hampering their application for long time scales. Here we introduce a method based on machine learning to overcome this bottleneck and enable accurate photodynamics on nanosecond time scales, which are otherwise out of reach with contemporary approaches. Instead of expensive quantum chemistry during molecular dynamics simulations, we use deep neural networks to learn the relationship between a molecular geometry and its high-dimensional electronic properties. As an example, the time evolution of the methylenimmonium cation for one nanosecond is used to demonstrate that machine learning algorithms can outperform standard excited-state molecular dynamics approaches in their computational efficiency while delivering the same accuracy.
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Affiliation(s)
- Julia Westermayr
- Institute of Theoretical Chemistry , Faculty of Chemistry , University of Vienna , 1090 Vienna , Austria .
| | - Michael Gastegger
- Machine Learning Group , Technical University of Berlin , 10587 Berlin , Germany
| | - Maximilian F S J Menger
- Institute of Theoretical Chemistry , Faculty of Chemistry , University of Vienna , 1090 Vienna , Austria . .,Dipartimento di Chimica e Chimica Industriale , University of Pisa , Via G. Moruzzi 13 , 56124 Pisa , Italy
| | - Sebastian Mai
- Institute of Theoretical Chemistry , Faculty of Chemistry , University of Vienna , 1090 Vienna , Austria .
| | - Leticia González
- Institute of Theoretical Chemistry , Faculty of Chemistry , University of Vienna , 1090 Vienna , Austria .
| | - Philipp Marquetand
- Institute of Theoretical Chemistry , Faculty of Chemistry , University of Vienna , 1090 Vienna , Austria .
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103
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Levine BG, Esch MP, Fales BS, Hardwick DT, Peng WT, Shu Y. Conical Intersections at the Nanoscale: Molecular Ideas for Materials. Annu Rev Phys Chem 2019; 70:21-43. [DOI: 10.1146/annurev-physchem-042018-052425] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The ability to predict and describe nonradiative processes in molecules via the identification and characterization of conical intersections is one of the greatest recent successes of theoretical chemistry. Only recently, however, has this concept been extended to materials science, where nonradiative recombination limits the efficiencies of materials for various optoelectronic applications. In this review, we present recent advances in the theoretical study of conical intersections in semiconductor nanomaterials. After briefly introducing conical intersections, we argue that specific defects in materials can induce conical intersections between the ground and first excited electronic states, thus introducing pathways for nonradiative recombination. We present recent developments in theoretical methods, computational tools, and chemical intuition for the prediction of such defect-induced conical intersections. Through examples in various nanomaterials, we illustrate the significance of conical intersections for nanoscience. We also discuss challenges facing research in this area and opportunities for progress.
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Affiliation(s)
- Benjamin G. Levine
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA
| | - Michael P. Esch
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA
| | - B. Scott Fales
- Department of Chemistry and the PULSE Institute, Stanford University, Stanford, California 94305, USA
- SLAC National Accelerator Laboratory, Menlo Park, California 94025, USA
| | - Dylan T. Hardwick
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA
| | - Wei-Tao Peng
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA
| | - Yinan Shu
- Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, USA
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104
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Levine BG, Peng WT, Esch MP. Locality of conical intersections in semiconductor nanomaterials. Phys Chem Chem Phys 2019; 21:10870-10878. [PMID: 31106323 DOI: 10.1039/c9cp01584a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A predictive theory connecting atomic structure to the rate of recombination would enable the rational design of semiconductor nanomaterials for optoelectronic applications. Recently our group has demonstrated that the theoretical study of conical intersections can serve this purpose. Here we review recent work in this area, focusing on the thesis that low-energy conical intersections in nanomaterials share a common feature: locality. We define a conical intersection as local if (a) the intersecting states differ by the excitation of an electron between spatially local orbitals, and (b) the intersection is accessed when the energies of these orbitals are tuned by local distortions of the geometry. After illustrating the locality of the conical intersection responsible for recombination at dangling bond defects in silicon, we demonstrate the locality of low-energy conical intersections in cases where locality may be a surprise. First, we demonstrate the locality of low-energy self-trapped conical intersections in a pristine silicon nanocrystal, which has no defects that one would expect to serve as the center of a local intersection. Second, we demonstrate that the lowest energy intersection in a silicon system with two neighboring dangling bond defects localizes to a single defect site. We discuss the profound implications of locality for predicting the rate of recombination and suggest that the locality of intersections could be exploited in the experimental study of recombination, where spectroscopic studies of molecular models of defects could provide new insights.
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Affiliation(s)
- Benjamin G Levine
- Department of Chemistry, Michigan State University, East Lansing, MI 48824, USA.
| | - Wei-Tao Peng
- Department of Chemistry, Michigan State University, East Lansing, MI 48824, USA.
| | - Michael P Esch
- Department of Chemistry, Michigan State University, East Lansing, MI 48824, USA.
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105
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Brazevic S, Nizinski S, Szabla R, Rode MF, Burdzinski G. Photochromic reaction in 3H-naphthopyrans studied by vibrational spectroscopy and quantum chemical calculations. Phys Chem Chem Phys 2019; 21:11861-11870. [PMID: 31119223 DOI: 10.1039/c9cp01451a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Structural details on the species involved in the photochromic reaction of 3H-naphthopyrans in solution have been formerly determined using NMR spectroscopy. Herein we show that at room temperature time-resolved FT-IR spectroscopy is a simple and efficient tool for structural characterization of colored species generated upon continuous UV light irradiation of the model compound 3H-naphthopyran: 3,3-diphenyl-3H-naphtho[2,1-b]pyran. In solution and in the polymer matrix phase, a colored species transoid-cis is formed after a single-photon excitation process, while transoid-trans is a secondary long-lived photoproduct generated after two-step excitation involving two photons. Understanding the reaction mechanism leading to long-lived colored species can help with the design of new 3H-naphthopyran derivatives structurally optimized for making a photochromic reaction free from transoid-trans products, which is often important for applications. Ab initio calculations show that photoinduced ring-opening followed by isomerization occurs on a multidimensional potential-energy surface. The barriers separating the considered isomeric forms, both in the ground and in the excited state, help to interpret the step-by-step dynamics of the photoprocesses. The system is composed of a variety of ground state equilibrium forms. Each of them is characterized by fast excited-state deactivation pathways which may drive the system through different conical intersection regions.
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Affiliation(s)
- Sabina Brazevic
- Quantum Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University in Poznan, Umultowska 85, 61-614 Poznan, Poland.
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106
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Minezawa N, Nakajima T. Trajectory surface hopping molecular dynamics simulation by spin-flip time-dependent density functional theory. J Chem Phys 2019; 150:204120. [DOI: 10.1063/1.5096217] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023] Open
Affiliation(s)
- Noriyuki Minezawa
- Computational Molecular Science Research Team, RIKEN Center for Computational Science, 7-1-26 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan
| | - Takahito Nakajima
- Computational Molecular Science Research Team, RIKEN Center for Computational Science, 7-1-26 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan
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107
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Sharma K, Garner S, Miller TA, Stanton JF. First-Principles Calculation of Jahn–Teller Rotational Distortion Parameters. J Phys Chem A 2019; 123:4990-5004. [DOI: 10.1021/acs.jpca.9b03360] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ketan Sharma
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - Scott Garner
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - Terry A. Miller
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| | - John F. Stanton
- Department of Chemistry, University of Florida, Gainesville, Florida 32611, United States
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108
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Park JW. Single-State Single-Reference and Multistate Multireference Zeroth-Order Hamiltonians in MS-CASPT2 and Conical Intersections. J Chem Theory Comput 2019; 15:3960-3973. [DOI: 10.1021/acs.jctc.9b00067] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jae Woo Park
- Department of Chemistry, Chungbuk National University (CBNU), Cheongju 28644, Korea
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109
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Mai S, Wolf AP, González L. Curious Case of 2-Selenouracil: Efficient Population of Triplet States and Yet Photostable. J Chem Theory Comput 2019; 15:3730-3742. [DOI: 10.1021/acs.jctc.9b00208] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Sebastian Mai
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, 1090 Vienna, Austria
| | - Anna-Patricia Wolf
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, 1090 Vienna, Austria
| | - Leticia González
- Institute of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, 1090 Vienna, Austria
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110
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Grimme S. Exploration of Chemical Compound, Conformer, and Reaction Space with Meta-Dynamics Simulations Based on Tight-Binding Quantum Chemical Calculations. J Chem Theory Comput 2019; 15:2847-2862. [PMID: 30943025 DOI: 10.1021/acs.jctc.9b00143] [Citation(s) in RCA: 465] [Impact Index Per Article: 93.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The semiempirical tight-binding based quantum chemistry method GFN2-xTB is used in the framework of meta-dynamics (MTD) to globally explore chemical compound, conformer, and reaction space. The biasing potential given as a sum of Gaussian functions is expressed with the root-mean-square-deviation (RMSD) in Cartesian space as a metric for the collective variables. This choice makes the approach robust and generally applicable to three common problems (i.e., conformer search, chemical reaction space exploration in a virtual nanoreactor, and for guessing reaction paths). Because of the inherent locality of the atomic RMSD, functional group or fragment selective treatments are possible facilitating the investigation of catalytic processes where, for example, only the substrate is thermally activated. Due to the approximate character of the GFN2-xTB method, the resulting structure ensembles require further refinement with more sophisticated, for example, density functional or wave function theory methods. However, the approach is extremely efficient running routinely on common laptop computers in minutes to hours of computation time even for realistically sized molecules with a few hundred atoms. Furthermore, the underlying potential energy surface for molecules containing almost all elements ( Z = 1-86) is globally consistent including the covalent dissociation process and electronically complicated situations in, for example, transition metal systems. As examples, thermal decomposition, ethyne oligomerization, the oxidation of hydrocarbons (by oxygen and a P450 enzyme model), a Miller-Urey model system, a thermally forbidden dimerization, and a multistep intramolecular cyclization reaction are shown. For typical conformational search problems of organic drug molecules, the new MTD(RMSD) algorithm yields lower energy structures and more complete conformer ensembles at reduced computational effort compared with its already well performing predecessor.
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Affiliation(s)
- Stefan Grimme
- Mulliken Center for Theoretical Chemistry, Institute for Physical and Theoretical Chemistry , University of Bonn , Beringstrasse 4 , 53115 Bonn , Germany
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111
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Lee IS, Filatov M, Min SK. Formulation and Implementation of the Spin-Restricted Ensemble-Referenced Kohn–Sham Method in the Context of the Density Functional Tight Binding Approach. J Chem Theory Comput 2019; 15:3021-3032. [DOI: 10.1021/acs.jctc.9b00132] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- In Seong Lee
- Department of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
| | - Michael Filatov
- Department of Chemistry, Kyungpook National University, Daegu 702-701, Republic of Korea
| | - Seung Kyu Min
- Department of Chemistry, School of Natural Science, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
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112
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Rabidoux SM, Cave RJ, Stanton JF. Nonadiabatic Investigation of the Electronic Spectroscopy of trans-1,3-Butadiene. J Phys Chem A 2019; 123:3255-3271. [DOI: 10.1021/acs.jpca.9b01021] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Scott M. Rabidoux
- Institute for Computational Engineering and Sciences, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Robert J. Cave
- Department of Chemistry, Harvey Mudd College, 241 Platt Boulevard, Claremont, California 91711, United States
| | - John F. Stanton
- Department of Chemistry and Biochemistry, The University of Texas at Austin, 1 University Avenue, Austin, Texas 78712, United States
- The Department of Chemistry, The University of Florida, Gainesville, Florida 32611, United States
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113
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Rivera M, Dommett M, Crespo-Otero R. ONIOM(QM:QM′) Electrostatic Embedding Schemes for Photochemistry in Molecular Crystals. J Chem Theory Comput 2019; 15:2504-2516. [DOI: 10.1021/acs.jctc.8b01180] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Miguel Rivera
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, U.K
| | - Michael Dommett
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, U.K
| | - Rachel Crespo-Otero
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, U.K
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114
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Esch MP, Shu Y, Levine BG. A Conical Intersection Perspective on the Low Nonradiative Recombination Rate in Lead Halide Perovskites. J Phys Chem A 2019; 123:2661-2673. [DOI: 10.1021/acs.jpca.9b00952] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Michael P. Esch
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
| | - Yinan Shu
- Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Benjamin G. Levine
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
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115
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Harada I, Nakayama A, Hasegawa JY. Constraint structure optimization to a specific minimum using ionization energy. J Comput Chem 2019; 40:507-514. [PMID: 30414201 DOI: 10.1002/jcc.25738] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2018] [Revised: 10/02/2018] [Accepted: 10/02/2018] [Indexed: 11/10/2022]
Abstract
A structure optimization method with ionization energy constraint is developed to explore structures with specific ionization energy. The Levine-Coe-Martínez penalty function (J Phys Chem B 2008, 112, 405) was adopted, and the penalty function includes a predefined core-ionization energy and inner-shell ionization energy. For an SN 2 reaction, isomerization of a platinum complex, a proton transfer reaction, and carbon monoxide adsorption on a palladium cluster, the present method was tested, and the targeted energy minima were obtained as designated by the input ionization energy. The shape of the objective function, the parameters in the penalty function, and structural changes during the optimization process were discussed. An automated parameter setting and possible problems are discussed for future direction. © 2018 Wiley Periodicals, Inc.
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Affiliation(s)
- Iori Harada
- Institute for Catalysis, Hokkaido University, Kita-ku, Sapporo, 001-0021, Japan
| | - Akira Nakayama
- Institute for Catalysis, Hokkaido University, Kita-ku, Sapporo, 001-0021, Japan
| | - Jun-Ya Hasegawa
- Institute for Catalysis, Hokkaido University, Kita-ku, Sapporo, 001-0021, Japan
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116
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Mato J, Gordon MS. Analytic Gradients for the Spin-Flip ORMAS-CI Method: Optimizing Minima, Saddle Points, and Conical Intersections. J Phys Chem A 2019; 123:1260-1272. [DOI: 10.1021/acs.jpca.8b11569] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Joani Mato
- Department of Chemistry, Iowa State University, Ames, Iowa 50011, United States
| | - Mark S. Gordon
- Department of Chemistry, Iowa State University, Ames, Iowa 50011, United States
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117
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Cao J, Chen DC. Disulfide bond photochemistry: the effects of higher excited states and different molecular geometries on disulfide bond cleavage. Phys Chem Chem Phys 2019; 21:4176-4183. [DOI: 10.1039/c8cp06891g] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have investigated the light-induced cleavage of disulfide bond using MS-CASPT2 based trajectory simulations and provided insights into the intrinsic excited state properties of disulfide molecules.
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Affiliation(s)
- Jun Cao
- School of Materials Science and Energy Engineering
- Foshan University, Foshan
- Guangdong
- P. R. China
- Guizhou Provincial Key Laboratory of Computational Nano-material Science
| | - Dong-Chu Chen
- School of Materials Science and Energy Engineering
- Foshan University, Foshan
- Guangdong
- P. R. China
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118
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Gómez S, Ibele LM, González L. The 3s Rydberg state as a doorway state in the ultrafast dynamics of 1,1-difluoroethylene. Phys Chem Chem Phys 2019; 21:4871-4878. [DOI: 10.1039/c8cp07766e] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The deactivation dynamics of 1,1-difluoroethylene after light excitation is studied within the surface hopping formalism in the presence of 3s and 3p Rydberg states using multi-state second order perturbation theory (MS-CASPT2).
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Affiliation(s)
- Sandra Gómez
- Institute for Theoretical Chemistry
- Faculty of Chemistry
- University of Vienna
- 1090 Vienna
- Austria
| | - Lea M. Ibele
- Institute for Theoretical Chemistry
- Faculty of Chemistry
- University of Vienna
- 1090 Vienna
- Austria
| | - Leticia González
- Institute for Theoretical Chemistry
- Faculty of Chemistry
- University of Vienna
- 1090 Vienna
- Austria
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119
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Jarota A, Pastorczak E, Tawfik W, Xue B, Kania R, Abramczyk H, Kobayashi T. Exploring the ultrafast dynamics of a diarylethene derivative using sub-10 fs laser pulses. Phys Chem Chem Phys 2019; 21:192-204. [DOI: 10.1039/c8cp05882b] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The fast internal conversion S1 → S0 of a diarylethenes photoswitch, facilitated by two vibrational stretching modes, results in a low quantum yield of the ring-opening reaction.
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Affiliation(s)
- Arkadiusz Jarota
- Institute of Applied Radiation Chemistry, Lodz University of Technology
- 93-590 Łódź
- Poland
- Advanced Ultrafast Laser Research Center, University of Electro-Communications
- Chofu
| | - Ewa Pastorczak
- Institute of Physics, Lodz University of Technology
- 90-924 Łódź
- Poland
| | - Walid Tawfik
- Advanced Ultrafast Laser Research Center, University of Electro-Communications
- Chofu
- Japan
- National Institute of Laser Enhanced Sciences NILES, Cairo University
- Cairo
| | - Bing Xue
- Advanced Ultrafast Laser Research Center, University of Electro-Communications
- Chofu
- Japan
| | - Rafał Kania
- Institute of Applied Radiation Chemistry, Lodz University of Technology
- 93-590 Łódź
- Poland
| | - Halina Abramczyk
- Institute of Applied Radiation Chemistry, Lodz University of Technology
- 93-590 Łódź
- Poland
| | - Takayoshi Kobayashi
- Advanced Ultrafast Laser Research Center, University of Electro-Communications
- Chofu
- Japan
- Brain Science Inspired Life Support Research Center, The University of Electro-Communications
- Chofu
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120
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Filatov M, Min SK, Choi CH. Theoretical modelling of the dynamics of primary photoprocess of cyclopropanone. Phys Chem Chem Phys 2019; 21:2489-2498. [DOI: 10.1039/c8cp07104g] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Photodecomposition of cyclopropanone is investigated by static quantum chemical calculations and non-adiabatic molecular dynamics (NAMD) simulations.
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Affiliation(s)
- Michael Filatov
- Department of Chemistry
- Kyungpook National University
- Daegu 702-701
- South Korea
| | - Seung Kyu Min
- Department of Chemistry
- School of Natural Sciences
- Ulsan National Institute of Science and Technology (UNIST)
- Ulsan 44919
- South Korea
| | - Cheol Ho Choi
- Department of Chemistry
- Kyungpook National University
- Daegu 702-701
- South Korea
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121
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Gate G, Szabla R, Haggmark MR, Šponer J, Sobolewski AL, de Vries MS. Photodynamics of alternative DNA base isoguanine. Phys Chem Chem Phys 2019; 21:13474-13485. [DOI: 10.1039/c9cp01622h] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Pump–probe experiments and quantum-chemical simulations of UV-excited isoguanine elucidate its tautomer dependent photochemical properties.
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Affiliation(s)
- Gregory Gate
- Department of Chemistry and Biochemistry
- University of California
- Santa Barbara
- USA
| | - Rafał Szabla
- Institute of Physics
- Polish Academy of Sciences
- 02-668 Warsaw
- Poland
- Institute of Biophysics of the Czech Academy of Sciences
| | - Michael R. Haggmark
- Department of Chemistry and Biochemistry
- University of California
- Santa Barbara
- USA
| | - Jiří Šponer
- Institute of Biophysics of the Czech Academy of Sciences
- 61265 Brno
- Czech Republic
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122
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Martínez-Fernández L, Arslancan S, Ivashchenko D, Crespo-Hernández CE, Corral I. Tracking the origin of photostability in purine nucleobases: the photophysics of 2-oxopurine. Phys Chem Chem Phys 2019; 21:13467-13473. [DOI: 10.1039/c9cp00879a] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Molding purine PES through functionalization: whilst purine C2-substitution maintains the features of the spectroscopic PES of the heterocycle, C6-functionalization reshapes its topography leading to photostable systems.
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Affiliation(s)
| | - Serra Arslancan
- Departamento de Química
- Universidad Autónoma de Madrid
- 28049 Madrid
- Spain
| | - Dmytro Ivashchenko
- Departamento de Química
- Universidad Autónoma de Madrid
- 28049 Madrid
- Spain
- Departamento de Química e Bioquímica
| | | | - Inés Corral
- Departamento de Química
- Universidad Autónoma de Madrid
- 28049 Madrid
- Spain
- IADCHEM
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123
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Harabuchi Y, Hatanaka M, Maeda S. Exploring approximate geometries of minimum energy conical intersections by TDDFT calculations. Chem Phys Lett 2019. [DOI: 10.1016/j.cpletx.2019.100007] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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124
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QTAIM and stress tensor bond-path framework sets for the ground and excited states of fulvene. Chem Phys Lett 2018. [DOI: 10.1016/j.cplett.2018.10.029] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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125
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Aldaz C, Kammeraad JA, Zimmerman PM. Discovery of conical intersection mediated photochemistry with growing string methods. Phys Chem Chem Phys 2018; 20:27394-27405. [PMID: 30357173 PMCID: PMC6532651 DOI: 10.1039/c8cp04703k] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Conical intersections (CIs) are important features of photochemistry that determine yields and selectivity. Traditional CI optimizers require significant human effort and chemical intuition, which typically restricts searching to only a small region of the CI space. Herein, a systematic approach utilizing the growing string method is introduced to locate multiple CIs. Unintuitive MECI are found using driving coordinates that can be generated using a combinatorial search, and subsequent optimization allows reaction pathways, transition states, products, and seam-space pathways to be located. These capabilities are demonstrated by application to two prototypical photoisomerization reactions and the dimerization of butadiene. In total, many reaction pathways were uncovered, including the elusive stilbene hula-twist mechanism, and a previously unidentified product in butadiene dimerization. Overall, these results suggest that growing string methods provide a predictive strategy for exploring photochemistry.
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Affiliation(s)
- Cody Aldaz
- Department of Chemistry, University of Michigan, Ann Arbor, MI 48109, USA.
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126
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Intersystem crossing dynamics in singly substituted thiouracil studied by time-resolved photoelectron spectroscopy: Micro-environmental effects due to sulfur position. Chem Phys 2018. [DOI: 10.1016/j.chemphys.2018.08.011] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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127
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128
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Cao J. The position of the N atom in the pentacyclic ring of heterocyclic molecules affects the excited-state decay: A case study of isothiazole and thiazole. J Mol Struct 2018. [DOI: 10.1016/j.molstruc.2017.11.008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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129
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Lischka H, Barbatti M, Siddique F, Das A, Aquino AJ. The effect of hydrogen bonding on the nonadiabatic dynamics of a thymine-water cluster. Chem Phys 2018. [DOI: 10.1016/j.chemphys.2018.07.050] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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130
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Janicki MJ, Szabla R, Šponer J, Góra RW. Solvation effects alter the photochemistry of 2-thiocytosine. Chem Phys 2018. [DOI: 10.1016/j.chemphys.2018.06.016] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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131
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Wang R, Chernyak VY. Dynamical consequences of time-reversal symmetry for systems with odd number of electrons: Conical intersections, semiclassical dynamics, and topology. Chem Phys 2018. [DOI: 10.1016/j.chemphys.2018.09.026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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132
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Improved potential energy surfaces of thioanisole and the effect of upper surface variations on the product distribution upon photodissociation. Chem Phys 2018. [DOI: 10.1016/j.chemphys.2018.06.007] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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133
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Mai S, Marquetand P, González L. Nonadiabatic dynamics: The SHARC approach. WILEY INTERDISCIPLINARY REVIEWS. COMPUTATIONAL MOLECULAR SCIENCE 2018; 8:e1370. [PMID: 30450129 PMCID: PMC6220962 DOI: 10.1002/wcms.1370] [Citation(s) in RCA: 224] [Impact Index Per Article: 37.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Revised: 04/05/2018] [Accepted: 04/06/2018] [Indexed: 12/12/2022]
Abstract
We review the Surface Hopping including ARbitrary Couplings (SHARC) approach for excited-state nonadiabatic dynamics simulations. As a generalization of the popular surface hopping method, SHARC allows simulating the full-dimensional dynamics of molecules including any type of coupling terms beyond nonadiabatic couplings. Examples of these arbitrary couplings include spin-orbit couplings or dipole moment-laser field couplings, such that SHARC can describe ultrafast internal conversion, intersystem crossing, and radiative processes. The key step of the SHARC approach consists of a diagonalization of the Hamiltonian including these couplings, such that the nuclear dynamics is carried out on potential energy surfaces including the effects of the couplings-this is critical in any applications considering, for example, transition metal complexes or strong laser fields. We also give an overview over the new SHARC2.0 dynamics software package, released under the GNU General Public License, which implements the SHARC approach and several analysis tools. The review closes with a brief survey of applications where SHARC was employed to study the nonadiabatic dynamics of a wide range of molecular systems. This article is categorized under: Theoretical and Physical Chemistry > Reaction Dynamics and KineticsSoftware > Simulation MethodsSoftware > Quantum Chemistry.
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Affiliation(s)
- Sebastian Mai
- Institute of Theoretical Chemistry, Faculty of Chemistry University of Vienna Vienna Austria
| | - Philipp Marquetand
- Institute of Theoretical Chemistry, Faculty of Chemistry University of Vienna Vienna Austria
| | - Leticia González
- Institute of Theoretical Chemistry, Faculty of Chemistry University of Vienna Vienna Austria
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134
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Cui ZH, Aquino AJA, Sue ACH, Lischka H. Analysis of charge transfer transitions in stacked π-electron donor-acceptor complexes. Phys Chem Chem Phys 2018; 20:26957-26967. [PMID: 30325364 DOI: 10.1039/c8cp04770g] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Charge-transfer (CT) interactions have recently attracted enhanced interest in creating ordered ferroelectric networks of electron donors (D) and acceptors (A) and in providing the basis of functional photonic devices. In the present work, the CT character of three distinct donor-acceptor (D-A) complex interactions (pyromellitic diimide (PDI)/1,5-diaminonaphthalene (DAN), para-chloranil (pClA)/tetramethyl-para-phenylenediamine (TMPD) and tetracyanobenzene (TCNB)/1,2-di(4-pyridyl)ethylene (Bpe)) has been investigated in their ground and excited states using high-level quantum chemical methods (second-order algebraic diagrammatic construction (ADC(2)) and time-dependent density functional theory (TD-DFT) using a long-range corrected functional (ωB97xD)). The calculations show that the lowest electronic excitation has pronounced CT character in all the three dimers investigated. On the contrary, the ground states possess only smaller amounts of CT degree except for the pClA/TMPD complex, which has a strong amount of CT of 0.4 e. Optimization of the S1 state and calculation of the resulting vertical fluorescence transitions led to the interesting finding of a zero-energy gap for pClA/TMPD. The next smallest energy gap is computed for PDI/DAN (1 eV) followed by TCNB/Bpe (2.6 eV). The analysis of the electronic charge distribution of the D-A complex in the excited state shows a significant variation even though practically a full electron charge has been transferred from D to A.
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Affiliation(s)
- Zhong-Hua Cui
- School of Pharmaceutical Sciences and Technology, Tianjin University, Tianjin 300072, P. R. China.
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135
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De Vetta M, González L, Corral I. The Role of Electronic Triplet States and High‐Lying Singlet States in the Deactivation Mechanism of the Parent BODIPY: An ADC(2) and CASPT2 Study. CHEMPHOTOCHEM 2018. [DOI: 10.1002/cptc.201800169] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Martina De Vetta
- Institute of Theoretical ChemistryFaculty of ChemistryUniversity of Vienna Währinger Str. 17, A- 1090 Wien Austria
- Departamento de QuímicaUniversidad Autónoma de Madrid C/ Francisco Tomás y Valiente 7 28049 Cantoblanco Madrid Spain
| | - Leticia González
- Institute of Theoretical ChemistryFaculty of ChemistryUniversity of Vienna Währinger Str. 17, A- 1090 Wien Austria
| | - Inés Corral
- Departamento de QuímicaUniversidad Autónoma de Madrid C/ Francisco Tomás y Valiente 7 28049 Cantoblanco Madrid Spain
- IADCHEM. Institute for Advanced Research in ChemistryUniversidad Autónoma de Madrid C/ Francisco Tomás y Valiente 7 28049 Cantoblanco Madrid Spain
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136
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Selective prebiotic conversion of pyrimidine and purine anhydronucleosides into Watson-Crick base-pairing arabino-furanosyl nucleosides in water. Nat Commun 2018; 9:4073. [PMID: 30287815 PMCID: PMC6172253 DOI: 10.1038/s41467-018-06374-z] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Accepted: 08/31/2018] [Indexed: 01/11/2023] Open
Abstract
Prebiotic nucleotide synthesis is crucial to understanding the origins of life on Earth. There are numerous candidates for life's first nucleic acid, however, currently no prebiotic method to selectively and concurrently synthesise the canonical Watson-Crick base-pairing pyrimidine (C, U) and purine (A, G) nucleosides exists for any genetic polymer. Here, we demonstrate the divergent prebiotic synthesis of arabinonucleic acid (ANA) nucleosides. The complete set of canonical nucleosides is delivered from one reaction sequence, with regiospecific glycosidation and complete furanosyl selectivity. We observe photochemical 8-mercaptopurine reduction is efficient for the canonical purines (A, G), but not the non-canonical purine inosine (I). Our results demonstrate that synthesis of ANA may have been facile under conditions that comply with plausible geochemical environments on early Earth and, given that ANA is capable of encoding RNA/DNA compatible information and evolving to yield catalytic ANA-zymes, ANA may have played a critical role during the origins of life.
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137
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Nakai H, Inamori M, Ikabata Y, Wang Q. Unveiling Controlling Factors of the S0/S1 Minimum Energy Conical Intersection: A Theoretical Study. J Phys Chem A 2018; 122:8905-8910. [DOI: 10.1021/acs.jpca.8b07864] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Hiromi Nakai
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
- Waseda Research Institute for Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
- Elements Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Katsura, Kyoto 615-8520, Japan
| | - Mayu Inamori
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Yasuhiro Ikabata
- Waseda Research Institute for Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Qi Wang
- Waseda Research Institute for Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
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138
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Filatov M, Min SK, Kim KS. Direct Nonadiabatic Dynamics by Mixed Quantum-Classical Formalism Connected with Ensemble Density Functional Theory Method: Application to trans-Penta-2,4-dieniminium Cation. J Chem Theory Comput 2018; 14:4499-4512. [DOI: 10.1021/acs.jctc.8b00217] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Michael Filatov
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Korea
| | - Seung Kyu Min
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Korea
| | - Kwang S. Kim
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, Korea
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139
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Gonon B, Perveaux A, Gatti F, Lauvergnat D, Lasorne B. On the applicability of a wavefunction-free, energy-based procedure for generating first-order non-adiabatic couplings around conical intersections. J Chem Phys 2018; 147:114114. [PMID: 28938825 DOI: 10.1063/1.4991635] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
The primal definition of first-order non-adiabatic couplings among electronic states relies on the knowledge of how electronic wavefunctions vary with nuclear coordinates. However, the non-adiabatic coupling between two electronic states can be obtained in the vicinity of a conical intersection from energies only, as this vector spans the branching plane along which degeneracy is lifted to first order. The gradient difference and derivative coupling are responsible of the two-dimensional cusp of a conical intersection between both potential-energy surfaces and can be identified to the non-trivial eigenvectors of the second derivative of the square energy difference, as first pointed out in Köppel and Schubert [Mol. Phys. 104(5-7), 1069 (2006)]. Such quantities can always be computed in principle for the cost of two numerical Hessians in the worst-case scenario. Analytic-derivative techniques may help in terms of accuracy and efficiency but also raise potential traps due to singularities and ill-defined derivatives at degeneracies. We compare here two approaches, one fully numerical, the other semianalytic, where analytic gradients are available but Hessians are not, and investigate their respective conditions of applicability. Benzene and 3-hydroxychromone are used as illustrative application cases. It is shown that non-adiabatic couplings can thus be estimated with decent accuracy in regions of significant size around conical intersections. This procedure is robust and could be useful in the context of on-the-fly non-adiabatic dynamics or be used for producing model representations of intersecting potential energy surfaces with complete obviation of the electronic wavefunctions.
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Affiliation(s)
- Benjamin Gonon
- Institut Charles Gerhardt Montpellier (UMR 5253), CNRS, Université de Montpellier, F-34095 Montpellier, France
| | - Aurelie Perveaux
- Institut Charles Gerhardt Montpellier (UMR 5253), CNRS, Université de Montpellier, F-34095 Montpellier, France
| | - Fabien Gatti
- Institut Charles Gerhardt Montpellier (UMR 5253), CNRS, Université de Montpellier, F-34095 Montpellier, France
| | - David Lauvergnat
- Laboratoire de Chimie Physique (UMR 8000), CNRS, Université Paris-Sud/Paris-Saclay, F-91405 Orsay, France
| | - Benjamin Lasorne
- Institut Charles Gerhardt Montpellier (UMR 5253), CNRS, Université de Montpellier, F-34095 Montpellier, France
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140
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Snyder JW, Fales BS, Hohenstein EG, Levine BG, Martínez TJ. A direct-compatible formulation of the coupled perturbed complete active space self-consistent field equations on graphical processing units. J Chem Phys 2018; 146:174113. [PMID: 28477593 DOI: 10.1063/1.4979844] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We recently developed an algorithm to compute response properties for the state-averaged complete active space self-consistent field method (SA-CASSCF) that capitalized on sparsity in the atomic orbital basis. Our original algorithm was limited to treating small to moderate sized active spaces, but the recent development of graphical processing unit (GPU) based direct-configuration interaction algorithms provides an opportunity to extend this to large active spaces. We present here a direct-compatible version of the coupled perturbed equations, enabling us to compute response properties for systems treated with arbitrary active spaces (subject to available memory and computation time). This work demonstrates that the computationally demanding portions of the SA-CASSCF method can be formulated in terms of seven fundamental operations, including Coulomb and exchange matrix builds and their derivatives, as well as, generalized one- and two-particle density matrix and σ vector constructions. As in our previous work, this algorithm exhibits low computational scaling and is accelerated by the use of GPUs, making possible optimizations and nonadiabatic dynamics on systems with O(1000) basis functions and O(100) atoms, respectively.
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Affiliation(s)
- James W Snyder
- Department of Chemistry and the PULSE Institute, Stanford University, Stanford, California 94305, USA
| | - B Scott Fales
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA
| | - Edward G Hohenstein
- Department of Chemistry and Biochemistry, The City College of New York, New York, New York 10031, USA
| | - Benjamin G Levine
- Department of Chemistry, Michigan State University, East Lansing, Michigan 48824, USA
| | - Todd J Martínez
- Department of Chemistry and the PULSE Institute, Stanford University, Stanford, California 94305, USA
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141
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Liu XY, Fang YG, Xie BB, Fang WH, Cui G. QM/MM nonadiabatic dynamics simulations on photoinduced Wolff rearrangements of 1,2,3-thiadiazole. J Chem Phys 2018; 146:224302. [PMID: 29166059 DOI: 10.1063/1.4984589] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The photoinduced rearrangement reaction mechanism of 1,2,3-thiadiazole remains experimentally elusive. Two possible mechanisms have been proposed to date. The first is a stepwise mechanism via a thiocarbene intermediate; the second is an excited-state concerted rearrangement mechanism. Herein we have adopted both the electronic structure calculations and nonadiabatic dynamics simulations to study the photoinduced rearrangement reactions of 1,2,3-thiadiazole in the S2, S1, and S0 states in solution. On the basis of QM(CASPT2)/MM [quantum mechanics(complete active space self-consistent field second-order perturbation theory)/molecular mechanics] calculations, we have found that (1) the thiocarbene intermediate is not stable; thus, the stepwise mechanism should be unfavorable; (2) the excited-state decay from the S2 via S1 to S0 state is ultrafast and completed within ca. 200 fs; therefore, both the S2 and S1 states should not have a long enough time for the excited-state rearrangements. Instead, we have computationally proposed a modified photoinduced rearrangement mechanism. Upon irradiation, the S2 state is first populated (114.0 kcal/mol), followed by an ultrafast S2 → S1 → S0 excited-state decay along the S-N bond fission, which eventually leads to a very "hot" intermediate with the S-N bond broken (18.3 kcal/mol). Then, thermal rearrangements to thioketene, thiirene, and ethynethiol occur in a concerted asynchronous way. This mechanistic scenario has been verified by full-dimensional trajectory-based nonadiabatic dynamics simulations at the QM(CASPT2)/MM level. Finally, our present computational work provides experimentally interesting mechanistic insights into the photoinduced rearrangement reactions of cyclic and acyclic diazo compounds.
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Affiliation(s)
- Xiang-Yang Liu
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Ye-Guang Fang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Bin-Bin Xie
- 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
| | - Ganglong Cui
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
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142
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Glover WJ, Mori T, Schuurman MS, Boguslavskiy AE, Schalk O, Stolow A, Martínez TJ. Excited state non-adiabatic dynamics of the smallest polyene, trans 1,3-butadiene. II. Ab initio multiple spawning simulations. J Chem Phys 2018; 148:164303. [DOI: 10.1063/1.5018130] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- William J. Glover
- Department of Chemistry and The PULSE Institute, Stanford University, Stanford, California 94305, USA
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, USA
- NYU Shanghai, 1555 Century Avenue, Shanghai 200122, China
- NYU-ECNU Center for Computational Chemistry at NYU Shanghai, 3663 Zhongshan Road North, Shanghai 200062, China
- Department of Chemistry, New York University, New York, New York 10003, USA
| | - Toshifumi Mori
- Department of Chemistry and The PULSE Institute, Stanford University, Stanford, California 94305, USA
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, USA
- Institute for Molecular Science, Myodaji, Okazaki, Aichi 444-8585, Japan
- School of Physical Sciences, The Graduate University for Advanced Studies, Okazaki, Aichi 444-8585, Japan
| | - Michael S. Schuurman
- National Research Council Canada, 100 Sussex Drive, Ottawa, Ontario K1A 0R6, Canada
- Department of Chemistry, University of Ottawa, Ottawa, Ontario K1A 0R6, Canada
| | - Andrey E. Boguslavskiy
- National Research Council Canada, 100 Sussex Drive, Ottawa, Ontario K1A 0R6, Canada
- Department of Chemistry, University of Ottawa, Ottawa, Ontario K1A 0R6, Canada
- Department of Physics, University of Ottawa, Ottawa, Ontario K1N 6N5, Canada
| | - Oliver Schalk
- National Research Council Canada, 100 Sussex Drive, Ottawa, Ontario K1A 0R6, Canada
- Department of Physics, AlbaNova University Center, Stockholm University, 106 91 Stockholm, Sweden
| | - Albert Stolow
- National Research Council Canada, 100 Sussex Drive, Ottawa, Ontario K1A 0R6, Canada
- Department of Chemistry, University of Ottawa, Ottawa, Ontario K1A 0R6, Canada
- Department of Physics, University of Ottawa, Ottawa, Ontario K1N 6N5, Canada
| | - Todd J. Martínez
- Department of Chemistry and The PULSE Institute, Stanford University, Stanford, California 94305, USA
- SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, USA
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143
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Barata-Morgado R, Sánchez ML, Muñoz-Losa A, Martín ME, Olivares Del Valle FJ, Aguilar MA. How Methylation Modifies the Photophysics of the Native All- trans-Retinal Protonated Schiff Base: A CASPT2/MD Study in Gas Phase and in Methanol. J Phys Chem A 2018; 122:3096-3106. [PMID: 29489369 DOI: 10.1021/acs.jpca.8b00773] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A comparison between the free-energy surfaces of the all- trans-retinal protonated Schiff base (RPSB) and its 10-methylated derivative in gas phase and methanol solution is performed at CASSCF//CASSCF and CASPT2//CASSCF levels. Solvent effects were included using the average solvent electrostatic potential from molecular dynamics method. This is a QM/MM (quantum mechanics/molecular mechanics) method that makes use of the mean field approximation. It is found that the methyl group bonded to C10 produces noticeable changes in the solution free-energy profile of the S1 excited state, mainly in the relative stability of the minimum energy conical intersections (MECIs) with respect to the Franck-Condon (FC) point. The conical intersections yielding the 9- cis and 11- cis isomers are stabilized while that yielding the 13- cis isomer is destabilized; in fact, it becomes inaccessible by excitation to S1. Furthermore, the planar S1 minimum is not present in the methylated compound. The solvent notably stabilizes the S2 excited state at the FC geometry. Therefore, if the S2 state has an effect on the photoisomerization dynamics, it must be because it permits the RPSB population to branch around the FC point. All these changes combine to speed up the photoisomerization in the 10-methylated compound with respect to the native compound.
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Affiliation(s)
- Rute Barata-Morgado
- Área de Química Física , University of Extremadura , Avda. Elvas s/n , Edif. José Ma Viguera Lobo 3a, planta, Badajoz 06006 , Spain
| | - M Luz Sánchez
- Área de Química Física , University of Extremadura , Avda. Elvas s/n , Edif. José Ma Viguera Lobo 3a, planta, Badajoz 06006 , Spain
| | - Aurora Muñoz-Losa
- Dpto. Didáctica de las Ciencias Experimentales y Matemáticas, Facultad de Formación del Profesorado , University of Extremadura , Avda. Universidad s/n , Cáceres 10003 , Spain
| | - M Elena Martín
- Área de Química Física , University of Extremadura , Avda. Elvas s/n , Edif. José Ma Viguera Lobo 3a, planta, Badajoz 06006 , Spain
| | - Francisco J Olivares Del Valle
- Área de Química Física , University of Extremadura , Avda. Elvas s/n , Edif. José Ma Viguera Lobo 3a, planta, Badajoz 06006 , Spain
| | - Manuel A Aguilar
- Área de Química Física , University of Extremadura , Avda. Elvas s/n , Edif. José Ma Viguera Lobo 3a, planta, Badajoz 06006 , Spain
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144
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Szabla R, Kruse H, Stadlbauer P, Šponer J, Sobolewski AL. Sequential electron transfer governs the UV-induced self-repair of DNA photolesions. Chem Sci 2018; 9:3131-3140. [PMID: 29732095 PMCID: PMC5916108 DOI: 10.1039/c8sc00024g] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2018] [Accepted: 02/22/2018] [Indexed: 01/09/2023] Open
Abstract
Cyclobutane pyrimidine dimers (CpDs) are among the most common DNA lesions occurring due to the interaction with ultraviolet light. While photolyases have been well known as external factors repairing CpDs, the intrinsic self-repairing capabilities of the GAT 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 1111111111111111111111111111111111 1111111111111111111111111111111111 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 1111111111111111111111111111111111 1111111111111111111111111111111111 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 T DNA sequence were discovered only recently and are still largely obscure. Here, we elucidate the mechanistic details of this self-repair process by means of MD simulations and QM/MM computations involving the algebraic diagrammatic construction to the second order [ADC(2)] method. We show that local UV-excitation of guanine may be followed by up to three subsequent electron transfers, which may eventually enable efficient CpD ring opening when the negative charge resides on the T 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 1111111111111111111111111111111111 1111111111111111111111111111111111 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 1111111111111111111111111111111111 1111111111111111111111111111111111 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 T dimer. Consequently, the molecular mechanism of GAT 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 1111111111111111111111111111111111 1111111111111111111111111111111111 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 1111111111111111111111111111111111 1111111111111111111111111111111111 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 0000000000000000000000000000000000 T self-repair can be envisaged as sequential electron transfer (SET) occurring downhill along the slope of the S1 potential energy surface. Even though the general features of the SET mechanism are retained in both of the studied stacked conformers, our optimizations of different S1/S0 state crossings revealed minor differences which could influence their self-repair efficiencies. We expect that such assessment of the availability and efficiency of the SET process in other DNA oligomers could hint towards other sequences exhibiting similar photochemical properties. Such explorations will be particularly fascinating in the context of the origins of biomolecules on Earth, owing to the lack of external repairing factors in the Archean age.
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Affiliation(s)
- Rafał Szabla
- Institute of Physics , Polish Academy of Sciences , Al. Lotników 32/46 , PL-02668 Warsaw , Poland.,Institute of Biophysics of the Czech Academy of Sciences , Královopolská 135 , 61265 Brno , Czech Republic .
| | - Holger Kruse
- Institute of Biophysics of the Czech Academy of Sciences , Královopolská 135 , 61265 Brno , Czech Republic .
| | - Petr Stadlbauer
- Institute of Biophysics of the Czech Academy of Sciences , Královopolská 135 , 61265 Brno , Czech Republic . .,Regional Centre of Advanced Technologies and Materials , Department of Physical Chemistry , Faculty of Science , Palacký University , 17. Listopadu 1192/12 , 77146 Olomouc , Czech Republic
| | - Jiří Šponer
- Institute of Biophysics of the Czech Academy of Sciences , Královopolská 135 , 61265 Brno , Czech Republic .
| | - Andrzej L Sobolewski
- Institute of Physics , Polish Academy of Sciences , Al. Lotników 32/46 , PL-02668 Warsaw , Poland
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145
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Szabla R, Góra RW, Šponer J. Ultrafast excited-state dynamics of isocytosine. Phys Chem Chem Phys 2018; 18:20208-18. [PMID: 27346684 DOI: 10.1039/c6cp01391k] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The alternative nucleobase isocytosine has long been considered as a plausible component of hypothetical primordial informational polymers. To examine this hypothesis we investigated the excited-state dynamics of the two most abundant forms of isocytosine in the gas phase (keto and enol). Our surface-hopping nonadiabatic molecular dynamics simulations employing the algebraic diagrammatic construction to the second order [ADC(2)] method for the electronic structure calculations suggest that both tautomers undergo efficient radiationless deactivation to the electronic ground state with time constants which amount to τketo = 182 fs and τenol = 533 fs. The dominant photorelaxation pathways correspond to ring-puckering (ππ* surface) and C[double bond, length as m-dash]O stretching/N-H tilting (nπ* surface) for the enol and keto forms respectively. Based on these findings, we infer that isocytosine is a relatively photostable compound in the gas phase and in these terms resembles biologically relevant nucleobases. The estimated S1 [radiolysis arrow - arrow with voltage kink] T1 intersystem crossing rate constant of 8.02 × 10(10) s(-1) suggests that triplet states might also play an important role in the overall excited-state dynamics of the keto tautomer. The reliability of ADC(2)-based surface-hopping molecular dynamics simulations was tested against multireference quantum-chemical calculations and the potential limitations of the employed ADC(2) approach are briefly discussed.
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Affiliation(s)
- Rafał Szabla
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic.
| | - Robert W Góra
- Department of Physical and Quantum Chemistry, Faculty of Chemistry, Wrocław University of Technology, Wybrzeże Wyspiańskiego 27, 50-370 Wrocław, Poland.
| | - Jiří Šponer
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic. and CEITEC-Central European Institute of Technology, Masaryk University, Campus Bohunice, Kamenice 5, CZ-62500 Brno, Czech Republic
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146
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Dommett M, Crespo-Otero R. Excited state proton transfer in 2'-hydroxychalcone derivatives. Phys Chem Chem Phys 2018; 19:2409-2416. [PMID: 28058421 DOI: 10.1039/c6cp07541j] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Fluorophores exhibiting excited-state intramolecular proton transfer (ESIPT) are promising candidates for applications ranging from imaging and probing to laser dyes, optoelectronic devices and molecular logic gates. Recently, ESIPT-active solid-state emitters based on 2'-hydroxychalcone have been synthesized. The compounds are almost non-emissive in solution but emit in the deep red/NIR region when crystalline. Herein, we present a comprehensive theoretical investigation of the gas-phase excited state relaxation pathways in five 2'-hydroxychalcone systems, using a combination of static and non-adiabatic simulations. We identify two competing non-radiative relaxation channels, driven by intramolecular rotation in the enol and keto excited states. Both mechanisms are accessible for the five compounds studied and their relative population depends on the nature of the substituent. The addition of electron-donating substituents greatly increases the propensity of the ESIPT pathway versus rotation in the enol state. The identification of the fundamental relaxation mechanisms is the first step towards understanding the aggregated emission phonomena of these compounds.
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Affiliation(s)
- Michael Dommett
- School of Biological and Chemical Sciences, Materials Research Institute, Queen Mary University of London, Mile End Road, London E1 4NS, UK.
| | - Rachel Crespo-Otero
- School of Biological and Chemical Sciences, Materials Research Institute, Queen Mary University of London, Mile End Road, London E1 4NS, UK.
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147
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Peng WT, Fales BS, Shu Y, Levine BG. Dynamics of recombination via conical intersection in a semiconductor nanocrystal. Chem Sci 2018; 9:681-687. [PMID: 29629136 PMCID: PMC5869574 DOI: 10.1039/c7sc04221c] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2017] [Accepted: 11/13/2017] [Indexed: 12/17/2022] Open
Abstract
Conical intersections are well known to introduce nonradiative decay pathways in molecules, but have only recently been implicated in nonradiative recombination processes in materials. Here we apply excited state ab initio molecular dynamics simulations based on a multireference description of the electronic structure to defective silicon nanocrystals up to 1.7 nm in diameter to search for accessible nonradiative recombination pathways. Dangling bond defects are found to induce conical intersections between the ground and first excited electronic states of five systems of various sizes. These defect-induced conical intersections are accessible at energies that are in the visible range (2.4-2.7 eV) and very weakly dependent on particle size. The dynamic simulations suggest that these intersections are accessed 40-60 fs after creation of a defect-localized excitation. This ultrafast recombination is attributed to the fact that Jahn-Teller distortion on the first excited state drives the defect directly towards a conical intersection with the ground electronic state.
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Affiliation(s)
- Wei-Tao Peng
- Department of Chemistry , Michigan State University , East Lansing , MI 48824 , USA .
| | - B Scott Fales
- Department of Chemistry , The PULSE Institute , Stanford University , Stanford , CA 94305 , USA.,SLAC National Accelerator Laboratory , Menlo Park , CA 94025 , USA
| | - Yinan Shu
- Department of Chemistry , University of Minnesota , Minneapolis , MN 55455 , USA
| | - Benjamin G Levine
- Department of Chemistry , Michigan State University , East Lansing , MI 48824 , USA .
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148
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Squibb RJ, Sapunar M, Ponzi A, Richter R, Kivimäki A, Plekan O, Finetti P, Sisourat N, Zhaunerchyk V, Marchenko T, Journel L, Guillemin R, Cucini R, Coreno M, Grazioli C, Di Fraia M, Callegari C, Prince KC, Decleva P, Simon M, Eland JHD, Došlić N, Feifel R, Piancastelli MN. Acetylacetone photodynamics at a seeded free-electron laser. Nat Commun 2018; 9:63. [PMID: 29302026 PMCID: PMC5754354 DOI: 10.1038/s41467-017-02478-0] [Citation(s) in RCA: 42] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2017] [Accepted: 12/04/2017] [Indexed: 11/30/2022] Open
Abstract
The first steps in photochemical processes, such as photosynthesis or animal vision, involve changes in electronic and geometric structure on extremely short time scales. Time-resolved photoelectron spectroscopy is a natural way to measure such changes, but has been hindered hitherto by limitations of available pulsed light sources in the vacuum-ultraviolet and soft X-ray spectral region, which have insufficient resolution in time and energy simultaneously. The unique combination of intensity, energy resolution, and femtosecond pulse duration of the FERMI-seeded free-electron laser can now provide exceptionally detailed information on photoexcitation–deexcitation and fragmentation in pump-probe experiments on the 50-femtosecond time scale. For the prototypical system acetylacetone we report here electron spectra measured as a function of time delay with enough spectral and time resolution to follow several photoexcited species through well-characterized individual steps, interpreted using state-of-the-art static and dynamics calculations. These results open the way for investigations of photochemical processes in unprecedented detail. The first steps in photochemical processes involve changes in electronic and geometric structure on extremely short timescales. Here, the authors report femtosecond dynamics in prototypical acetylacetone, by pump-probe photoexcitation-photoemission experiments and static and dynamics calculations.
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Affiliation(s)
- R J Squibb
- Department of Physics, University of Gothenburg, Origovägen 6B, SE-412 96, Gothenburg, Sweden
| | - M Sapunar
- Institut Ruđer Bošković, Bijenička cesta 54, 10000, Zagreb, Croatia
| | - A Ponzi
- Institut Ruđer Bošković, Bijenička cesta 54, 10000, Zagreb, Croatia
| | - R Richter
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy
| | - A Kivimäki
- Consiglio Nazionale delle Ricerche-Istituto Officina dei Materiali, 34149, Trieste, Italy
| | - O Plekan
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy
| | - P Finetti
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy
| | - N Sisourat
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7614, Laboratoire de Chimie Physique-Matière et Rayonnement, 75005, Paris Cedex 05, France
| | - V Zhaunerchyk
- Department of Physics, University of Gothenburg, Origovägen 6B, SE-412 96, Gothenburg, Sweden
| | - T Marchenko
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7614, Laboratoire de Chimie Physique-Matière et Rayonnement, 75005, Paris Cedex 05, France
| | - L Journel
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7614, Laboratoire de Chimie Physique-Matière et Rayonnement, 75005, Paris Cedex 05, France
| | - R Guillemin
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7614, Laboratoire de Chimie Physique-Matière et Rayonnement, 75005, Paris Cedex 05, France
| | - R Cucini
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy
| | - M Coreno
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy.,Consiglio Nazionale delle Ricerche - Istituto di Struttura della Materia, LD2 unit, 34149, Trieste, Italy
| | - C Grazioli
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy.,Consiglio Nazionale delle Ricerche - Istituto di Struttura della Materia, LD2 unit, 34149, Trieste, Italy
| | - M Di Fraia
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy.,Consiglio Nazionale delle Ricerche - Istituto di Struttura della Materia, LD2 unit, 34149, Trieste, Italy
| | - C Callegari
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy.,Consiglio Nazionale delle Ricerche - Istituto di Struttura della Materia, LD2 unit, 34149, Trieste, Italy
| | - K C Prince
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5, 34149, Basovizza, Trieste, Italy.,Molecular Model Discovery Laboratory, Department of Chemistry and Biotechnology, Swinburne University of Technology, Melbourne, VIC, 3122, Australia
| | - P Decleva
- Consiglio Nazionale delle Ricerche-Istituto Officina dei Materiali, 34149, Trieste, Italy.,Dipartimento di Scienze Chimiche e Farmaceutiche, Universitá di Trieste, 34127, Trieste, Italy
| | - M Simon
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7614, Laboratoire de Chimie Physique-Matière et Rayonnement, 75005, Paris Cedex 05, France
| | - J H D Eland
- Department of Physics, University of Gothenburg, Origovägen 6B, SE-412 96, Gothenburg, Sweden.,Department of Chemistry, Physical and Theoretical Chemistry Laboratory, Oxford University, South Parks Road, Oxford, OX1 3QZ, UK
| | - N Došlić
- Institut Ruđer Bošković, Bijenička cesta 54, 10000, Zagreb, Croatia
| | - R Feifel
- Department of Physics, University of Gothenburg, Origovägen 6B, SE-412 96, Gothenburg, Sweden
| | - M N Piancastelli
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 7614, Laboratoire de Chimie Physique-Matière et Rayonnement, 75005, Paris Cedex 05, France. .,Department of Physics and Astronomy, Uppsala University, SE-751 20, Uppsala, Sweden.
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149
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Bai S, Barbatti M. Mechanism of enhanced triplet decay of thionucleobase by glycosylation and rate-modulating strategies. Phys Chem Chem Phys 2018; 20:16428-16436. [DOI: 10.1039/c8cp02306a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Functionalization of the sugar group can be used to control the triplet decay rate of thionucleosides.
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150
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Harabuchi Y, Saita K, Maeda S. Exploring radiative and nonradiative decay paths in indole, isoindole, quinoline, and isoquinoline. Photochem Photobiol Sci 2018; 17:315-322. [DOI: 10.1039/c7pp00385d] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Radiative and nonradiative decay paths from the first excited singlet electronic state (S1) in four heteroaromatics, indole, isoindole, quinoline, and isoquinoline, were systematically explored.
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Affiliation(s)
- Yu Harabuchi
- Department of Chemistry
- Faculty of Science
- Hokkaido University
- Sapporo 060-0810
- Japan
| | - Kenichiro Saita
- Department of Chemistry
- Faculty of Science
- Hokkaido University
- Sapporo 060-0810
- Japan
| | - Satoshi Maeda
- Department of Chemistry
- Faculty of Science
- Hokkaido University
- Sapporo 060-0810
- Japan
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