1
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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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2
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Li J, Yu J, Chen Z, Yang W. Linear Scaling Calculations of Excitation Energies with Active-Space Particle-Particle Random-Phase Approximation. J Phys Chem A 2023; 127:7811-7822. [PMID: 37695567 DOI: 10.1021/acs.jpca.3c02834] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/12/2023]
Abstract
We developed an efficient active-space particle-particle random-phase approximation (ppRPA) approach to calculate accurate charge-neutral excitation energies of molecular systems. The active-space ppRPA approach constrains both indexes in particle and hole pairs in the ppRPA matrix, which only selects frontier orbitals with dominant contributions to low-lying excitation energies. It employs the truncation in both orbital indexes in the particle-particle and the hole-hole spaces. The resulting matrix, whose eigenvalues are excitation energies, has a dimension that is independent of the size of the systems. The computational effort for the excitation energy calculation, therefore, scales linearly with system size and is negligible compared with the ground-state calculation of the (N - 2)-electron system, where N is the electron number of the molecule. With the active space consisting of 30 occupied and 30 virtual orbitals, the active-space ppRPA approach predicts the excitation energies of valence, charge-transfer, Rydberg, double, and diradical excitations with the mean absolute errors (MAEs) smaller than 0.03 eV compared with the full-space ppRPA results. As a side product, we also applied the active-space ppRPA approach in the renormalized singles (RS) T-matrix approach. Combining the non-interacting pair approximation that approximates the contribution to the self-energy outside the active space, the active-space GRSTRS@PBE approach predicts accurate absolute and relative core-level binding energies with the MAEs around 1.58 and 0.3 eV, respectively. The developed linear scaling calculation of excitation energies is promising for applications to large and complex systems.
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Affiliation(s)
- Jiachen Li
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
| | - Jincheng Yu
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
| | - Zehua Chen
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
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3
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A combined theoretical and experimental study of photo-induced intramolecular hydrogen transfer of 2,4,6-trinitrotoluene. FIREPHYSCHEM 2022. [DOI: 10.1016/j.fpc.2022.12.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
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4
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Li J, Golze D, Yang W. Combining Renormalized Singles GW Methods with the Bethe-Salpeter Equation for Accurate Neutral Excitation Energies. J Chem Theory Comput 2022; 18:6637-6645. [PMID: 36279250 PMCID: PMC9972216 DOI: 10.1021/acs.jctc.2c00686] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We apply the renormalized singles (RS) Green's function in the Bethe-Salpeter equation (BSE)/GW approach to predict accurate neutral excitation energies of molecular systems. The BSE calculations are performed on top of the GRSWRS method, which uses the RS Green's function also for the computation of the screened Coulomb interaction W. We show that the BSE/GRSWRS approach significantly outperforms BSE/G0W0 for predicting excitation energies of valence, Rydberg, and charge-transfer (CT) excitations by benchmarking the Truhlar-Gagliardi set, Stein CT set, and an atomic Rydberg test set. For the Truhlar-Gagliardi test set, BSE/GRSWRS provides comparable accuracy to time-dependent density functional theory (TDDFT) and is slightly better than BSE starting from eigenvalue self-consistent GW (evGW). For the Stein CT test set, BSE/GRSWRS significantly outperforms BSE/G0W0 and TDDFT with the accuracy comparable to BSE/evGW. We also show that BSE/GRSWRS predicts Rydberg excitation energies of atomic systems well. Besides the excellent accuracy, BSE/GRSWRS largely eliminates the dependence on the choice of the density functional approximation. This work demonstrates that the BSE/GRSWRS approach is accurate and efficient for predicting excitation energies for a broad range of systems, which expands the applicability of the BSE/GW approach.
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Affiliation(s)
- Jiachen Li
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
| | - Dorothea Golze
- Faculty of Chemistry and Food Chemistry, Technische Universität Dresden, 01062 Dresden, Germany
| | - Weitao Yang
- Department of Chemistry, Duke University, Durham, North Carolina 27708, United States
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5
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Li J, Jin Y, Su NQ, Yang W. Combining Localized Orbital Scaling Correction and Bethe-Salpeter Equation for Accurate Excitation Energies. J Chem Phys 2022; 156:154101. [PMID: 35459294 PMCID: PMC9033305 DOI: 10.1063/5.0087498] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We applied localized orbital scaling correction (LOSC) in Bethe-Salpeter equation (BSE) to predict accurate excitation energies for molecules. LOSC systematically eliminates the delocalization error in the density functional approximation and is capable of approximating quasiparticle (QP) energies with accuracy similar or better than the GW Green's function approach and with much less computational cost. The QP energies from LOSC instead of commonly used G0 W0 and ev GW are directly used in BSE. We show that the BSE/LOSC approach greatly outperforms the commonly used BSE/ G0W0 approach for predicting excitations with different characters. For the calculations for Truhlar-Gagliardi test set containing valence, charge transfer (CT) and Rydberg excitations, BSE/LOSC with the Tamm-Dancoff approximation provides a comparable accuracy to time-dependent density functional theory (TDDFT) and BSE/ev GW. For the calculations of Stein CT test set and Rydberg excitations of atoms, BSE/LOSC considerably outperforms both BSE/ G0W0 and TDDFT approaches with a reduced starting point dependence. BSE/LOSC is thus a promising and efficient approach to calculate excitation energies for molecular systems.
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Affiliation(s)
- Jiachen Li
- Department of Chemistry, Duke University, United States of America
| | - Ye Jin
- Department of Chemistry, United States of America
| | | | - Weitao Yang
- Department of Chemistry, Duke University, United States of America
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6
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Liu R, Shang F, Xiong Y, Zhang C, Yang S, Zhou P, Liu J. A combined experimental and theoretical investigation of the excited-state dynamics of 2,4,6-trinitrotoluene (TNT) in DMSO solvent. Phys Chem Chem Phys 2021; 23:20718-20723. [PMID: 34516599 DOI: 10.1039/d1cp01782a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In the present contribution we carried out a TDDFT and femtosecond transient absorption study of the excited state dynamics of TNT in DMSO solvent. Vertical excitation and excited state relaxation were calculated at the SMD/M06-2X/TZVP level of theory. The electron absorption spectrum for the DMSO solvated TNT was calculated and compared with the experimental results. The results of the electronic excitation energies and the spin-orbital constants imply an intersystem crossing for the S1-T2 transition. The femtosecond time-resolved transient absorption measurements of the TNT in DMSO show the presence of two absorption signals around 650 nm and 540 nm, which are assigned to the population in the lowest singlet and triplet excited states, S1 and T1, respectively. The fast decay of the S1 state population is assigned to an efficient S1-T2 intersystem crossing, which soon internally converts to the T1 state. The slow decay of the T1 population is attributed to the nonradiative transition to the S0 state. The combined theoretical and experimental results present a mechanistic view of the photophysical dynamics of TNT in DMSO solution.
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Affiliation(s)
- Runze Liu
- Institute of Molecular Sciences and Engineering, Shandong University, Qingdao 266235, P. R. China.
| | - Fangjian Shang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, P. R. China. .,University of the Chinese Academy of Sciences, Beijing 10049, P. R. China
| | - Ying Xiong
- Institute of Chemical Materials, China Academy of Engineering Physics, Mianyang 621900, P. R. China
| | - Chaoyang Zhang
- Institute of Chemical Materials, China Academy of Engineering Physics, Mianyang 621900, P. R. China
| | - Songqiu Yang
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, P. R. China.
| | - Panwang Zhou
- Institute of Molecular Sciences and Engineering, Shandong University, Qingdao 266235, P. R. China.
| | - Jianyong Liu
- State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, P. R. China.
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7
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Li Manni G. Modeling magnetic interactions in high-valent trinuclear [Mn 3(IV)O 4] 4+ complexes through highly compressed multi-configurational wave functions. Phys Chem Chem Phys 2021; 23:19766-19780. [PMID: 34525156 DOI: 10.1039/d1cp03259c] [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
In this work we apply a quantum chemical framework, recently designed in our laboratories, to rationalize the low-energy electronic spectrum and the magnetic properties of an homo-valent trinuclear [Mn3(IV)O4]4+ model of the oxygen-evolving center in photosystem II. The method is based on chemically motivated molecular orbital unitary transformations, and the optimization of spin-adapted many-body wave functions, both for ground- and excited-states, in the transformed MO basis. In this basis, the configuration interaction Hamiltonian matrix of exchange-coupled multi-center clusters is extremely sparse and characterized by a unique block diagonal structure. This property leads to highly compressed wave functions (oligo- or single-reference) and crucially enables state-specific optimizations. This work is the first showing that compression and selective targeting of ground- and excited-states wave functions is possible for systems with three magnetic centers that are not exactly half-filled, and that potentially exhibit frustrated spin interactions. The reduced multi-reference character of the wave function greatly simplifies the interpretation of the ground- and excited-state electronic structures, and provides a route for the direct rationalization of magnetic interactions in these compounds, often considered a challenge in polynuclear transition-metal chemistry. In this study, strong electron correlation effects have explicitly been described by conventional and stochastic multiconfigurational methodologies, while dynamic correlation effects have been accounted for by multiconfigurational second order perturbation theory, CASPT2. Ab initio results for the [Mn3(IV)O4]4+ system have been mapped to a three-site Heisenberg model with two magnetic coupling constants. The magnetic coupling constants and the temperature dependence of the effective magnetic moment predicted by the ab initio calculations are in good agreement with the available experimental data, and confirm the antiferromagnetic interaction among the three magnetic centers, while providing a simple and rigorous description of the noncollinearity of the local spins, that characterize most of the low-energy states for this system.
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Affiliation(s)
- Giovanni Li Manni
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany.
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8
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Li Manni G, Dobrautz W, Bogdanov NA, Guther K, Alavi A. Resolution of Low-Energy States in Spin-Exchange Transition-Metal Clusters: Case Study of Singlet States in [Fe(III) 4S 4] Cubanes. J Phys Chem A 2021; 125:4727-4740. [PMID: 34048648 PMCID: PMC8201447 DOI: 10.1021/acs.jpca.1c00397] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
![]()
Polynuclear transition-metal
(PNTM) clusters owe their catalytic
activity to numerous energetically low-lying spin states and stable
oxidation states. The characterization of their electronic structure
represents one of the greatest challenges of modern chemistry. We
propose a theoretical framework that enables the resolution of targeted
electronic states with ease and apply it to two [Fe(III)4S4] cubanes. Through direct access to their many-body
wave functions, we identify important correlation mechanisms and their
interplay with the geometrical distortions observed in these clusters,
which are core properties in understanding their catalytic activity.
The simulated magnetic coupling constants predicted by our strategy
allow us to make qualitative connections between spin interactions
and geometrical distortions, demonstrating its predictive power. Moreover,
despite its simplicity, the strategy provides magnetic coupling constants
in good agreement with the available experimental ones. The complexes
are intrinsically frustrated anti-ferromagnets, and the obtained spin
structures together with the geometrical distortions represent two
possible ways to release spin frustration (spin-driven Jahn–Teller
distortion). Our paradigm provides a simple, yet rigorous, route to
uncover the electronic structure of PNTM clusters and may be applied
to a wide variety of such clusters.
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Affiliation(s)
- Giovanni Li Manni
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Werner Dobrautz
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Nikolay A Bogdanov
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Kai Guther
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Ali Alavi
- Department of Electronic Structure Theory, Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany.,Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
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9
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Qin X, Chen X. Remote Water-Mediated Proton Transfer Triggers Inter-Cu Electron Transfer: Nitrite Reduction Activation in Copper-Containing Nitrite Reductase. Chembiochem 2021; 22:1405-1414. [PMID: 33295048 DOI: 10.1002/cbic.202000644] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Revised: 12/07/2020] [Indexed: 11/05/2022]
Abstract
The copper-containing nitrite reductase (CuNiR) catalyzes the biological conversion of nitrite to nitric oxide; key long-range electron/proton transfers are involved in the catalysis. However, the details of the electron-/proton-transfer mechanism are still unknown. In particular, the driving force of the electron transfer from the type-1 copper (T1Cu) site to the type-2 copper (T2Cu) site is ambiguous. Here, we explored the two possible proton-transfer channels, the high-pH proton channel and the primary proton channel, by using two-layered ONIOM calculations. Our calculation results reveal that the driving force for electron transfer from T1Cu to T2Cu comes from a remote water-mediated triple-proton-coupled electron-transfer mechanism. In the high-pH proton channel, the water-mediated triple-proton transfer occurs from Glu113 to an intermediate water molecule, whereas in the primary channel, the transfer is from Lys128 to His260. Subsequently, the two channels employ another two or three distinct proton-transfer steps to deliver the proton to the nitrite substrate at the T2Cu site. These findings explain the detailed proton-/electron-transfer mechanisms of copper-containing nitrite reductase and could extend our understanding of the diverse proton-coupled electron-transfer mechanisms in complicated proteins.
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Affiliation(s)
- Xin Qin
- Chongqing Key Laboratory of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, 55 University City South Road, Shapingba District, Chongqing, 401331, P. R. China.,National-Municipal Joint Engineering Laboratory for Chemical Process Intensification and Reaction, Chongqing University, Chongqing, 401331, P. R. China
| | - Xiaohua Chen
- Chongqing Key Laboratory of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, 55 University City South Road, Shapingba District, Chongqing, 401331, P. R. China.,National-Municipal Joint Engineering Laboratory for Chemical Process Intensification and Reaction, Chongqing University, Chongqing, 401331, P. R. China
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10
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Li X, Govind N, Isborn C, DePrince AE, Lopata K. Real-Time Time-Dependent Electronic Structure Theory. Chem Rev 2020; 120:9951-9993. [DOI: 10.1021/acs.chemrev.0c00223] [Citation(s) in RCA: 64] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xiaosong Li
- Department of Chemistry, University of Washington, Seattle, Washington 98195-1700, United States
| | - Niranjan Govind
- Physical and Computational Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Christine Isborn
- Department of Chemistry and Chemical Biology, University of California, Merced, California 95343, United States
| | - A. Eugene DePrince
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306-4390, United States
| | - Kenneth Lopata
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
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11
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de Wergifosse M, Seibert J, Champagne B, Grimme S. Are Fully Conjugated Expanded Indenofluorenes Analogues and Diindeno[n]thiophene Derivatives Diradicals? A Simplified (Spin-Flip) Time-Dependent Density Functional Theory [(SF-)sTD-DFT] Study. J Phys Chem A 2019; 123:9828-9839. [DOI: 10.1021/acs.jpca.9b08474] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Marc de Wergifosse
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Beringstrasse 4, 53115 Bonn, Germany
| | - Jakob Seibert
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Beringstrasse 4, 53115 Bonn, Germany
| | - Benoît Champagne
- Laboratoire de Chimie Théorique, Département de Chimie, Namur Institute of Structured Matter, 5000 Namur, Belgium
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Beringstrasse 4, 53115 Bonn, Germany
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12
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de Wergifosse M, Bannwarth C, Grimme S. A Simplified Spin-Flip Time-Dependent Density Functional Theory Approach for the Electronic Excitation Spectra of Very Large Diradicals. J Phys Chem A 2019; 123:5815-5825. [DOI: 10.1021/acs.jpca.9b03176] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Marc de Wergifosse
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Beringstr. 4, 53115 Bonn, Germany
| | - Christoph Bannwarth
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Beringstr. 4, 53115 Bonn, Germany
- Department of Chemistry, Stanford University Stanford, California 94305, United States
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Beringstr. 4, 53115 Bonn, Germany
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13
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Ghosh S, Verma P, Cramer CJ, Gagliardi L, Truhlar DG. Combining Wave Function Methods with Density Functional Theory for Excited States. Chem Rev 2018; 118:7249-7292. [PMID: 30044618 DOI: 10.1021/acs.chemrev.8b00193] [Citation(s) in RCA: 128] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
We review state-of-the-art electronic structure methods based both on wave function theory (WFT) and density functional theory (DFT). Strengths and limitations of both the wave function and density functional based approaches are discussed, and modern attempts to combine these two methods are presented. The challenges in modeling excited-state chemistry using both single-reference and multireference methods are described. Topics covered include background, combining density functional theory with single-configuration wave function theory, generalized Kohn-Sham (KS) theory, global hybrids, range-separated hybrids, local hybrids, using KS orbitals in many-body theory (including calculations of the self-energy and the GW approximation), Bethe-Salpeter equation, algorithms to accelerate GW calculations, combining DFT with multiconfigurational WFT, orbital-dependent correlation functionals based on multiconfigurational WFT, building multiconfigurational wave functions from KS configurations, adding correlation functionals to multiconfiguration self-consistent-field (MCSCF) energies, combining DFT with configuration-interaction singles by means of time-dependent DFT, using range separation to combine DFT with MCSCF, embedding multiconfigurational WFT in DFT, and multiconfiguration pair-density functional theory.
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Affiliation(s)
- Soumen Ghosh
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute , University of Minnesota , 207 Pleasant Street SE , Minneapolis , Minnesota 55455-0431 , United States
| | - Pragya Verma
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute , University of Minnesota , 207 Pleasant Street SE , Minneapolis , Minnesota 55455-0431 , United States
| | - Christopher J Cramer
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute , University of Minnesota , 207 Pleasant Street SE , Minneapolis , Minnesota 55455-0431 , United States
| | - Laura Gagliardi
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute , University of Minnesota , 207 Pleasant Street SE , Minneapolis , Minnesota 55455-0431 , United States
| | - Donald G Truhlar
- Department of Chemistry, Chemical Theory Center, and Minnesota Supercomputing Institute , University of Minnesota , 207 Pleasant Street SE , Minneapolis , Minnesota 55455-0431 , United States
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14
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Crespo-Otero R, Barbatti M. Recent Advances and Perspectives on Nonadiabatic Mixed Quantum–Classical Dynamics. Chem Rev 2018; 118:7026-7068. [DOI: 10.1021/acs.chemrev.7b00577] [Citation(s) in RCA: 301] [Impact Index Per Article: 50.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Rachel Crespo-Otero
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, United Kingdom
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15
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Mato J, Gordon MS. A general spin-complete spin-flip configuration interaction method. Phys Chem Chem Phys 2018; 20:2615-2626. [DOI: 10.1039/c7cp06837a] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A new spin-complete spin-flip configuration interaction (SF-CI) method was developed using the ORMAS-CI algorithm, along with a perturbative correction for capturing dynamic and non-dynamic correlation.
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Affiliation(s)
- Joani Mato
- Department of Chemistry
- Iowa State University
- Ames
- USA
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16
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Qin X, Deng L, Hu C, Li L, Chen X. Copper-Containing Nitrite Reductase Employing Proton-Coupled Spin-Exchanged Electron-Transfer and Multiproton Synchronized Transfer to Reduce Nitrite. Chemistry 2017; 23:14900-14910. [DOI: 10.1002/chem.201703221] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2017] [Indexed: 11/08/2022]
Affiliation(s)
- Xin Qin
- National-Municipal Joint Engineering Laboratory for Chemical; Process Intensification and Reaction; School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 401331 P.R. China
| | - Li Deng
- National-Municipal Joint Engineering Laboratory for Chemical; Process Intensification and Reaction; School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 401331 P.R. China
| | - Caihong Hu
- National-Municipal Joint Engineering Laboratory for Chemical; Process Intensification and Reaction; School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 401331 P.R. China
| | - Li Li
- National-Municipal Joint Engineering Laboratory for Chemical; Process Intensification and Reaction; School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 401331 P.R. China
| | - Xiaohua Chen
- National-Municipal Joint Engineering Laboratory for Chemical; Process Intensification and Reaction; School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 401331 P.R. China
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17
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Yu HS, Li SL, Truhlar DG. Perspective: Kohn-Sham density functional theory descending a staircase. J Chem Phys 2016; 145:130901. [DOI: 10.1063/1.4963168] [Citation(s) in RCA: 204] [Impact Index Per Article: 25.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Haoyu S. Yu
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, USA
| | - Shaohong L. Li
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, USA
| | - Donald G. Truhlar
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431, USA
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18
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Du L, Lan Z. An On-the-Fly Surface-Hopping Program JADE for Nonadiabatic Molecular Dynamics of Polyatomic Systems: Implementation and Applications. J Chem Theory Comput 2016; 11:1360-74. [PMID: 26574348 DOI: 10.1021/ct501106d] [Citation(s) in RCA: 89] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Nonadiabatic dynamics simulations have rapidly become an indispensable tool for understanding ultrafast photochemical processes in complex systems. Here, we present our recently developed on-the-fly nonadiabatic dynamics package, JADE, which allows researchers to perform nonadiabatic excited-state dynamics simulations of polyatomic systems at an all-atomic level. The nonadiabatic dynamics is based on Tully's surface-hopping approach. Currently, several electronic structure methods (CIS, TDHF, TDDFT(RPA/TDA), and ADC(2)) are supported, especially TDDFT, aiming at performing nonadiabatic dynamics on medium- to large-sized molecules. The JADE package has been interfaced with several quantum chemistry codes, including Turbomole, Gaussian, and Gamess (US). To consider environmental effects, the Langevin dynamics was introduced as an easy-to-use scheme into the standard surface-hopping dynamics. The JADE package is mainly written in Fortran for greater numerical performance and Python for flexible interface construction, with the intent of providing open-source, easy-to-use, well-modularized, and intuitive software in the field of simulations of photochemical and photophysical processes. To illustrate the possible applications of the JADE package, we present a few applications of excited-state dynamics for various polyatomic systems, such as the methaniminium cation, fullerene (C20), p-dimethylaminobenzonitrile (DMABN) and its primary amino derivative aminobenzonitrile (ABN), and 10-hydroxybenzo[h]quinoline (10-HBQ).
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Affiliation(s)
- Likai Du
- Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences , Qingdao, 266101 Shandong, People's Republic of China.,University of Chinese Academy of Sciences , Beijing 100049, People's Republic of China.,The Qingdao Key Lab of Solar Energy Utilization and Energy Storage Technology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences , Qingdao, 266101 Shandong, People's Republic of China
| | - Zhenggang Lan
- Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences , Qingdao, 266101 Shandong, People's Republic of China.,University of Chinese Academy of Sciences , Beijing 100049, People's Republic of China.,The Qingdao Key Lab of Solar Energy Utilization and Energy Storage Technology, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences , Qingdao, 266101 Shandong, People's Republic of China
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Zhang X, Herbert JM. Spin-flip, tensor equation-of-motion configuration interaction with a density-functional correction: A spin-complete method for exploring excited-state potential energy surfaces. J Chem Phys 2015; 143:234107. [DOI: 10.1063/1.4937571] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Xing Zhang
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, USA
| | - John M. Herbert
- Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, USA
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20
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Hoyer CE, Gagliardi L, Truhlar DG. Multiconfiguration Pair-Density Functional Theory Spectral Calculations Are Stable to Adding Diffuse Basis Functions. J Phys Chem Lett 2015; 6:4184-4188. [PMID: 26722961 DOI: 10.1021/acs.jpclett.5b01888] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Time-dependent Kohn-Sham density functional theory (TD-KS-DFT) is useful for calculating electronic excitation spectra of large systems, but the low-energy spectra are often complicated by artificially lowered higher-energy states. This affects even the lowest energy excited states. Here, by calculating the lowest energy spin-conserving excited state for atoms from H to K and for formaldehyde, we show that this problem does not occur in multiconfiguration pair-density functional theory (MC-PDFT). We use the tPBE on-top density functional, which is a translation of the PBE exchange-correlation functional. We compare to a robust multireference method, namely, complete active space second-order perturbation theory (CASPT2), and to TD-KS-DFT with two popular exchange-correlation functionals, PBE and PBE0. We find for atoms that the mean unsigned error (MUE) of MC-PDFT with the tPBE functional improves from 0.42 to 0.40 eV with a double set of diffuse functions, whereas the MUEs for PBE and PBE0 drastically increase from 0.74 to 2.49 eV and from 0.45 to 1.47 eV, respectively.
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Affiliation(s)
- Chad E Hoyer
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota , 207 Pleasant Street South East, Minneapolis, Minnesota 55455, United States
| | - Laura Gagliardi
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota , 207 Pleasant Street South East, Minneapolis, Minnesota 55455, United States
| | - Donald G Truhlar
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota , 207 Pleasant Street South East, Minneapolis, Minnesota 55455, United States
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21
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Goings JJ, Ding F, Davidson ER, Li X. Approximate singly excited states from a two-component Hartree-Fock reference. J Chem Phys 2015; 143:144106. [DOI: 10.1063/1.4932540] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023] Open
Affiliation(s)
- Joshua J. Goings
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
| | - Feizhi Ding
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
| | - Ernest R. Davidson
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
| | - Xiaosong Li
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
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Li SL, Truhlar DG. Improving Rydberg Excitations within Time-Dependent Density Functional Theory with Generalized Gradient Approximations: The Exchange-Enhancement-for-Large-Gradient Scheme. J Chem Theory Comput 2015; 11:3123-30. [DOI: 10.1021/acs.jctc.5b00369] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Shaohong L. Li
- Department of Chemistry,
Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Donald G. Truhlar
- Department of Chemistry,
Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455, United States
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23
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Brunk E, Rothlisberger U. Mixed Quantum Mechanical/Molecular Mechanical Molecular Dynamics Simulations of Biological Systems in Ground and Electronically Excited States. Chem Rev 2015; 115:6217-63. [PMID: 25880693 DOI: 10.1021/cr500628b] [Citation(s) in RCA: 299] [Impact Index Per Article: 33.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Elizabeth Brunk
- †Laboratory of Computational Chemistry and Biochemistry, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland.,‡Joint BioEnergy Institute, Lawrence Berkeley National Laboratory, Emeryville, California 94618, United States
| | - Ursula Rothlisberger
- †Laboratory of Computational Chemistry and Biochemistry, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland.,§National Competence Center of Research (NCCR) MARVEL-Materials' Revolution: Computational Design and Discovery of Novel Materials, 1015 Lausanne, Switzerland
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24
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Minezawa N. Vertical excitation energies of linear cyanine dyes by spin-flip time-dependent density functional theory. Chem Phys Lett 2015. [DOI: 10.1016/j.cplett.2015.01.033] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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25
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Ding F, Goings JJ, Frisch MJ, Li X. Ab initio non-relativistic spin dynamics. J Chem Phys 2014; 141:214111. [DOI: 10.1063/1.4902884] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023] Open
Affiliation(s)
- Feizhi Ding
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
| | - Joshua J. Goings
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
| | - Michael J. Frisch
- Gaussian, Inc., 340 Quinnipiac St, Bldg 40, Wallingford, Connecticut 06492, USA
| | - Xiaosong Li
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
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26
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Mayhall NJ, Head-Gordon M. Computational quantum chemistry for single Heisenberg spin couplings made simple: Just one spin flip required. J Chem Phys 2014; 141:134111. [DOI: 10.1063/1.4896659] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Affiliation(s)
- Nicholas J. Mayhall
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, USA and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
| | - Martin Head-Gordon
- Kenneth S. Pitzer Center for Theoretical Chemistry, Department of Chemistry, University of California, Berkeley, California 94720, USA and Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
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Li SL, Truhlar DG. Testing time-dependent density functional theory with depopulated molecular orbitals for predicting electronic excitation energies of valence, Rydberg, and charge-transfer states and potential energies near a conical intersection. J Chem Phys 2014; 141:104106. [DOI: 10.1063/1.4894522] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Shaohong L. Li
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455, USA
| | - Donald G. Truhlar
- Department of Chemistry, Chemical Theory Center, and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455, USA
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