1
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Curchod BFE, Orr-Ewing AJ. Perspective on Theoretical and Experimental Advances in Atmospheric Photochemistry. J Phys Chem A 2024. [PMID: 39021090 DOI: 10.1021/acs.jpca.4c03481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/20/2024]
Abstract
Research that explores the chemistry of Earth's atmosphere is central to the current understanding of global challenges such as climate change, stratospheric ozone depletion, and poor air quality in urban areas. This research is a synergistic combination of three established domains: earth observation, for example, using satellites, and in situ field measurements; computer modeling of the atmosphere and its chemistry; and laboratory measurements of the properties and reactivity of gas-phase molecules and aerosol particles. The complexity of the interconnected chemical and photochemical reactions which determine the composition of the atmosphere challenges the capacity of laboratory studies to provide the spectroscopic, photochemical, and kinetic data required for computer models. Here, we consider whether predictions from computational chemistry using modern electronic structure theory and nonadiabatic dynamics simulations are becoming sufficiently accurate to supplement quantitative laboratory data for wavelength-dependent absorption cross-sections, photochemical quantum yields, and reaction rate coefficients. Drawing on presentations and discussions from the CECAM workshop on Theoretical and Experimental Advances in Atmospheric Photochemistry held in March 2024, we describe key concepts in the theory of photochemistry, survey the state-of-the-art in computational photochemistry methods, and compare their capabilities with modern experimental laboratory techniques. From such considerations, we offer a perspective on the scope of computational (photo)chemistry methods based on rigorous electronic structure theory to become a fourth core domain of research in atmospheric chemistry.
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2
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Titov E. The Role of Double Excitations in Exciton Dynamics of Multiazobenzenes: Trisazobenzenophane as a Test Case. J Phys Chem Lett 2024:7482-7488. [PMID: 39011968 DOI: 10.1021/acs.jpclett.4c01608] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/17/2024]
Abstract
Molecular exciton dynamics underlie energy and charge transfer processes in organic multichromophoric systems. A particularly interesting class of the latter is multiphotochromic systems made of molecules capable of photochemical transformations. Exciton dynamics in assemblies of photoswitches have been recently investigated using either the molecular exciton model or supermolecular configuration interaction (CI) singles, both approaches being based on a semiempirical Hamiltonian and combined with surface hopping molecular dynamics. Here, we study how inclusion of double excitations in nonadiabatic dynamics simulations affects exciton dynamics of multiazobenzenes, using trisazobenzenophane as an example. We find that both CI singles and CI singles and doubles yield virtually the same time scale of dynamical exciton localization, ∼50 fs for the studied multiazobenzene. However, inclusion of double excitations considerably affects the excited state lifetimes and isomerization quantum yields.
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Affiliation(s)
- Evgenii Titov
- University of Potsdam, Institute of Chemistry, Theoretical Chemistry, Karl-Liebknecht-Straße 24-25, 14476 Potsdam, Germany
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3
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Salazar EX, Menger MFSJ, Faraji S. Ultrafast Photoinduced Dynamics in 1,3-Cyclohexadiene: A Comparison of Trajectory Surface Hopping Schemes†. J Chem Theory Comput 2024. [PMID: 38949625 DOI: 10.1021/acs.jctc.4c00012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/02/2024]
Abstract
Photoinduced nonadiabatic processes play a crucial role in a wide range of disciplines, from fundamental steps in biology to modern applications in advanced materials science. A theoretical understanding of these processes is highly desirable, and trajectory surface hopping (TSH) has proven to be a well-suited framework for a wide range of systems. In this work, we present a comprehensive comparison between two TSH algorithms, the conventional Tully's fewest switches surface hopping (FSSH) scheme and the Landau-Zener surface hopping (LZSH), to study the photoinduced ring-opening of 1,3-cyclohexadiene (CHD) to 1,3,5-hexatriene at the spin-flip time-dependent density functional theory (SF-TDDFT) level of theory. Additionally, we compare our results with a literature study at the extended multistate complete active space second-order perturbation theory method (XMS-CASPT2) level of theory. Our results show that the average population and lifetimes estimated with LZSH using SF-TDDFT are closer to the literature (using multireference methods) than those estimated with FSSH using SF-TDDFT. The latter speaks in favor of applying LZSH in combination with the SF-TDDFT method to study larger and more complex systems such as molecular photoswitches where the CHD molecule acts as a backbone. In addition, we present an implementation of Tully's FSSH algorithm as an extension to the PySurf software package.
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Affiliation(s)
- Edison X Salazar
- Instituut-Lorentz, Universiteit Leiden, 2300 RA Leiden, The Netherlands
- Theoretical Chemistry, Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Maximilian F S J Menger
- Theoretical Chemistry, Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
- Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, 69120 Heidelberg, Germany
| | - Shirin Faraji
- Theoretical Chemistry, Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
- Institute of Theoretical and Computational Chemistry, Faculty of Mathematics and Natural Sciences, Heinrich Heine University Düsseldorf, 40225 Düsseldorf, Germany
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4
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Zhang L, Pios SV, Martyka M, Ge F, Hou YF, Chen Y, Chen L, Jankowska J, Barbatti M, Dral PO. MLatom Software Ecosystem for Surface Hopping Dynamics in Python with Quantum Mechanical and Machine Learning Methods. J Chem Theory Comput 2024; 20:5043-5057. [PMID: 38836623 DOI: 10.1021/acs.jctc.4c00468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2024]
Abstract
We present an open-source MLatom@XACS software ecosystem for on-the-fly surface hopping nonadiabatic dynamics based on the Landau-Zener-Belyaev-Lebedev algorithm. The dynamics can be performed via Python API with a wide range of quantum mechanical (QM) and machine learning (ML) methods, including ab initio QM (CASSCF and ADC(2)), semiempirical QM methods (e.g., AM1, PM3, OMx, and ODMx), and many types of ML potentials (e.g., KREG, ANI, and MACE). Combinations of QM and ML methods can also be used. While the user can build their own combinations, we provide AIQM1, which is based on Δ-learning and can be used out-of-the-box. We showcase how AIQM1 reproduces the isomerization quantum yield of trans-azobenzene at a low cost. We provide example scripts that, in dozens of lines, enable the user to obtain the final population plots by simply providing the initial geometry of a molecule. Thus, those scripts perform geometry optimization, normal mode calculations, initial condition sampling, parallel trajectories propagation, population analysis, and final result plotting. Given the capabilities of MLatom to be used for training different ML models, this ecosystem can be seamlessly integrated into the protocols building ML models for nonadiabatic dynamics. In the future, a deeper and more efficient integration of MLatom with Newton-X will enable a vast range of functionalities for surface hopping dynamics, such as fewest-switches surface hopping, to facilitate similar workflows via the Python API.
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Affiliation(s)
- Lina Zhang
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian 361005, China
| | - Sebastian V Pios
- Zhejiang Laboratory, Hangzhou, Zhejiang 311100, People's Republic of China
| | - Mikołaj Martyka
- Faculty of Chemistry, University of Warsaw, Pasteura 1, Warsaw 02-093, Poland
| | - Fuchun Ge
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian 361005, China
| | - Yi-Fan Hou
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian 361005, China
| | - Yuxinxin Chen
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian 361005, China
| | - Lipeng Chen
- Zhejiang Laboratory, Hangzhou, Zhejiang 311100, People's Republic of China
| | - Joanna Jankowska
- Faculty of Chemistry, University of Warsaw, Pasteura 1, Warsaw 02-093, Poland
| | - Mario Barbatti
- Aix Marseille University, CNRS, ICR, Marseille 13397, France
- Institut Universitaire de France, Paris 75231, France
| | - Pavlo O Dral
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian 361005, China
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Xiamen University, Xiamen, Fujian 361005, China
- Innovation Laboratory for Sciences and Technologies of Energy Materials of Fujian Province (IKKEM), Xiamen University, Xiamen, Fujian 361005, China
- Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry, Xiamen, Fujian 361005, China
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5
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Huang H, Peng J, Zhang Y, Gu FL, Lan Z, Xu C. The development of the QM/MM interface and its application for the on-the-fly QM/MM nonadiabatic dynamics in JADE package: Theory, implementation, and applications. J Chem Phys 2024; 160:234101. [PMID: 38884395 DOI: 10.1063/5.0215036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Accepted: 05/15/2024] [Indexed: 06/18/2024] Open
Abstract
Understanding the nonadiabatic dynamics of complex systems is a challenging task in computational photochemistry. Herein, we present an efficient and user-friendly quantum mechanics/molecular mechanics (QM/MM) interface to run on-the-fly nonadiabatic dynamics. Currently, this interface consists of an independent set of codes designed for general-purpose use. Herein, we demonstrate the ability and feasibility of the QM/MM interface by integrating it with our long-term developed JADE package. Tailored to handle nonadiabatic processes in various complex systems, especially condensed phases and protein environments, we delve into the theories, implementations, and applications of on-the-fly QM/MM nonadiabatic dynamics. The QM/MM approach is established within the framework of the additive QM/MM scheme, employing electrostatic embedding, link-atom inclusion, and charge-redistribution schemes to treat the QM/MM boundary. Trajectory surface-hopping dynamics are facilitated using the fewest switches algorithm, encompassing classical and quantum treatments for nuclear and electronic motions, respectively. Finally, we report simulations of nonadiabatic dynamics for two typical systems: azomethane in water and the retinal chromophore PSB3 in a protein environment. Our results not only illustrate the power of the QM/MM program but also reveal the important roles of environmental factors in nonadiabatic processes.
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Affiliation(s)
- Haiyi Huang
- MOE Key Laboratory of Environmental Theoretical Chemistry and Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety, SCNU Environmental Research Institute, School of Environment, South China Normal University, Guangzhou 510006, China
- Center for Advanced Materials Research, Beijing Normal University, Zhuhai 519087, China
- MOE Key Laboratory of Theoretical and Computational Photochemistry, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Jiawei Peng
- MOE Key Laboratory of Environmental Theoretical Chemistry and Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety, SCNU Environmental Research Institute, School of Environment, South China Normal University, Guangzhou 510006, China
| | - Yulin Zhang
- MOE Key Laboratory of Environmental Theoretical Chemistry and Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety, SCNU Environmental Research Institute, School of Environment, South China Normal University, Guangzhou 510006, China
| | - Feng Long Gu
- MOE Key Laboratory of Environmental Theoretical Chemistry and Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety, SCNU Environmental Research Institute, School of Environment, South China Normal University, Guangzhou 510006, China
| | - Zhenggang Lan
- MOE Key Laboratory of Environmental Theoretical Chemistry and Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety, SCNU Environmental Research Institute, School of Environment, South China Normal University, Guangzhou 510006, China
| | - Chao Xu
- MOE Key Laboratory of Environmental Theoretical Chemistry and Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety, SCNU Environmental Research Institute, School of Environment, South China Normal University, Guangzhou 510006, China
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6
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Frassi D, Padula G, Granucci G. Photoisomerization of Spiropyran in Solution: A Surface Hopping Investigation. J Phys Chem B 2024; 128:5246-5253. [PMID: 38760327 DOI: 10.1021/acs.jpcb.4c00778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/19/2024]
Abstract
We performed a computational investigation of the photoisomerization of an unsubstituted spiropyran in solution using surface hopping molecular dynamics simulations in a semiempirical framework. To bring out the solvent effects on the excited state dynamics, we have run simulations in three different environments: chloroform, methanol, and ethylene glycol. We show that the interaction with a moderately polar solvent such as chloroform has little effect on the dynamics when compared to vacuum results previously obtained by our group. At variance, the interaction with the protic solvents considered considerably affects the reaction mechanism, the quantum yield, and the excited state lifetimes.
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Affiliation(s)
- Dario Frassi
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
| | - Giancarlo Padula
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
| | - Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
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7
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Kang M, Nuomin H, Chowdhury SN, Yuly JL, Sun K, Whitlow J, Valdiviezo J, Zhang Z, Zhang P, Beratan DN, Brown KR. Seeking a quantum advantage with trapped-ion quantum simulations of condensed-phase chemical dynamics. Nat Rev Chem 2024; 8:340-358. [PMID: 38641733 DOI: 10.1038/s41570-024-00595-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/07/2024] [Indexed: 04/21/2024]
Abstract
Simulating the quantum dynamics of molecules in the condensed phase represents a longstanding challenge in chemistry. Trapped-ion quantum systems may serve as a platform for the analog-quantum simulation of chemical dynamics that is beyond the reach of current classical-digital simulation. To identify a 'quantum advantage' for these simulations, performance analysis of both analog-quantum simulation on noisy hardware and classical-digital algorithms is needed. In this Review, we make a comparison between a noisy analog trapped-ion simulator and a few choice classical-digital methods on simulating the dynamics of a model molecular Hamiltonian with linear vibronic coupling. We describe several simple Hamiltonians that are commonly used to model molecular systems, which can be simulated with existing or emerging trapped-ion hardware. These Hamiltonians may serve as stepping stones towards the use of trapped-ion simulators for systems beyond the reach of classical-digital methods. Finally, we identify dynamical regimes in which classical-digital simulations seem to have the weakest performance with respect to analog-quantum simulations. These regimes may provide the lowest hanging fruit to make the most of potential quantum advantages.
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Affiliation(s)
- Mingyu Kang
- Duke Quantum Center, Duke University, Durham, NC, USA.
- Department of Physics, Duke University, Durham, NC, USA.
| | - Hanggai Nuomin
- Department of Chemistry, Duke University, Durham, NC, USA
| | | | - Jonathon L Yuly
- Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA
| | - Ke Sun
- Duke Quantum Center, Duke University, Durham, NC, USA
- Department of Physics, Duke University, Durham, NC, USA
| | - Jacob Whitlow
- Duke Quantum Center, Duke University, Durham, NC, USA
- Department of Electrical and Computer Engineering, Duke University, Durham, NC, USA
| | - Jesús Valdiviezo
- Kenneth S. Pitzer Theory Center, University of California, Berkeley, CA, USA
- Department of Chemistry, University of California, Berkeley, CA, USA
- Departamento de Ciencias, Sección Química, Pontificia Universidad Católica del Perú, Lima, Peru
| | - Zhendian Zhang
- Department of Chemistry, Duke University, Durham, NC, USA
| | - Peng Zhang
- Department of Chemistry, Duke University, Durham, NC, USA
| | - David N Beratan
- Department of Physics, Duke University, Durham, NC, USA.
- Department of Chemistry, Duke University, Durham, NC, USA.
- Department of Biochemistry, Duke University, Durham, NC, USA.
| | - Kenneth R Brown
- Duke Quantum Center, Duke University, Durham, NC, USA.
- Department of Physics, Duke University, Durham, NC, USA.
- Department of Chemistry, Duke University, Durham, NC, USA.
- Department of Electrical and Computer Engineering, Duke University, Durham, NC, USA.
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8
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Janoš J, Figueira Nunes JP, Hollas D, Slavíček P, Curchod BFE. Predicting the photodynamics of cyclobutanone triggered by a laser pulse at 200 nm and its MeV-UED signals-A trajectory surface hopping and XMS-CASPT2 perspective. J Chem Phys 2024; 160:144305. [PMID: 38591685 DOI: 10.1063/5.0203105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Accepted: 03/14/2024] [Indexed: 04/10/2024] Open
Abstract
This work is part of a prediction challenge that invited theoretical/computational chemists to predict the photochemistry of cyclobutanone in the gas phase, excited at 200 nm by a laser pulse, and the expected signal that will be recorded during a time-resolved megaelectronvolt ultrafast electron diffraction (MeV-UED). We present here our theoretical predictions based on a combination of trajectory surface hopping with XMS-CASPT2 (for the nonadiabatic molecular dynamics) and Born-Oppenheimer molecular dynamics with MP2 (for the athermal ground-state dynamics following internal conversion), coined (NA+BO)MD. The initial conditions were sampled from Born-Oppenheimer molecular dynamics coupled to a quantum thermostat. Our simulations indicate that the main photoproducts after 2 ps of dynamics are CO + cyclopropane (50%), CO + propene (10%), and ethene and ketene (34%). The photoexcited cyclobutanone in its second excited electronic state S2 can follow two pathways for its nonradiative decay: (i) a ring-opening in S2 and a subsequent rapid decay to the ground electronic state, where the photoproducts are formed, or (ii) a transfer through a closed-ring conical intersection to S1, where cyclobutanone ring opens and then funnels to the ground state. Lifetimes for the photoproduct and electronic populations were determined. We calculated a stationary MeV-UED signal [difference pair distribution function-ΔPDF(r)] for each (interpolated) pathway as well as a time-resolved signal [ΔPDF(r,t) and ΔI/I(s,t)] for the full swarm of (NA+BO)MD trajectories. Furthermore, our analysis provides time-independent basis functions that can be used to fit the time-dependent experimental UED signals [both ΔPDF(r,t) and ΔI/I(s,t)] and potentially recover the population of photoproducts. We also offer a detailed analysis of the limitations of our model and their potential impact on the predicted experimental signals.
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Affiliation(s)
- Jiří Janoš
- Department of Physical Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
- Centre for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | | | - Daniel Hollas
- Centre for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Petr Slavíček
- Department of Physical Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
| | - Basile F E Curchod
- Centre for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
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9
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Salvadori G, Mazzeo P, Accomasso D, Cupellini L, Mennucci B. Deciphering Photoreceptors Through Atomistic Modeling from Light Absorption to Conformational Response. J Mol Biol 2024; 436:168358. [PMID: 37944793 DOI: 10.1016/j.jmb.2023.168358] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Revised: 10/28/2023] [Accepted: 11/02/2023] [Indexed: 11/12/2023]
Abstract
In this review, we discuss the successes and challenges of the atomistic modeling of photoreceptors. Throughout our presentation, we integrate explanations of the primary methodological approaches, ranging from quantum mechanical descriptions to classical enhanced sampling methods, all while providing illustrative examples of their practical application to specific systems. To enhance the effectiveness of our analysis, our primary focus has been directed towards the examination of applications across three distinct photoreceptors. These include an example of Blue Light-Using Flavin (BLUF) domains, a bacteriophytochrome, and the orange carotenoid protein (OCP) employed by cyanobacteria for photoprotection. Particular emphasis will be placed on the pivotal role played by the protein matrix in fine-tuning the initial photochemical event within the embedded chromophore. Furthermore, we will investigate how this localized perturbation initiates a cascade of events propagating from the binding pocket throughout the entire protein structure, thanks to the intricate network of interactions between the chromophore and the protein.
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Affiliation(s)
- Giacomo Salvadori
- Department of Chemistry and Industrial Chemistry, University of Pisa, 56124 Pisa, Italy
| | - Patrizia Mazzeo
- Department of Chemistry and Industrial Chemistry, University of Pisa, 56124 Pisa, Italy
| | - Davide Accomasso
- Department of Chemistry and Industrial Chemistry, University of Pisa, 56124 Pisa, Italy
| | - Lorenzo Cupellini
- Department of Chemistry and Industrial Chemistry, University of Pisa, 56124 Pisa, Italy
| | - Benedetta Mennucci
- Department of Chemistry and Industrial Chemistry, University of Pisa, 56124 Pisa, Italy
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10
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Marsili E, Curchod BFE. A Theoretical Perspective on the Photochemistry of Boron-Nitrogen Lewis Adducts. J Phys Chem A 2024; 128:996-1008. [PMID: 38236050 PMCID: PMC10875676 DOI: 10.1021/acs.jpca.3c07016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Revised: 01/02/2024] [Accepted: 01/04/2024] [Indexed: 01/19/2024]
Abstract
Boron-Nitrogen (B-N) Lewis adducts form a versatile family of compounds with numerous applications in functional molecules. Despite the growing interest in this family of compounds for optoelectronic applications, little is currently known about their photophysics and photochemistry. Even the electronic absorption spectrum of ammonia borane, the textbook example of a B-N Lewis adduct, is unavailable. Given the versatility of the light-induced processes exhibited by these molecules, we propose in this work a detailed theoretical study of the photochemistry and photophysics of simple B-N Lewis adducts. We used advanced techniques in computational photochemistry to identify and characterize the possible photochemical pathways followed by ammonia borane and extended this knowledge to the substituted B-N Lewis adducts pyridine-borane and pyridine-boric acid. The photochemistry observed for this series of molecules allows us to extract qualitative rules to rationalize the light-induced behavior of more complex B-N-containing molecules.
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Affiliation(s)
- Emanuele Marsili
- Centre for Computational Chemistry,
School of Chemistry, University of Bristol, Bristol BS8 1TS, U.K.
| | - Basile F. E. Curchod
- Centre for Computational Chemistry,
School of Chemistry, University of Bristol, Bristol BS8 1TS, U.K.
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11
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Pedraza-González L, Accomasso D, Cupellini L, Granucci G, Mennucci B. Ultrafast excited-state dynamics of Luteins in the major light-harvesting complex LHCII. Photochem Photobiol Sci 2024; 23:303-314. [PMID: 38151602 DOI: 10.1007/s43630-023-00518-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 11/23/2023] [Indexed: 12/29/2023]
Abstract
Carotenoid pigments are known to present a functional versatility when bound to light-harvesting complexes. This versatility originates from a strong correlation between a complex electronic structure and a flexible geometry that is easily tunable by the surrounding protein environment. Here, we investigated how the different L1 and L2 sites of the major trimeric light-harvesting complex (LHCII) of green plants tune the electronic structure of the two embedded luteins, and how this reflects on their ultrafast dynamics upon excitation. By combining molecular dynamics and quantum mechanics/molecular mechanics calculations, we found that the two luteins feature a different conformation around the second dihedral angle in the lumenal side. The s-cis preference of the lutein in site L2 allows for a more planar geometry of the π -conjugated backbone, which results in an increased degree of delocalization and a reduced excitation energy, explaining the experimentally observed red shift. Despite these remarkable differences, according to surface hopping simulations the two luteins present analogous ultrafast dynamics upon excitation: the bright S 2 state quickly decays (in ∼ 50 fs) to the dark intermediate S x , eventually ending up in the S 1 state. Furthermore, by employing two different theoretical approaches (i.e., Förster theory and an excitonic version of surface hopping), we investigated the experimentally debated energy transfer between the two luteins. With both approaches, no evident energy transfer was observed in the ultrafast timescale.
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Affiliation(s)
- Laura Pedraza-González
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124, Pisa, Italy
| | - Davide Accomasso
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124, Pisa, Italy
| | - Lorenzo Cupellini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124, Pisa, Italy
| | - Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124, Pisa, Italy
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124, Pisa, Italy.
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12
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Pieroni C, Sangiogo Gil E, Ibele LM, Persico M, Granucci G, Agostini F. Investigating the Photodynamics of trans-Azobenzene with Coupled Trajectories. J Chem Theory Comput 2024; 20:580-596. [PMID: 38177105 DOI: 10.1021/acs.jctc.3c00978] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2024]
Abstract
In this work, we present the first implementation of coupled-trajectory Tully surface hopping (CT-TSH) suitable for applications to molecular systems. We combine CT-TSH with the semiempirical floating occupation molecular orbital-configuration interaction electronic structure method to investigate the photoisomerization dynamics of trans-azobenzene. Our study shows that CT-TSH can capture correctly decoherence effects in this system, yielding consistent electronic and nuclear dynamics in agreement with (standard) decoherence-corrected TSH. Specifically, CT-TSH is derived from the exact factorization and the electronic coefficients' evolution is directly influenced by the coupling of trajectories, resulting in the improvement of internal consistency if compared to standard TSH.
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Affiliation(s)
- Carlotta Pieroni
- CNRS, Institut de Chimie Physique UMR8000, Université Paris-Saclay, 91405 Orsay, France
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Eduarda Sangiogo Gil
- CNRS, Institut de Chimie Physique UMR8000, Université Paris-Saclay, 91405 Orsay, France
| | - Lea M Ibele
- CNRS, Institut de Chimie Physique UMR8000, Université Paris-Saclay, 91405 Orsay, France
| | - Maurizio Persico
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Federica Agostini
- CNRS, Institut de Chimie Physique UMR8000, Université Paris-Saclay, 91405 Orsay, France
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13
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Huang DM, Green AT, Martens CC. A first principles derivation of energy-conserving momentum jumps in surface hopping simulations. J Chem Phys 2023; 159:214108. [PMID: 38047505 DOI: 10.1063/5.0178534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Accepted: 11/06/2023] [Indexed: 12/05/2023] Open
Abstract
The fewest switches surface hopping (FSSH) method proposed by Tully in 1990 [Tully, J. Chem. Phys. 93, 1061 (1990)]-along with its many later variations-forms the basis for most practical simulations of molecular dynamics with electronic transitions in realistic systems. Despite its popularity, a rigorous formal derivation of the algorithm has yet to be achieved. In this paper, we derive the energy-conserving momentum jumps employed by FSSH from the perspective of quantum trajectory surface hopping (QTSH) [Martens, J. Phys. Chem. A 123, 1110 (2019)]. In the limit of localized nonadiabatic transitions, simple mathematical and physical arguments allow the FSSH algorithm to be derived from first principles. For general processes, the quantum forces characterizing the QTSH method provide accurate results for nonadiabatic dynamics with rigorous energy conservation, at the ensemble level, within the consistency of the underlying stochastic surface hopping without resorting to the artificial momentum rescaling of FSSH.
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Affiliation(s)
| | - Austin T Green
- University of California, Irvine, California 92697-2025, USA
| | - Craig C Martens
- University of California, Irvine, California 92697-2025, USA
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14
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Arcidiacono A, Accomasso D, Cupellini L, Mennucci B. How orange carotenoid protein controls the excited state dynamics of canthaxanthin. Chem Sci 2023; 14:11158-11169. [PMID: 37860660 PMCID: PMC10583711 DOI: 10.1039/d3sc02662k] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2023] [Accepted: 09/21/2023] [Indexed: 10/21/2023] Open
Abstract
Orange Carotenoid Protein (OCP) is a ketocarotenoid-binding protein essential for photoprotection in cyanobacteria. The main steps of the photoactivated conversion which converts OCP from its resting state to the active one have been extensively investigated. However, the initial photochemical event in the ketocarotenoid which triggers the large structural changes finally leading to the active state is still not understood. Here we employ QM/MM surface hopping nonadiabatic dynamics to investigate the excited-state decay of canthaxanthin in OCP, both in the ultrafast S2 to S1 internal conversion and the slower decay leading back to the ground state. For the former step we show the involvement of an additional excited state, which in the literature has been often named the SX state, and we characterize its nature. For the latter step, we reveal an excited state decay characterized by multiple timescales, which are related to the ground-state conformational heterogeneity of the ketocarotenoid. We assigned the slowly decaying population to the so-called S* state. Finally, we identify a minor decay pathway involving double-bond photoisomerization, which could be the initial trigger to photoactivation of OCP.
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Affiliation(s)
- Amanda Arcidiacono
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa Via G. Moruzzi 13 56124 Pisa Italy
| | - Davide Accomasso
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa Via G. Moruzzi 13 56124 Pisa Italy
| | - Lorenzo Cupellini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa Via G. Moruzzi 13 56124 Pisa Italy
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa Via G. Moruzzi 13 56124 Pisa Italy
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15
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Issler K, Mitrić R, Petersen J. HORTENSIA, a program package for the simulation of nonadiabatic autoionization dynamics in molecules. J Chem Phys 2023; 159:134801. [PMID: 37787145 DOI: 10.1063/5.0167412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Accepted: 09/11/2023] [Indexed: 10/04/2023] Open
Abstract
We present a program package for the simulation of ultrafast vibration-induced autoionization dynamics in molecular anions in the manifold of the adiabatic anionic states and the discretized ionization continuum. This program, called HORTENSIA (Hopping Real-time Trajectories for Electron-ejection by Nonadiabatic Self-Ionization in Anions), is based on the nonadiabatic surface-hopping methodology, wherein nuclei are propagated as an ensemble along classical trajectories in the quantum-mechanical potential created by the electronic density of the molecular system. The electronic Schrödinger equation is numerically integrated along the trajectory, providing the time evolution of electronic state coefficients, from which switching probabilities into discrete electronic states are determined. In the case of a discretized continuum state, this hopping event is interpreted as the ejection on an electron. The derived diabatic and nonadiabatic couplings in the time-dependent electronic Schrödinger equation are calculated from anionic and neutral wavefunctions obtained from quantum-chemical calculations with commercially available program packages interfaced with our program. Based on this methodology, we demonstrate the simulation of autoionization electron kinetic energy spectra that are both time- and angle-resolved. In addition, the program yields data that can be interpreted easily with respect to geometric characteristics, such as bonding distances and angles, which facilitate the detection of molecular configurations important for the autoionization process. Furthermore, several useful extensions are included, namely, tools for the generation of initial conditions and input files as well as for the evaluation of output files, all of this both through console commands and a graphical user interface.
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Affiliation(s)
- Kevin Issler
- Julius-Maximilians-Universität Würzburg, Institut für Physikalische und Theoretische Chemie, Emil-Fischer-Str. 42, 97074 Würzburg, Germany
| | - Roland Mitrić
- Julius-Maximilians-Universität Würzburg, Institut für Physikalische und Theoretische Chemie, Emil-Fischer-Str. 42, 97074 Würzburg, Germany
| | - Jens Petersen
- Julius-Maximilians-Universität Würzburg, Institut für Physikalische und Theoretische Chemie, Emil-Fischer-Str. 42, 97074 Würzburg, Germany
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16
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Scott M, Delcey MG. Complex Linear Response Functions for a Multiconfigurational Self-Consistent Field Wave Function in a High Performance Computing Environment. J Chem Theory Comput 2023; 19:5924-5937. [PMID: 37596971 PMCID: PMC10500980 DOI: 10.1021/acs.jctc.3c00317] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2023] [Indexed: 08/21/2023]
Abstract
We present novel developments for the highly efficient evaluation of complex linear response functions of a multiconfigurational self-consistent field (MCSCF) wave function as implemented in MultiPsi. Specifically, expressions for the direct evaluation of linear response properties at given frequencies using the complex polarization propagator (CPP) approach have been implemented, within both the Tamm-Dancoff approximation (TDA) and the random phase approximation (RPA). Purely real algebra with symmetric and antisymmetric trial vectors in a shared subspace is used wherein the linear response equations are solved. Two bottlenecks of large scale MC-CPP calculations, namely, the memory footprint and computational time, are addressed. The former is addressed by limiting the size of the subspace of trial vectors by using singular value decomposition (SVD) on either orbital or CI subspaces. The latter is addressed using an efficient parallel implementation as well as the strategy of dynamically adding linear response equations at near-convergence to neighboring roots. Furthermore, a novel methodology for decomposing MC-CPP spectra in terms of intuitive orbital excitations in an approximate fashion is presented. The performance of the code is illustrated with several numerical examples, including the X-ray spectrum of a molecule with nearly one hundred atoms. Additionally, for X-ray spectroscopy, the effect of including or excluding the core orbital in the active space on small covalent metal complexes is discussed.
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Affiliation(s)
- Mikael Scott
- Division
of Theoretical Chemistry and Biology, School of Engineering Sciences
in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden
| | - Mickael G. Delcey
- Division
of Theoretical Chemistry and Biology, School of Engineering Sciences
in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden
- Division
of Theoretical Chemistry, Department of Chemistry, Lund University, SE-221 00 Lund, Sweden
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17
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Prlj A, Hollas D, Curchod BFE. Deciphering the Influence of Ground-State Distributions on the Calculation of Photolysis Observables. J Phys Chem A 2023; 127:7400-7409. [PMID: 37556330 PMCID: PMC10493954 DOI: 10.1021/acs.jpca.3c02333] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2023] [Revised: 07/17/2023] [Indexed: 08/11/2023]
Abstract
Nonadiabatic molecular dynamics offers a powerful tool for studying the photochemistry of molecular systems. Key to any nonadiabatic molecular dynamics simulation is the definition of its initial conditions (ICs), ideally representing the initial molecular quantum state of the system of interest. In this work, we provide a detailed analysis of how ICs may influence the calculation of experimental observables by focusing on the photochemistry of methylhydroperoxide (MHP), the simplest and most abundant organic peroxide in our atmosphere. We investigate the outcome of trajectory surface hopping simulations for distinct sets of ICs sampled from different approximate quantum distributions, namely harmonic Wigner functions and ab initio molecular dynamics using a quantum thermostat (QT). Calculating photoabsorption cross-sections, quantum yields, and translational kinetic energy maps from the results of these simulations reveals the significant effect of the ICs, in particular when low-frequency (∼ a few hundred cm-1) normal modes are connected to the photophysics of the molecule. Overall, our results indicate that sampling ICs from ab initio molecular dynamics using a QT is preferable for flexible molecules with photoactive low-frequency modes. From a photochemical perspective, our nonadiabatic dynamics simulations offer an explanation for a low-energy tail observed at high excitation energy in the translational kinetic energy map of MHP.
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Affiliation(s)
- Antonio Prlj
- Centre
for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, U.K.
- Division
of Physical Chemistry, Ruđer Bošković
Institute, Zagreb 10000, Croatia
| | - Daniel Hollas
- Centre
for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, U.K.
| | - Basile F. E. Curchod
- Centre
for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, U.K.
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18
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Lassmann Y, Curchod BFE. Probing the sensitivity of ab initio multiple spawning to its parameters. Theor Chem Acc 2023; 142:66. [PMID: 37520272 PMCID: PMC10382418 DOI: 10.1007/s00214-023-03004-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Accepted: 07/13/2023] [Indexed: 08/01/2023]
Abstract
Full multiple spawning (FMS) offers a strategy to simulate the nonadiabatic dynamics of molecular systems by describing their nuclear wavefunctions by a linear combination of coupled trajectory basis functions (TBFs). Applying a series of controlled approximations to the full multiple spawning (FMS) equations leads to the ab initio multiple spawning (AIMS), which is compatible with an on-the-fly propagation of the TBFs and an accurate description of nonadiabatic processes. The AIMS strategy and its numerical implementations, however, rely on a series of user-defined parameters. Herein, we investigate the influence of these parameters on the electronic-state population of two molecular systems- trans-azomethane and a two-dimensional model of the butatriene cation. This work highlights the stability of AIMS with respect to most of its parameters, underlines the specific parameters that require particular attention from the user of the method, and offers prescriptions for an informed selection of their value. Supplementary Information The online version contains supplementary material available at 10.1007/s00214-023-03004-w.
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Affiliation(s)
- Yorick Lassmann
- Centre for Computational Chemistry, School of Chemistry, Cantock’s Close, University of Bristol, Bristol, BS8 1TS UK
| | - Basile F. E. Curchod
- Centre for Computational Chemistry, School of Chemistry, Cantock’s Close, University of Bristol, Bristol, BS8 1TS UK
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19
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Akher FB, Shu Y, Varga Z, Truhlar DG. Semiclassical Multistate Dynamics for Six Coupled 5A' States of O + O 2. J Chem Theory Comput 2023. [PMID: 37441750 DOI: 10.1021/acs.jctc.3c00517] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/15/2023]
Abstract
Dynamics simulations of high-energy O2-O collisions play an important role in simulating thermal energy content and heat flux in flows around hypersonic vehicles. To carry out such dynamics simulations efficiently requires accurate global potential energy surfaces and (in most algorithms) state couplings for many energetically accessible electronic states. The ability to treat collisions involving many coupled electronic states has been a challenge for decades. Very recently, a new diabatization method, the parametrically managed diabatization by deep neural network (PM-DDNN), has been developed. The PM-DDNN method uses a deep neural network architecture with an activation function parametrically dependent on input data to discover and fit the diabatic potential energy matrix (DPEM) as a function of geometry, and the adiabatic potential energy surfaces are obtained by diagonalization of a small matrix with analytic matrix elements. Here, we applied the PM-DDNN method to the six lowest-energy potential energy surfaces in the 5A' manifold of O3 to perform simultaneous diabatization and fitting; the data are obtained by extended multistate complete-active-space second-order perturbation theory. We then used the adiabatic surfaces for dynamics calculations with three methods: coherent switching with decay of mixing (CSDM), curvature-driven CSDM (κCSDM), and electronically curvature-driven CSDM (eκCSDM). The κCSDM calculations require only adiabatic potential energies and gradients. The three dynamical methods are in good agreement. We then calculated electronically nonadiabatic, electronically inelastic, and dissociative cross sections for seven initial collision energies, five initial vibrational levels, and four initial rotational levels. Trends in the electronically inelastic cross sections as functions of the initial collision energy and vibrational level were rationalized in terms of the coordinate ranges where the gaps between the second and third potential energy surfaces are small.
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Affiliation(s)
- Farideh Badichi Akher
- Department of Chemistry, Chemical Theory Center and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Yinan Shu
- Department of Chemistry, Chemical Theory Center and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Zoltan Varga
- Department of Chemistry, Chemical Theory Center and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Donald G Truhlar
- Department of Chemistry, Chemical Theory Center and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
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20
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Lu D, Galvão BRL, Varandas AJC, Guo H. Quantum and semiclassical studies of nonadiabatic electronic transitions between N( 4S) and N( 2D) by collisions with N 2. Phys Chem Chem Phys 2023; 25:15656-15665. [PMID: 37278325 DOI: 10.1039/d3cp01429k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
The dynamics and kinetics of spin-forbidden transitions between N(2D) and N(4S) via collisions with N2 molecules are investigated using a quantum wave packet (WP) method and the semi-classical coherent switches with decay of mixing (CSDM) method. These electronic transition processes are competing with exchange reaction channels on both the doublet and quartet potential energy surfaces. The WP and CSDM quenching rate coefficients are found in reasonable agreement with each other, and both reproduce the previous theoretical results. For the excitation process, the agreement between the two approaches is dependent on the treatment of the zero-point energy (ZPE) in the product, because the high endoergicity of this process leads to severe violation of the vibrational ZPE. The Gaussian-binning (GB) method is found to improve the agreement with the quantum result. The excitation rate coefficients are found to be two orders of magnitude smaller than that of the adiabatic exchange reaction, underscoring the inefficient intersystem crossing due to the weak spin-orbit coupling between the two spin manifolds of the N3 system.
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Affiliation(s)
- Dandan Lu
- Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, 87131, New Mexico, USA.
| | - Breno R L Galvão
- Centro Federal de Educação Tecnológica de Minas Gerais, CEFET-MG, Av. Amazonas 5253, (30421-169), Belo Horizonte, Minas Gerais, Brazil
| | - Antonio J C Varandas
- Departamento de Física, Universidade Federal do Espírito Santo, Vitória, Brazil
- Coimbra Chemistry Centre and Chemistry Department, University of Coimbra, Coimbra, Portugal
| | - Hua Guo
- Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, 87131, New Mexico, USA.
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21
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Shu Y, Zhang L, Wu D, Chen X, Sun S, Truhlar DG. New Gradient Correction Scheme for Electronically Nonadiabatic Dynamics Involving Multiple Spin States. J Chem Theory Comput 2023; 19:2419-2429. [PMID: 37079755 DOI: 10.1021/acs.jctc.2c01173] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/22/2023]
Abstract
It has been recommended that the best representation to use for trajectory surface hopping (TSH) calculations is the fully adiabatic basis in which the Hamiltonian is diagonal. Simulations of intersystem crossing processes with conventional TSH methods require an explicit computation of nonadiabatic coupling vectors (NACs) in the molecular-Coulomb-Hamiltonian (MCH) basis, also called the spin-orbit-free basis, in order to compute the gradient in the fully adiabatic basis (also called the diagonal representation). This explicit requirement destroys some of the advantages of the overlap-based algorithms and curvature-driven algorithms that can be used for the most efficient TSH calculations. Therefore, although these algorithms allow one to perform NAC-free simulations for internal conversion processes, one still requires NACs for intersystem crossing. Here, we show that how the NAC requirement is circumvented by a new computation scheme called the time-derivative-matrix scheme.
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Affiliation(s)
- Yinan Shu
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Linyao Zhang
- School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Dihua Wu
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Xiye Chen
- School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Shaozeng Sun
- School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Donald G Truhlar
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
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22
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Sit MK, Das S, Samanta K. Semiclassical Dynamics on Machine-Learned Coupled Multireference Potential Energy Surfaces: Application to the Photodissociation of the Simplest Criegee Intermediate. J Phys Chem A 2023; 127:2376-2387. [PMID: 36856588 DOI: 10.1021/acs.jpca.2c07229] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2023]
Abstract
Determination of high-dimensional potential energy surfaces (PESs) and nonadiabatic couplings have always been quite challenging. To this end, machine learning (ML) models, trained with a finite set of ab initio data, allow accurate prediction of such properties. To express the PESs in terms of atomic contributions is the cornerstone of any ML based technique because it can be easily scaled to large systems. In this work, we have constructed high fidelity PESs and nonadiabatic coupling terms at the CASSCF level of ab initio data using a machine learning technique, namely, kernel-ridge regression. Additional MRCI-level calculations were carried out to assess the quality of the PESs. We use these machine-learned PESs and nonadiabatic couplings to simulate excited-state molecular dynamics based on Tully's fewest-switches surface hopping method (FSSH). FSSH is a semiclassical method in which nuclei move on the PESs due to the electrons according to the laws of classical mechanics. Nonadiabatic effects are taken into account in terms of transitions between PESs. We apply this scheme to study the O-O photodissociation of the simplest Criegee intermediate (CH2OO). The FSSH trajectories were initiated on the lowest optically bright singlet excited state (S2) and propagated along the three most important internal coordinates, namely, O-O and C-O bond distances and the COO bond angle. Some of the trajectories end up on energetically lower PESs as a result of radiationless transfer through conical intersections. All of the trajectories lead to the dissociation of the O-O bond due to the dissociative nature of the excited PESs through one of the two dissociative channels. The simulation reveals that there is about 88.4% probability of dissociation through the lower channel leading to the H2CO (X1A1) and O (1D) products, whereas there is only 11.6% probability of dissociation through the upper channel leading to H2CO (a3A″) and O (3P) products.
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Affiliation(s)
- Mahesh K Sit
- School of Basic Sciences, Indian Institute of Technology Bhubaneswar, Argul, Odisha 752050, India
| | - Subhasish Das
- School of Basic Sciences, Indian Institute of Technology Bhubaneswar, Argul, Odisha 752050, India
| | - Kousik Samanta
- School of Basic Sciences, Indian Institute of Technology Bhubaneswar, Argul, Odisha 752050, India
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23
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Osella S, Granucci G, Persico M, Knippenberg S. Dual photoisomerization mechanism of azobenzene embedded in a lipid membrane. J Mater Chem B 2023; 11:2518-2529. [PMID: 36852914 DOI: 10.1039/d2tb02767d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/01/2023]
Abstract
The photoisomerization of chromophores embedded in biological environments is of high importance for biomedical applications, but it is still challenging to define the photoisomerization mechanism both experimentally and computationally. We present here a computational study of the azobenzene molecule embedded in a DPPC lipid membrane, and assess the photoisomerization mechanism by means of the quantum mechanics/molecular mechanics surface hopping (QM/MM-SH) method. We observe that while the trans-to-cis isomerization is a slow process governed by a torsional mechanism due to the strong interaction with the environment, the cis-to-trans mechanism is completed in sub-ps time scale and is governed by a pedal-like mechanism in which both weaker interactions with the environment and a different geometry of the potential energy surface play a key role.
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Affiliation(s)
- Silvio Osella
- Chemical and Biological Systems Simulation Lab, Centre of New Technologies, University of Warsaw, Banacha 2C, 02-097 Warsaw, Poland. .,Materials and Process Simulation Center (MSC), California Institute of Technology, MC 139-74, Pasadena, CA, 91125, USA
| | - Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, Universitá di Pisa, v. Moruzzi 13, I-56124 Pisa, Italy
| | - Maurizio Persico
- Dipartimento di Chimica e Chimica Industriale, Universitá di Pisa, v. Moruzzi 13, I-56124 Pisa, Italy
| | - Stefan Knippenberg
- Hasselt University, Theory Lab, Agoralaan Building D, 3590 Diepenbeek, Belgium.,Université Libre de Bruxelles, Spectroscopy, Quantum Chemistry and Atmospheric Remote Sensing (SQUARES), 50 Avenue F. Roosevelt, C.P. 160/09, B-1050 Brussels, Belgium.
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24
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Issler K, Mitrić R, Petersen J. Quantum-classical dynamics of vibration-induced autoionization in molecules. J Chem Phys 2023; 158:034107. [PMID: 36681633 DOI: 10.1063/5.0135392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
We present a novel method for the simulation of the vibration-induced autoionization dynamics in molecular anions in the framework of the quantum-classical surface hopping approach. Classical trajectories starting from quantum initial conditions are propagated on a quantum-mechanical potential energy surface while allowing for autoionization through transitions into discretized continuum states. These transitions are induced by the couplings between the electronic states of the bound anionic system and the electron-detached system composed of the neutral molecule and the free electron. A discretization scheme for the detached system is introduced, and a set of formulas is derived that enable the approximate calculation of couplings between the bound and free-electron states. We demonstrate our method on the example of the anion of vinylidene, a high-energy isomer of acetylene, for which detailed experimental data are available. Our results provide information on the time scale of the autoionization process and give insight into the energetic and angular distribution of the ejected electrons, as well as the associated changes in the molecular geometry. We identify the formation of structures with reduced C-C bond lengths and T-like conformations through bending of the CH2 group with respect to the C-C axis and point out the role of autoionization as a driving process for the isomerization to acetylene.
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Affiliation(s)
- Kevin Issler
- Institut für physikalische und theoretische Chemie, Julius-Maximilians-Universität Würzburg, Emil-Fischer-Str. 42, 97074 Würzburg, Germany
| | - Roland Mitrić
- Institut für physikalische und theoretische Chemie, Julius-Maximilians-Universität Würzburg, Emil-Fischer-Str. 42, 97074 Würzburg, Germany
| | - Jens Petersen
- Institut für physikalische und theoretische Chemie, Julius-Maximilians-Universität Würzburg, Emil-Fischer-Str. 42, 97074 Würzburg, Germany
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25
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Miessen A, Ollitrault PJ, Tacchino F, Tavernelli I. Quantum algorithms for quantum dynamics. NATURE COMPUTATIONAL SCIENCE 2023; 3:25-37. [PMID: 38177956 DOI: 10.1038/s43588-022-00374-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2021] [Accepted: 11/12/2022] [Indexed: 01/06/2024]
Abstract
Among the many computational challenges faced across different disciplines, quantum-mechanical systems pose some of the hardest ones and offer a natural playground for the growing field of quantum technologies. In this Perspective, we discuss quantum algorithmic solutions for quantum dynamics, reporting on the latest developments and offering a viewpoint on their potential and current limitations. We present some of the most promising areas of application and identify possible research directions for the coming years.
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Affiliation(s)
| | - Pauline J Ollitrault
- IBM Quantum, IBM Research - Zurich, Rüschlikon, Switzerland
- QC Ware, Palo Alto, CA, USA
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26
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Gelin MF, Chen L, Domcke W. Equation-of-Motion Methods for the Calculation of Femtosecond Time-Resolved 4-Wave-Mixing and N-Wave-Mixing Signals. Chem Rev 2022; 122:17339-17396. [PMID: 36278801 DOI: 10.1021/acs.chemrev.2c00329] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Femtosecond nonlinear spectroscopy is the main tool for the time-resolved detection of photophysical and photochemical processes. Since most systems of chemical interest are rather complex, theoretical support is indispensable for the extraction of the intrinsic system dynamics from the detected spectroscopic responses. There exist two alternative theoretical formalisms for the calculation of spectroscopic signals, the nonlinear response-function (NRF) approach and the spectroscopic equation-of-motion (EOM) approach. In the NRF formalism, the system-field interaction is assumed to be sufficiently weak and is treated in lowest-order perturbation theory for each laser pulse interacting with the sample. The conceptual alternative to the NRF method is the extraction of the spectroscopic signals from the solutions of quantum mechanical, semiclassical, or quasiclassical EOMs which govern the time evolution of the material system interacting with the radiation field of the laser pulses. The NRF formalism and its applications to a broad range of material systems and spectroscopic signals have been comprehensively reviewed in the literature. This article provides a detailed review of the suite of EOM methods, including applications to 4-wave-mixing and N-wave-mixing signals detected with weak or strong fields. Under certain circumstances, the spectroscopic EOM methods may be more efficient than the NRF method for the computation of various nonlinear spectroscopic signals.
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Affiliation(s)
- Maxim F Gelin
- School of Science, Hangzhou Dianzi University, Hangzhou 310018, China
| | - Lipeng Chen
- Max-Planck-Institut für Physik komplexer Systeme, Nöthnitzer Strasse 38, D-01187 Dresden, Germany
| | - Wolfgang Domcke
- Department of Chemistry, Technical University of Munich, D-85747 Garching,Germany
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27
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Protein control of photochemistry and transient intermediates in phytochromes. Nat Commun 2022; 13:6838. [PMID: 36369284 PMCID: PMC9652276 DOI: 10.1038/s41467-022-34640-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Accepted: 11/01/2022] [Indexed: 11/13/2022] Open
Abstract
Phytochromes are ubiquitous photoreceptors responsible for sensing light in plants, fungi and bacteria. Their photoactivation is initiated by the photoisomerization of the embedded chromophore, triggering large conformational changes in the protein. Despite numerous experimental and computational studies, the role of chromophore-protein interactions in controlling the mechanism and timescale of the process remains elusive. Here, we combine nonadiabatic surface hopping trajectories and adiabatic molecular dynamics simulations to reveal the molecular details of such control for the Deinococcus radiodurans bacteriophytochrome. Our simulations reveal that chromophore photoisomerization proceeds through a hula-twist mechanism whose kinetics is mainly determined by the hydrogen bond of the chromophore with a close-by histidine. The resulting photoproduct relaxes to an early intermediate stabilized by a tyrosine, and finally evolves into a late intermediate, featuring a more disordered binding pocket and a weakening of the aspartate-to-arginine salt-bridge interaction, whose cleavage is essential to interconvert the phytochrome to the active state.
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28
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Bondanza M, Demoulin B, Lipparini F, Barbatti M, Mennucci B. Trajectory Surface Hopping for a Polarizable Embedding QM/MM Formulation. J Phys Chem A 2022; 126:6780-6789. [PMID: 36107729 PMCID: PMC9527758 DOI: 10.1021/acs.jpca.2c04756] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
We present the implementation of trajectory surface-hopping
nonadiabatic
dynamics for a polarizable embedding QM/MM formulation. Time-dependent
density functional theory was used at the quantum mechanical level
of theory, whereas the molecular mechanics description involved the
polarizable AMOEBA force field. This implementation has been obtained
by integrating the surface-hopping program Newton-X NS with an interface
between the Gaussian 16 and the Tinker suites of codes to calculate
QM/AMOEBA energies and forces. The implementation has been tested
on a photoinduced electron-driven proton-transfer reaction involving
pyrimidine and a hydrogen-bonded water surrounded by a small cluster
of water molecules and within a large water droplet.
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Affiliation(s)
- Mattia Bondanza
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy
| | | | - Filippo Lipparini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy
| | - Mario Barbatti
- Aix Marseille University, CNRS, ICR, 13385 Marseille, France
- Institut Universitaire de France, 75231 Paris, France
| | - Benedetta Mennucci
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy
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29
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Hutton L, Curchod BFE. Photodynamics of Gas‐Phase Pyruvic Acid Following Light Absorption in the Actinic Region. CHEMPHOTOCHEM 2022. [DOI: 10.1002/cptc.202200151] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Lewis Hutton
- Centre for Computational Chemistry School of Chemistry University of Bristol Bristol BS8 1TS UK
| | - Basile F. E. Curchod
- Centre for Computational Chemistry School of Chemistry University of Bristol Bristol BS8 1TS UK
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30
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Cofer-Shabica DV, Menger MFSJ, Ou Q, Shao Y, Subotnik JE, Faraji S. INAQS, a Generic Interface for Nonadiabatic QM/MM Dynamics: Design, Implementation, and Validation for GROMACS/Q-CHEM simulations. J Chem Theory Comput 2022; 18:4601-4614. [PMID: 35901266 DOI: 10.1021/acs.jctc.2c00204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The accurate description of large molecular systems in complex environments remains an ongoing challenge for the field of computational chemistry. This problem is even more pronounced for photoinduced processes, as multiple excited electronic states and their corresponding nonadiabatic couplings must be taken into account. Multiscale approaches such as hybrid quantum mechanics/molecular mechanics (QM/MM) offer a balanced compromise between accuracy and computational burden. Here, we introduce an open-source software package (INAQS) for nonadiabatic QM/MM simulations that bridges the sampling capabilities of the GROMACS MD package and the excited-state infrastructure of the Q-CHEM electronic structure software. The interface is simple and can be adapted easily to other MD codes. The code supports a variety of different trajectory-based molecular dynamics, ranging from Born-Oppenheimer to surface hopping dynamics. To illustrate the power of this combination, we simulate electronic absorption spectra, free-energy surfaces along a reaction coordinate, and the excited-state dynamics of 1,3-cyclohexadiene in solution.
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Affiliation(s)
- D Vale Cofer-Shabica
- Department of Chemistry, University of Pennsylvania, 231 S. 34 Street, Cret Wing 141D, Philadelphia, Pennsylvania 19104-6243, United States
| | - Maximilian F S J Menger
- Zernike Institute for Advanced Materials, Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Qi Ou
- AI for Science Institute, Beijing 100080, China
| | - Yihan Shao
- Department of Chemistry and Biochemistry, University of Oklahoma, Norman, Oklahoma 73019, United States
| | - Joseph E Subotnik
- Department of Chemistry, University of Pennsylvania, 231 S. 34 Street, Cret Wing 141D, Philadelphia, Pennsylvania 19104-6243, United States
| | - Shirin Faraji
- Zernike Institute for Advanced Materials, Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
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31
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Valverde D, Mai S, Canuto S, Borin AC, González L. Ultrafast Intersystem Crossing Dynamics of 6-Selenoguanine in Water. JACS AU 2022; 2:1699-1711. [PMID: 35911449 PMCID: PMC9327080 DOI: 10.1021/jacsau.2c00250] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Rationalizing the photochemistry of nucleobases where an oxygen is replaced by a heavier atom is essential for applications that exploit near-unity triplet quantum yields. Herein, we report on the ultrafast excited-state deactivation mechanism of 6-selenoguanine (6SeGua) in water by combining nonadiabatic trajectory surface-hopping dynamics with an electrostatic embedding quantum mechanics/molecular mechanics (QM/MM) scheme. We find that the predominant relaxation mechanism after irradiation starts on the bright singlet S2 state that converts internally to the dark S1 state, from which the population is transferred to the triplet T2 state via intersystem crossing and finally to the lowest T1 state. This S2 → S1 → T2 → T1 deactivation pathway is similar to that observed for the lighter 6-thioguanine (6tGua) analogue, but counterintuitively, the T1 lifetime of the heavier 6SeGua is shorter than that of 6tGua. This fact is explained by the smaller activation barrier to reach the T1/S0 crossing point and the larger spin-orbit couplings of 6SeGua compared to 6tGua. From the dynamical simulations, we also calculate transient absorption spectra (TAS), which provide two time constants (τ1 = 131 fs and τ2 = 191 fs) that are in excellent agreement with the experimentally reported value (τexp = 130 ± 50 fs) (Farrel et al. J. Am. Chem. Soc. 2018, 140, 11214). Intersystem crossing itself is calculated to occur with a time scale of 452 ± 38 fs, highlighting that the TAS is the result of a complex average of signals coming from different nonradiative processes and not intersystem crossing alone.
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Affiliation(s)
- Danillo Valverde
- Department
of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Avenida Professor Lineu Prestes, 748, São Paulo, São Paulo CEP 05508-000, Brazil
- Institute
of Physics, University of São Paulo, Rua do Matão 1371, São Paulo, São Paulo CEP 05508-090, Brazil
| | - Sebastian Mai
- Institute
of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, Vienna 1090, Austria
| | - Sylvio Canuto
- Institute
of Physics, University of São Paulo, Rua do Matão 1371, São Paulo, São Paulo CEP 05508-090, Brazil
| | - Antonio Carlos Borin
- Department
of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Avenida Professor Lineu Prestes, 748, São Paulo, São Paulo CEP 05508-000, Brazil
| | - Leticia González
- Institute
of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währinger Straße 17, Vienna 1090, Austria
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32
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Accomasso D, Arslancan S, Cupellini L, Granucci G, Mennucci B. Ultrafast Excited-State Dynamics of Carotenoids and the Role of the S X State. J Phys Chem Lett 2022; 13:6762-6769. [PMID: 35852936 PMCID: PMC9340805 DOI: 10.1021/acs.jpclett.2c01555] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 07/11/2022] [Indexed: 06/15/2023]
Abstract
Carotenoids are natural pigments with multiple roles in photosynthesis. They act as accessory pigments by absorbing light where chlorophyll absorption is low, and they quench the excitation energy of neighboring chlorophylls under high-light conditions. The function of carotenoids depends on their polyene-like structure, which controls their excited-state properties. After light absorption to their bright S2 state, carotenoids rapidly decay to the optically dark S1 state. However, ultrafast spectroscopy experiments have shown the signatures of another dark state, termed SX. Here we shed light on the ultrafast photophysics of lutein, a xanthophyll carotenoid, by explicitly simulating its nonadiabatic excited-state dynamics in solution. Our simulations confirm the involvement of SX in the relaxation toward S1 and reveal that it is formed through a change in the nature of the S2 state driven by the decrease in the bond length alternation coordinate of the carotenoid conjugated chain.
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Affiliation(s)
| | | | - Lorenzo Cupellini
- Dipartimento di Chimica e
Chimica Industriale, University of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Giovanni Granucci
- Dipartimento di Chimica e
Chimica Industriale, University of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
| | - Benedetta Mennucci
- Dipartimento di Chimica e
Chimica Industriale, University of Pisa, via G. Moruzzi 13, 56124 Pisa, Italy
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33
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Ten Brink M, Gräber S, Hopjan M, Jansen D, Stolpp J, Heidrich-Meisner F, Blöchl PE. Real-time non-adiabatic dynamics in the one-dimensional Holstein model: Trajectory-based vs exact methods. J Chem Phys 2022; 156:234109. [PMID: 35732530 DOI: 10.1063/5.0092063] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We benchmark a set of quantum-chemistry methods, including multitrajectory Ehrenfest, fewest-switches surface-hopping, and multiconfigurational-Ehrenfest dynamics, against exact quantum-many-body techniques by studying real-time dynamics in the Holstein model. This is a paradigmatic model in condensed matter theory incorporating a local coupling of electrons to Einstein phonons. For the two-site and three-site Holstein model, we discuss the exact and quantum-chemistry methods in terms of the Born-Huang formalism, covering different initial states, which either start on a single Born-Oppenheimer surface, or with the electron localized to a single site. For extended systems with up to 51 sites, we address both the physics of single Holstein polarons and the dynamics of charge-density waves at finite electron densities. For these extended systems, we compare the quantum-chemistry methods to exact dynamics obtained from time-dependent density matrix renormalization group calculations with local basis optimization (DMRG-LBO). We observe that the multitrajectory Ehrenfest method, in general, only captures the ultrashort time dynamics accurately. In contrast, the surface-hopping method with suitable corrections provides a much better description of the long-time behavior but struggles with the short-time description of coherences between different Born-Oppenheimer states. We show that the multiconfigurational Ehrenfest method yields a significant improvement over the multitrajectory Ehrenfest method and can be converged to the exact results in small systems with moderate computational efforts. We further observe that for extended systems, this convergence is slower with respect to the number of configurations. Our benchmark study demonstrates that DMRG-LBO is a useful tool for assessing the quality of the quantum-chemistry methods.
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Affiliation(s)
- M Ten Brink
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - S Gräber
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - M Hopjan
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - D Jansen
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - J Stolpp
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - F Heidrich-Meisner
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - P E Blöchl
- Institut für Theoretische Physik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
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34
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Fregoni J, Garcia-Vidal FJ, Feist J. Theoretical Challenges in Polaritonic Chemistry. ACS PHOTONICS 2022; 9:1096-1107. [PMID: 35480492 PMCID: PMC9026242 DOI: 10.1021/acsphotonics.1c01749] [Citation(s) in RCA: 39] [Impact Index Per Article: 19.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Revised: 02/01/2022] [Accepted: 02/02/2022] [Indexed: 06/14/2023]
Abstract
Polaritonic chemistry exploits strong light-matter coupling between molecules and confined electromagnetic field modes to enable new chemical reactivities. In systems displaying this functionality, the choice of the cavity determines both the confinement of the electromagnetic field and the number of molecules that are involved in the process. While in wavelength-scale optical cavities the light-matter interaction is ruled by collective effects, plasmonic subwavelength nanocavities allow even single molecules to reach strong coupling. Due to these very distinct situations, a multiscale theoretical toolbox is then required to explore the rich phenomenology of polaritonic chemistry. Within this framework, each component of the system (molecules and electromagnetic modes) needs to be treated in sufficient detail to obtain reliable results. Starting from the very general aspects of light-molecule interactions in typical experimental setups, we underline the basic concepts that should be taken into account when operating in this new area of research. Building on these considerations, we then provide a map of the theoretical tools already available to tackle chemical applications of molecular polaritons at different scales. Throughout the discussion, we draw attention to both the successes and the challenges still ahead in the theoretical description of polaritonic chemistry.
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35
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Xie BB, Jia PK, Wang KX, Chen WK, Liu XY, Cui G. Generalized Ab Initio Nonadiabatic Dynamics Simulation Methods from Molecular to Extended Systems. J Phys Chem A 2022; 126:1789-1804. [PMID: 35266391 DOI: 10.1021/acs.jpca.1c10195] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Nonadiabatic dynamics simulation has become a powerful tool to describe nonadiabatic effects involved in photophysical processes and photochemical reactions. In the past decade, our group has developed generalized trajectory-based ab initio surface-hopping (GTSH) dynamics simulation methods, which can be used to describe a series of nonadiabatic processes, such as internal conversion, intersystem crossing, excitation energy transfer and charge transfer of molecular systems, and photoinduced nonadiabatic carrier dynamics of extended systems with and without spin-orbit couplings. In this contribution, we will first give a brief introduction to our recently developed methods and related numerical implementations at different computational levels. Later, we will present some of our latest applications in realistic systems, which cover organic molecules, biological proteins, organometallic compounds, periodic organic and inorganic materials, etc. Final discussion is given to challenges and outlooks of ab initio nonadiabatic dynamics simulations.
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Affiliation(s)
- Bin-Bin Xie
- Hangzhou Institute of Advanced Studies, Zhejiang Normal University, 1108 Gengwen Road, Hangzhou 311231, Zhejiang, P. R. China
| | - Pei-Ke Jia
- Hangzhou Institute of Advanced Studies, Zhejiang Normal University, 1108 Gengwen Road, Hangzhou 311231, Zhejiang, P. R. China
| | - Ke-Xin Wang
- Hangzhou Institute of Advanced Studies, Zhejiang Normal University, 1108 Gengwen Road, Hangzhou 311231, Zhejiang, P. R. China
| | - Wen-Kai Chen
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Xiang-Yang Liu
- College of Chemistry and Material Science, Sichuan Normal University, Chengdu 610068, Sichuan, P. R. China
| | - Ganglong Cui
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
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36
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Shu Y, Varga Z, Kanchanakungwankul S, Zhang L, Truhlar DG. Diabatic States of Molecules. J Phys Chem A 2022; 126:992-1018. [PMID: 35138102 DOI: 10.1021/acs.jpca.1c10583] [Citation(s) in RCA: 31] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Quantitative simulations of electronically nonadiabatic molecular processes require both accurate dynamics algorithms and accurate electronic structure information. Direct semiclassical nonadiabatic dynamics is expensive due to the high cost of electronic structure calculations, and hence it is limited to small systems, limited ensemble averaging, ultrafast processes, and/or electronic structure methods that are only semiquantitatively accurate. The cost of dynamics calculations can be made manageable if analytic fits are made to the electronic structure data, and such fits are most conveniently carried out in a diabatic representation because the surfaces are smooth and the couplings between states are smooth scalar functions. Diabatic representations, unlike the adiabatic ones produced by most electronic structure methods, are not unique, and finding suitable diabatic representations often involves time-consuming nonsystematic diabatization steps. The biggest drawback of using diabatic bases is that it can require large amounts of effort to perform a globally consistent diabatization, and one of our goals has been to develop methods to do this efficiently and automatically. In this Feature Article, we introduce the mathematical framework of diabatic representations, and we discuss diabatization methods, including adiabatic-to-diabatic transformations and recent progress toward the goal of automatization.
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Affiliation(s)
- Yinan Shu
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Zoltan Varga
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Siriluk Kanchanakungwankul
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
| | - Linyao Zhang
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States.,School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Donald G Truhlar
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, United States
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37
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Shu Y, Zhang L, Chen X, Sun S, Huang Y, Truhlar DG. Nonadiabatic Dynamics Algorithms with Only Potential Energies and Gradients: Curvature-Driven Coherent Switching with Decay of Mixing and Curvature-Driven Trajectory Surface Hopping. J Chem Theory Comput 2022; 18:1320-1328. [PMID: 35104136 DOI: 10.1021/acs.jctc.1c01080] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Direct dynamics by mixed quantum-classical nonadiabatic methods is an important tool for understanding processes involving multiple electronic states. Very often, the computational bottleneck of such direct simulation comes from electronic structure theory. For example, at every time step of a trajectory, nonadiabatic dynamics requires potential energy surfaces, their gradients, and the matrix elements coupling the surfaces. The need for the couplings can be alleviated by employing the time derivatives of the wave functions, which can be evaluated from overlaps of electronic wave functions at successive time steps. However, evaluation of overlap integrals is still expensive for large systems. In addition, for electronic structure methods for which the wave functions or the coupling matrix elements are not available, nonadiabatic dynamics algorithms become inapplicable. In this work, building on recent work by Baeck and An, we propose new nonadiabatic dynamics algorithms that only require adiabatic potential energies and their gradients. The new methods are named curvature-driven coherent switching with decay of mixing (κCSDM) and curvature-driven trajectory surface hopping (κTSH). We show how powerful these new methods are in terms of computation time and accuracy as compared to previous mixed quantum-classical nonadiabatic dynamics algorithms. The lowering of the computational cost will allow longer nonadiabatic trajectories and greater ensemble averaging to be affordable, and the ability to calculate the dynamics without electronic structure coupling matrix elements extends the dynamics capability to new classes of electronic structure methods.
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Affiliation(s)
- Yinan Shu
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, USA
| | - Linyao Zhang
- School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China.,School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Xiye Chen
- School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China.,School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Shaozeng Sun
- School of Energy Science and Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Yudong Huang
- School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin 150001, P. R. China
| | - Donald G Truhlar
- Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, USA
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38
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Prlj A, Marsili E, Hutton L, Hollas D, Shchepanovska D, Glowacki DR, Slavíček P, Curchod BFE. Calculating Photoabsorption Cross-Sections for Atmospheric Volatile Organic Compounds. ACS EARTH & SPACE CHEMISTRY 2022; 6:207-217. [PMID: 35087992 PMCID: PMC8785186 DOI: 10.1021/acsearthspacechem.1c00355] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2021] [Revised: 11/25/2021] [Accepted: 12/03/2021] [Indexed: 05/30/2023]
Abstract
Characterizing the photochemical reactivity of transient volatile organic compounds (VOCs) in our atmosphere begins with a proper understanding of their abilities to absorb sunlight. Unfortunately, the photoabsorption cross-sections for a large number of transient VOCs remain unavailable experimentally due to their short lifetime or high reactivity. While structure-activity relationships (SARs) have been successfully employed to estimate the unknown photoabsorption cross-sections of VOCs, computational photochemistry offers another promising strategy to predict not only the vertical electronic transitions of a given molecule but also the width and shape of the bands forming its absorption spectrum. In this work, we focus on the use of the nuclear ensemble approach (NEA) to determine the photoabsorption cross-section of four exemplary VOCs, namely, acrolein, methylhydroperoxide, 2-hydroperoxy-propanal, and (microsolvated) pyruvic acid. More specifically, we analyze the influence that different strategies for sampling the ground-state nuclear density-Wigner sampling and ab initio molecular dynamics with a quantum thermostat-can have on the simulated absorption spectra. We highlight the potential shortcomings of using uncoupled harmonic modes within Wigner sampling of nuclear density to describe flexible or microsolvated VOCs and some limitations of SARs for multichromophoric VOCs. Our results suggest that the NEA could constitute a powerful tool for the atmospheric community to predict the photoabsorption cross-section for transient VOCs.
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Affiliation(s)
- Antonio Prlj
- Department
of Chemistry, Durham University, Durham DH1 3LE, U.K.
| | - Emanuele Marsili
- Department
of Chemistry, Durham University, Durham DH1 3LE, U.K.
| | - Lewis Hutton
- Department
of Chemistry, Durham University, Durham DH1 3LE, U.K.
| | - Daniel Hollas
- Department
of Chemistry, Durham University, Durham DH1 3LE, U.K.
- Department
of Physical Chemistry, University of Chemistry
and Technology, Prague, Technická 5, Prague 16628, Czech Republic
| | - Darya Shchepanovska
- Centre
for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TH, U.K.
| | - David R. Glowacki
- ArtSci
International Foundation, 5th Floor Mariner House, Bristol BS1 4QD, U.K.
- CiTIUS
Intelligent Technologies Research Centre, Rúa de Jenaro de La Fuente, s/n, Santiago de Compostela 15705, A Coruña, Spain
| | - Petr Slavíček
- Department
of Physical Chemistry, University of Chemistry
and Technology, Prague, Technická 5, Prague 16628, Czech Republic
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39
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Gil ES, Granucci G, Persico M. Surface Hopping Dynamics with the Frenkel Exciton Model in a Semiempirical Framework. J Chem Theory Comput 2021; 17:7373-7383. [PMID: 34843643 PMCID: PMC8675141 DOI: 10.1021/acs.jctc.1c00942] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
![]()
We present an implementation
of the Frenkel exciton model in the
framework of the semiempirical floating occupation molecular orbitals-configuration
interaction (FOMO-CI) electronic structure method, aimed at simulating
the dynamics of multichromophoric systems, in which excitation energy
transfer can occur, by a very efficient approach. The nonadiabatic
molecular dynamics is here dealt with by the surface hopping method,
but the implementation we proposed is compatible with other dynamical
approaches. The exciton coupling is computed either exactly, within
the semiempirical approximation considered, or by resorting to transition
atomic charges. The validation of our implementation is carried out
on the trans-azobenzeno-2S-phane (2S-TTABP), formed
by two azobenzene units held together by sulfur bridges, taken as
a minimal model of multichromophoric systems, in which both strong
and weak exciton couplings are present.
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Affiliation(s)
- Eduarda Sangiogo Gil
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
| | - Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
| | - Maurizio Persico
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
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40
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Zhang J, Peng J, Hu D, Lan Z. Investigation of nonadiabatic dynamics in the photolysis of methyl nitrate (CH 3ONO 2) by on-the-fly surface hopping simulation. Phys Chem Chem Phys 2021; 23:25597-25611. [PMID: 34546246 DOI: 10.1039/d1cp03226g] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The photolysis mechanism of methyl nitrate (CH3ONO2) was studied using the on-the-fly surface hopping dynamics at the XMS-CASPT2 level. Several critical geometries, including electronic state minima and conical intersections, were obtained, which play essential roles in the nonadiabatic dynamics of CH3ONO2. The ultrafast nonadiabatic decay dynamics to the ground state were simulated, which gives a proper explanation on the broad and structureless absorption spectra of CH3ONO2. The photodissociation channels, including CH3O + NO2, CH3O + NO + O, and others, as well as their branching ratios, were identified. When the dynamics starts from the lowest two electronic states (S1 and S2), the CH3O + NO2 channel is the dominant photolysis pathway, although we observed the minor contributions of other channels. In contrast, when the trajectories start from the third excited state S3, both CH3O + NO2 and CH3O + NO + O channels become important. Here the CH3O-NO2 bond dissociation takes place first, and then for some trajectories, the N-O bond of the NO2 part breaks successively. The quasi-degeneracy of electronic states may exist in the dissociation limits of both CH3O + NO2 and CH3O + NO + O channels. The current work provides valuable information in the understanding of experimental findings of the wavelength-dependent photolysis mechanism of CH3ONO2.
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Affiliation(s)
- Juanjuan Zhang
- 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
| | - 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
| | - 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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41
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Hu D, Peng J, Chen L, Gelin MF, Lan Z. Spectral Fingerprint of Excited-State Energy Transfer in Dendrimers through Polarization-Sensitive Transient-Absorption Pump-Probe Signals: On-the-Fly Nonadiabatic Dynamics Simulations. J Phys Chem Lett 2021; 12:9710-9719. [PMID: 34590858 DOI: 10.1021/acs.jpclett.1c02640] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The time-resolved polarization-sensitive transient-absorption (TA) pump-probe (PP) spectra are simulated using on-the-fly surface-hopping nonadiabatic dynamics and the doorway-window representation of nonlinear spectroscopy. A dendrimer model system composed of two linear phenylene ethynylene units (2-ring and 3-ring) is taken as an example. The ground-state bleach (GSB), stimulated emission (SE), and excited-state absorption (ESA) contributions as well as the total TA PP signals are obtained and carefully analyzed. It is shown that intramolecular excited-state energy transfer from the 2-ring unit to the 3-ring unit can be conveniently identified by employing pump and probe pulses with different polarizations. Our results demonstrate that time-resolved polarization-sensitive TA PP signals provide a powerful tool for the elucidation of excited-state energy-transfer pathways, notably in molecular systems possessing several optically bright nonadiabatically coupled electronic states with different orientations of transition dipole moments.
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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
| | - 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
| | - Lipeng Chen
- Max Planck Institute for the Physics of Complex Systems, 01187 Dresden, Germany
| | - Maxim F Gelin
- School of Sciences, Hangzhou Dianzi University, Hangzhou 310018, 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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42
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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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43
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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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44
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Zobel JP, González L. The Quest to Simulate Excited-State Dynamics of Transition Metal Complexes. JACS AU 2021; 1:1116-1140. [PMID: 34467353 PMCID: PMC8397362 DOI: 10.1021/jacsau.1c00252] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2021] [Indexed: 05/15/2023]
Abstract
This Perspective describes current computational efforts in the field of simulating photodynamics of transition metal complexes. We present the typical workflows and feature the strengths and limitations of the different contemporary approaches. From electronic structure methods suitable to describe transition metal complexes to approaches able to simulate their nuclear dynamics under the effect of light, we give particular attention to build a bridge between theory and experiment by critically discussing the different models commonly adopted in the interpretation of spectroscopic experiments and the simulation of particular observables. Thereby, we review all the studies of excited-state dynamics on transition metal complexes, both in gas phase and in solution from reduced to full dimensionality.
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Affiliation(s)
- J. Patrick Zobel
- Institute
of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währingerstr. 19, 1090 Vienna Austria
| | - Leticia González
- Institute
of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Währingerstr. 19, 1090 Vienna Austria
- Vienna
Research Platform on Accelerating Photoreaction Discovery, University of Vienna, Währingerstr. 19, 1090 Vienna Austria
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45
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Delgado J, Lara-Astiaso M, González-Vázquez J, Decleva P, Palacios A, Martín F. Molecular fragmentation as a way to reveal early electron dynamics induced by attosecond pulses. Faraday Discuss 2021; 228:349-377. [PMID: 33571330 DOI: 10.1039/d0fd00121j] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
We present a theoretical study of the electron and nuclear dynamics that would arise in an attosecond two-color XUV-pump/XUV-probe experiment in glycine. In this scheme, the broadband pump pulse suddenly ionizes the molecule and creates an electronic wave packet that subsequently evolves under the influence of the nuclear motion until it is finally probed by the second XUV pulse. To describe the different steps of such an experiment, we have combined a multi-reference static-exchange scattering method with a trajectory surface hopping approach. We show that by changing the central frequency of the pump pulse, i.e., by engineering the initial electronic wave packet with the pump pulse, one can drive the cation dynamics into a specific fragmentation pathway. Reminiscence of this early electron dynamics can be observed in specific fragmentation channels (not all of them) as a function of the pump-probe delay and in time-resolved photoelectron spectra at specific photoelectron energies. The optimum conditions to visualize the initial electronic coherence in photoelectron and photo-ion spectra depend very much on the characteristics of the pump pulse as well as on the electronic structure of the molecule under study.
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Affiliation(s)
- Jorge Delgado
- Instituto Madrileño de Estudios Avanzados en Nanociencia, 28049 Madrid, Spain
| | - Manuel Lara-Astiaso
- Departamento de Química, Modulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain.
| | - Jesús González-Vázquez
- Departamento de Química, Modulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain.
| | - Piero Decleva
- CNR IOM, Dipartimento di Scienze Chimiche e Farmaceutiche, Universitá di Trieste, 34127 Trieste, Italy
| | - Alicia Palacios
- Departamento de Química, Modulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain. and Institute for Advanced Research in Chemical Sciences (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Fernando Martín
- Instituto Madrileño de Estudios Avanzados en Nanociencia, 28049 Madrid, Spain and Departamento de Química, Modulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain. and Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
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46
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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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47
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Abstract
In this article, we review nonadiabatic molecular dynamics (NAMD) methods for modeling spin-crossover transitions. First, we discuss different representations of electronic states employed in the grid-based and direct NAMD simulations. The nature of interstate couplings in different representations is highlighted, with the main focus on nonadiabatic and spin-orbit couplings. Second, we describe three NAMD methods that have been used to simulate spin-crossover dynamics, including trajectory surface hopping, ab initio multiple spawning, and multiconfiguration time-dependent Hartree. Some aspects of employing different electronic structure methods to obtain information about potential energy surfaces and interstate couplings for NAMD simulations are also discussed. Third, representative applications of NAMD to spin crossovers in molecular systems of different sizes and complexities are highlighted. Finally, we pose several fundamental questions related to spin-dependent processes. These questions should be possible to address with future methodological developments in NAMD.
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Affiliation(s)
- Saikat Mukherjee
- Institut de Chimie Radicalaire, CNRS 7273, Aix-Marseille University, 13013 Marseille, France;
| | - Dmitry A Fedorov
- Oak Ridge Associated Universities, Oak Ridge, Tennessee 37830, USA;
| | - Sergey A Varganov
- Department of Chemistry, University of Nevada, Reno, Nevada 89557-0216, USA;
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48
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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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49
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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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50
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Granucci G, Padula G. Photoisomerization dynamics of spiropyran: A surface-hopping investigation. J Chem Phys 2021; 154:124312. [PMID: 33810661 DOI: 10.1063/5.0045691] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
In the present work, we performed a computational investigation of the photoisomerization of spiro[1,3-dihydroindole-2,2'-chromene] [spiropyran (SP)] to merocyanine. The electronic energies and wavefunctions were obtained from configuration interaction calculations, using the floating occupation molecular orbital method, in a semiempirical framework. The parameters of the semiempirical Hamiltonian were re-optimized to reproduce ab initio literature data for SP. In our dynamics simulations, we considered, besides S0, the excited states S1, S2, and S3, which are very close in energy in the Franck-Condon region. We obtained a singlet lifetime of 0.67 ps, in line with the experimental results. We found the photoisomerization quantum yield to depend on the electronic state initially populated.
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Affiliation(s)
- Giovanni Granucci
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, Via Moruzzi 13, 56124 Pisa, Italy
| | - Giancarlo Padula
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, Via Moruzzi 13, 56124 Pisa, Italy
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