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Valenzuela Reina J, Civaia F, Harper AF, Scheurer C, Köcher SS. The EFG Rosetta Stone: translating between DFT calculations and solid state NMR experiments. Faraday Discuss 2025; 255:266-287. [PMID: 39291349 DOI: 10.1039/d4fd00075g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/19/2024]
Abstract
We present a comprehensive study on the best practices for integrating first principles simulations in experimental quadrupolar solid-state nuclear magnetic resonance (SS-NMR), exploiting the synergies between theory and experiment for achieving the optimal interpretation of both. Most high performance materials (HPMs), such as battery electrodes, exhibit complex SS-NMR spectra due to dynamic effects or amorphous phases. NMR crystallography for such challenging materials requires reliable, accurate, efficient computational methods for calculating NMR observables from first principles for the transfer between theoretical material structure models and the interpretation of their experimental SS-NMR spectra. NMR-active nuclei within HPMs are routinely probed by their chemical shielding anisotropy (CSA). However, several nuclear isotopes of interest, e.g.7Li and 27Al, have a nuclear quadrupole and experience additional interactions with the surrounding electric field gradient (EFG). The quadrupolar interaction is a valuable source of information about atomistic structure, and in particular, local symmetry, complementing the CSA. As such, there is a range of different methods and codes to choose from for calculating EFGs, from all-electron to plane wave methods. We benchmark the accuracy of different simulation strategies for computing the EFG tensor of quadrupolar nuclei with plane wave density functional theory (DFT) and study the impact of the material structure as well as the details of the simulation strategy. Especially for small nuclei with few electrons, such as 7Li, we show that the choice of physical approximations and simulation parameters has a large effect on the transferability of the simulation results. To the best of our knowledge, we present the first comprehensive reference scale and literature survey for 7Li quadrupolar couplings. The results allow us to establish practical guidelines for developing the best simulation strategy for correlating DFT to experimental data extracting the maximum benefit and information from both, thereby advancing further research into HPMs.
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Affiliation(s)
| | - Federico Civaia
- Fritz-Haber Institute of the Max Planck Society, Berlin, Germany
| | - Angela F Harper
- Fritz-Haber Institute of the Max Planck Society, Berlin, Germany
| | | | - Simone S Köcher
- Fritz-Haber Institute of the Max Planck Society, Berlin, Germany
- Institut für Energie und Klimaforschung (IEK-9), Forschungszentrum Jülich GmbH, Jülich, Germany.
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2
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Ren Z, Shi Z, Feng H, Xu Z, Hao W. Recent Progresses of Polarons: Fundamentals and Roles in Photocatalysis and Photoelectrocatalysis. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2305139. [PMID: 37949811 PMCID: PMC11462309 DOI: 10.1002/advs.202305139] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Revised: 09/21/2023] [Indexed: 11/12/2023]
Abstract
Photocatalysis and photoelectrocatalysis are promising ways in the utilization of solar energy. To address the low efficiency of photocatalysts and photoelectrodes, in-depth understanding of their catalytic mechanism is in urgent need. Recently, polaron is considered as an influential factor in catalysis, which brings researchers a new approach to modify photocatalysts and photoelectrodes. In this review, brief introduction of polaron is given first, followed by which models and recent experimentally observations of polarons are reviewed. Studies about roles of polarons in photocatalysis and photoelectrocatalysis are listed in order to provide some inspiration in exploring the mechanism and improving the efficiency of photocatalysis and photoelectrocatalysis.
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Affiliation(s)
- Zhizhen Ren
- School of PhysicsBeihang UniversityBeijing100191China
| | - Zhijian Shi
- School of PhysicsBeihang UniversityBeijing100191China
| | - Haifeng Feng
- School of PhysicsBeihang UniversityBeijing100191China
| | - Zhongfei Xu
- College of Environmental Science and EngineeringNorth China Electric Power UniversityBeijing102206China
| | - Weichang Hao
- School of PhysicsBeihang UniversityBeijing100191China
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3
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Yang MY, Wu XP. Level-Shifted Embedded Cluster Method for Modeling the Chemistry of Metal Oxides. J Chem Theory Comput 2024. [PMID: 38300767 DOI: 10.1021/acs.jctc.3c01123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2024]
Abstract
The embedded cluster method has been used extensively in the study of the chemical and physical properties of metal oxides. This method has been a popular tool due to its relatively high accuracy and low computational cost. An even more promising option may entail integrating the embedded cluster method with the combined quantum mechanical and molecular mechanical (QM/MM) approach, thereby enabling further consideration of interactions within the entire system for superior results. We aim to accurately model the chemistry of metal oxides using this combined scheme. Here, using the prototypical MgO(100) surface as a test system, with Mg9O14 as the cluster in the quantum mechanical region, we show that the embedded cluster with untailored boundary effective core potentials (ECPs) can have frontier orbital energy levels that substantially deviate from the quantum mechanical reference results. This occurs even when Mg9O9, which retains the stoichiometry of MgO, is used as the cluster in the quantum mechanical region. As a result, the chemical properties of the embedded cluster models differ from those of the quantum mechanical reference model. To address this issue, we propose a new variant of the embedded cluster method called the level-shifted embedded cluster (LSEC) method, which allows the energy levels to be shifted to match the reference levels by tuning the boundary ECPs. Our validation calculations on the adsorption of various adsorbates with different properties on the MgO(100) surface show that the overall performance of QM/MM with the LSEC method is excellent for the adsorption energies, geometries, and charge properties. The excellent performance holds for both the nonstoichiometric and stoichiometric clusters (i.e., Mg9O14 and Mg9O9, respectively), demonstrating the robustness of the LSEC method. We expect that the LSEC method can be combined with QM/MM or used separately for future chemical studies of metal oxides and other ionically bonded systems.
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Affiliation(s)
- Ming-Yu Yang
- State Key Laboratory of Green Chemical Engineering and Industrial Catalysis, Centre for Computational Chemistry and Research Institute of Industrial Catalysis, School of Chemistry and Molecular Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai 200237, P.R. China
| | - Xin-Ping Wu
- State Key Laboratory of Green Chemical Engineering and Industrial Catalysis, Centre for Computational Chemistry and Research Institute of Industrial Catalysis, School of Chemistry and Molecular Engineering, East China University of Science and Technology, 130 Meilong Road, Shanghai 200237, P.R. China
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4
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Lu Y, Sen K, Yong C, Gunn DSD, Purton JA, Guan J, Desmoutier A, Abdul Nasir J, Zhang X, Zhu L, Hou Q, Jackson-Masters J, Watts S, Hanson R, Thomas HN, Jayawardena O, Logsdail AJ, Woodley SM, Senn HM, Sherwood P, Catlow CRA, Sokol AA, Keal TW. Multiscale QM/MM modelling of catalytic systems with ChemShell. Phys Chem Chem Phys 2023; 25:21816-21835. [PMID: 37097706 DOI: 10.1039/d3cp00648d] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2023]
Abstract
Hybrid quantum mechanical/molecular mechanical (QM/MM) methods are a powerful computational tool for the investigation of all forms of catalysis, as they allow for an accurate description of reactions occurring at catalytic sites in the context of a complicated electrostatic environment. The scriptable computational chemistry environment ChemShell is a leading software package for QM/MM calculations, providing a flexible, high performance framework for modelling both biomolecular and materials catalysis. We present an overview of recent applications of ChemShell to problems in catalysis and review new functionality introduced into the redeveloped Python-based version of ChemShell to support catalytic modelling. These include a fully guided workflow for biomolecular QM/MM modelling, starting from an experimental structure, a periodic QM/MM embedding scheme to support modelling of metallic materials, and a comprehensive set of tutorials for biomolecular and materials modelling.
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Affiliation(s)
- You Lu
- STFC Scientific Computing, Daresbury Laboratory, Keckwick Lane, Daresbury, Warrington, WA4 4AD, UK.
| | - Kakali Sen
- STFC Scientific Computing, Daresbury Laboratory, Keckwick Lane, Daresbury, Warrington, WA4 4AD, UK.
| | - Chin Yong
- STFC Scientific Computing, Daresbury Laboratory, Keckwick Lane, Daresbury, Warrington, WA4 4AD, UK.
| | - David S D Gunn
- STFC Scientific Computing, Daresbury Laboratory, Keckwick Lane, Daresbury, Warrington, WA4 4AD, UK.
| | - John A Purton
- STFC Scientific Computing, Daresbury Laboratory, Keckwick Lane, Daresbury, Warrington, WA4 4AD, UK.
| | - Jingcheng Guan
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Alec Desmoutier
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Jamal Abdul Nasir
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Xingfan Zhang
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Lei Zhu
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Qing Hou
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Joe Jackson-Masters
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Sam Watts
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Rowan Hanson
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Harry N Thomas
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Omal Jayawardena
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Andrew J Logsdail
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Scott M Woodley
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Hans M Senn
- School of Chemistry, University of Glasgow, Joseph Black Building, Glasgow G12 8QQ, UK
| | - Paul Sherwood
- Department of Chemistry, Lancaster University, Lancaster, LA1 4YB, UK
| | - C Richard A Catlow
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Cardiff CF10 3AT, UK
| | - Alexey A Sokol
- Kathleen Lonsdale Materials Chemistry, Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Thomas W Keal
- STFC Scientific Computing, Daresbury Laboratory, Keckwick Lane, Daresbury, Warrington, WA4 4AD, UK.
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Bramley GA, Beynon OT, Stishenko PV, Logsdail AJ. The application of QM/MM simulations in heterogeneous catalysis. Phys Chem Chem Phys 2023; 25:6562-6585. [PMID: 36810655 DOI: 10.1039/d2cp04537k] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/10/2023]
Abstract
The QM/MM simulation method is provenly efficient for the simulation of biological systems, where an interplay of extensive environment and delicate local interactions drives a process of interest through a funnel on a complex energy landscape. Recent advances in quantum chemistry and force-field methods present opportunities for the adoption of QM/MM to simulate heterogeneous catalytic processes, and their related systems, where similar intricacies exist on the energy landscape. Herein, the fundamental theoretical considerations for performing QM/MM simulations, and the practical considerations for setting up QM/MM simulations of catalytic systems, are introduced; then, areas of heterogeneous catalysis are explored where QM/MM methods have been most fruitfully applied. The discussion includes simulations performed for adsorption processes in solvent at metallic interfaces, reaction mechanisms within zeolitic systems, nanoparticles, and defect chemistry within ionic solids. We conclude with a perspective on the current state of the field and areas where future opportunities for development and application exist.
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Affiliation(s)
- Gabriel Adrian Bramley
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Park Place, CF10 3AT, UK.
| | - Owain Tomos Beynon
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Park Place, CF10 3AT, UK.
| | | | - Andrew James Logsdail
- Cardiff Catalysis Institute, School of Chemistry, Cardiff University, Park Place, CF10 3AT, UK.
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Bagus PS, Nelin CJ, Brundle CR, Crist BV, Ilton ES, Lahiri N, Rosso KM. Main and Satellite Features in the Ni 2p XPS of NiO. Inorg Chem 2022; 61:18077-18094. [DOI: 10.1021/acs.inorgchem.2c02549] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Paul S. Bagus
- Department of Chemistry, University of North Texas, Denton, Texas 76203-5017, United States
| | | | | | | | - Eugene S. Ilton
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Nabajit Lahiri
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Kevin M. Rosso
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
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Shi BX, Kapil V, Zen A, Chen J, Alavi A, Michaelides A. General embedded cluster protocol for accurate modeling of oxygen vacancies in metal-oxides. J Chem Phys 2022; 156:124704. [DOI: 10.1063/5.0087031] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
The O vacancy (Ov) formation energy, EOv, is an important property of a metal-oxide, governing its performance in applications such as fuel cells or heterogeneous catalysis. These defects are routinely studied with density functional theory (DFT). However, it is well-recognized that standard DFT formulations (e.g., the generalized gradient approximation) are insufficient for modeling the Ov, requiring higher levels of theory. The embedded cluster method offers a promising approach to compute EOv accurately, giving access to all electronic structure methods. Central to this approach is the construction of quantum(-mechanically treated) clusters placed within suitable embedding environments. Unfortunately, current approaches to constructing the quantum clusters either require large system sizes, preventing application of high-level methods, or require significant manual input, preventing investigations of multiple systems simultaneously. In this work, we present a systematic and general quantum cluster design protocol that can determine small converged quantum clusters for studying the Ov in metal-oxides with accurate methods, such as local coupled cluster with single, double, and perturbative triple excitations. We apply this protocol to study the Ov in the bulk and surface planes of rutile TiO2 and rock salt MgO, producing the first accurate and well-converged determinations of EOv with this method. These reference values are used to benchmark exchange–correlation functionals in DFT, and we find that all the studied functionals underestimate EOv, with the average error decreasing along the rungs of Jacob’s ladder. This protocol is automatable for high-throughput calculations and can be generalized to study other point defects or adsorbates.
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Affiliation(s)
- Benjamin X. Shi
- Yusuf Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
| | - Venkat Kapil
- Yusuf Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Churchill College, University of Cambridge, Storey’s Way, Cambridge CB3 0DS, United Kingdom
| | - Andrea Zen
- Dipartimento di Fisica Ettore Pancini, Università di Napoli Federico II, Monte S. Angelo, I-80126 Napoli, Italy
- Department of Earth Sciences, University College London, Gower Street, London WC1E 6BT, United Kingdom
| | - Ji Chen
- School of Physics, Peking University, Beijing 100871, China
| | - Ali Alavi
- Yusuf Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Max Planck Institute for Solid State Research, Heisenbergstraße 1, 70569 Stuttgart, Germany
| | - Angelos Michaelides
- Yusuf Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
- Department of Physics and Astronomy, University College London, Gower Street, London WC1E 6BT, United Kingdom
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
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Gerhards L, Klüner T. Theoretical investigation of CH-bond activation by photocatalytic excited SO 2 and the effects of C-, N-, S-, and Se-doped TiO 2. Phys Chem Chem Phys 2022; 24:2051-2069. [PMID: 35014643 DOI: 10.1039/d1cp04335h] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The photocatalytic sulfoxidation on TiO2 discovered by Parrino et al. represents a new, interesting and lower energy route for the synthesis of sulfonic acids. Sulfonic acids are important precursors for dyes, detergents and drugs. In the commonly known industrial process, SO2 and a specific hydrocarbon are converted into sulfonic acids using high-energy UV light. In this reaction, SO2 is excited into a metastable triplet state (3SO2), which has the potential to activate a CH-bond of hydrocarbons and start a radical reaction cycle. By introducing TiO2 as a photocatalyst, it has been shown that visible light can be used for the synthesis. This offers the potential to be a cost-effective reaction approach for industrial use. However, experimental studies indicate that the initial excitation mechanism of SO2 on TiO2 is significantly different from the catalyst-free mechanism. Parrino et al. were able to reveal first evidence for the existence of a charge-transfer process from SO2 to the TiO2 surface by means of electrochemical experiments. First theoretical investigations from first principles were able to further substantiate the existence of a charge-transfer. However, to fully understand this mechanism, more accurate methods such as Time Dependent Density Functional Theory (TD-DFT) or ab initio multireference methods such as the Complete Active Space Self Consistent Field (CASSCF) method are required. Furthermore, after understanding the charge-transfer mechanism, the introduction of dopants into TiO2 can be investigated in order to possibly redshift the excitation energy. This might open the route to using lower energy light for the sulfoxidation of hydrocarbons on TiO2 as a new potential industrial reaction for the synthesis of sulfonic acids. In this work, we will study the initial step of the photocatalytic sulfoxidation of hydrocarbons using the TD-DFT and CASSCF methods by using a combined approach consisting of calculations with periodic boundary conditions and a newly constructed embedded cluster model. Furthermore, we will explore the effects of doping by introducing four heteroatoms (C, N, S, and Se) into the TiO2 surfaces anatase[101] and rutile[110] to find a possible enhancement of the photocatalytic reactivity by lowering the electronic excitation energy.
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Affiliation(s)
- Luca Gerhards
- School of Mathematics and Science Chemistry Department Carl von Ossietzky University of Oldenburg, 26111 Oldenburg, Germany.
| | - Thorsten Klüner
- School of Mathematics and Science Chemistry Department Carl von Ossietzky University of Oldenburg, 26111 Oldenburg, Germany.
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Chen J, Bogdanov NA, Usvyat D, Fang W, Michaelides A, Alavi A. The color center singlet state of oxygen vacancies in TiO2. J Chem Phys 2020; 153:204704. [DOI: 10.1063/5.0030658] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Affiliation(s)
- Ji Chen
- School of Physics, Peking University, Beijing 100871, People’s Republic of China
- Institut für Chemie, Humboldt-Universität zu Berlin, Brook-Taylor-St. 2, D-12489 Berlin, Germany
| | - Nikolay A. Bogdanov
- Max Planck Institute for Solid State Research, Heisenbergstrasse 1, 70569 Stuttgart, Germany
| | - Denis Usvyat
- Institut für Chemie, Humboldt-Universität zu Berlin, Brook-Taylor-St. 2, D-12489 Berlin, Germany
| | - Wei Fang
- Laboratory of Physical Chemistry, ETH Zurich, CH-8093 Zurich, Switzerland
| | - Angelos Michaelides
- Institut für Chemie, Humboldt-Universität zu Berlin, Brook-Taylor-St. 2, D-12489 Berlin, Germany
- Department of Physics and Astronomy, London Centre for Nanotechnology, Thomas Young Centre, University College London, Gower Street, London WC1E 6BT, United Kingdom
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
| | - Ali Alavi
- Institut für Chemie, Humboldt-Universität zu Berlin, Brook-Taylor-St. 2, D-12489 Berlin, Germany
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
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Teusch T, Klüner T. Photodesorption mechanism of water on WO 3(001) - a combined embedded cluster, computational intelligence and wave packet approach. Phys Chem Chem Phys 2020; 22:19267-19274. [PMID: 32815960 DOI: 10.1039/d0cp02809f] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this work we investigate the mechanism of photodesorption of water from a WO3(001) surface by theoretical calculations, applying an embedded cluster model. Using the CASSCF method, we have calculated both the ground state as well as the energetically preferred charge-transfer state in three degrees of freedom of the water molecule on the surface. The calculated potential energy surfaces were afterwards fitted with a neural network optimized by a genetic algorithm. A final quantum dynamic wave packet study provided insight into the photodesorption mechanism.
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Affiliation(s)
- Thomas Teusch
- Department of Chemistry, Carl von Ossietzky University Oldenburg, 26129 Oldenburg, Germany.
| | - Thorsten Klüner
- Department of Chemistry, Carl von Ossietzky University Oldenburg, 26129 Oldenburg, Germany.
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