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Mysovsky AS, Bogdanov AI. Seamless Multilayer─A Novel Total Energy Partition Scheme for Embedded and Hybrid Calculations. J Chem Theory Comput 2023. [PMID: 37973151 DOI: 10.1021/acs.jctc.3c00666] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
In this paper, we provide general formulation of a multilayer approach, covering both additive and subtractive quantum mechanics/molecular mechanics (QM/MM) as special cases. After that, we suggest a novel definition of QM/MM total energy based on the consideration of a system divided into three layers. In a simplified form, it is E = E Q M ( 1 + 2 ) - E Q M ( 2 ) + E M M ( 2 + 3 ) , where layers 1, 2, and 3 represent inner QM, outer QM, and classical MM regions, respectively. The novel formulation is also not limited by only QM/MM combination of methods─in fact, any computational methods can be combined in a hybrid calculation. In this paper, we call the new approach seamless multilayer. Test calculations performed for silica and boric oxide show that the new approach requires no QM/MM interface parameterization as well as no or very simple correction terms for boundary atoms. This can greatly facilitate QM/MM studies of covalent inorganic solids. However, test calculations of α-Al2O3 show that for ionic compounds, the new method requires some additional development.
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Affiliation(s)
- Andrey S Mysovsky
- A.P. Vinogradov Institute of Geochemistry SB RAS, 1a Favorsky Street, 664033 Irkutsk, Russia
- Institute of Quantum Physics, Irkutsk National Research Technical University, 83 Lermontov Street, 664074 Irkutsk, Russia
| | - Alexander I Bogdanov
- A.P. Vinogradov Institute of Geochemistry SB RAS, 1a Favorsky Street, 664033 Irkutsk, Russia
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2
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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: 7] [Impact Index Per Article: 7.0] [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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3
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Vandervelden C, Jystad A, Peters B, Caricato M. Predicted Properties of Active Catalyst Sites on Amorphous Silica: Impact of Silica Preoptimization Protocol. Ind Eng Chem Res 2021. [DOI: 10.1021/acs.iecr.1c01849] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Craig Vandervelden
- Department of Chemical Engineering, University of California, Santa Barbara, California 93106, United States
| | - Amy Jystad
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
| | - Baron Peters
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
- Department of Chemistry and Biochemistry, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Marco Caricato
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
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Comparison of Catalytic Properties of Vanadium Centers Introduced into BEA Zeolite and Present on (010) V2O5 Surface–DFT Studies. Catalysts 2020. [DOI: 10.3390/catal10091080] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Vanadium-based catalysts, in which vanadium is present either as bulk V2O5 or as isolated species, are active in numerous oxidation reactions. In the present study, vanadium speciation and the possibility of its introduction in various forms (V=O, V–OH, V(=O)(–OH)) into the structurally different crystallographic positions in BEA zeolite was considered by means of Density Functional Theory (DFT). Out of nine nonequivalent positions, T2 and T3 positions are the most preferred. The former may accommodate V=O or V–OH, the latter V–OH or V(=O)(–OH). The structural and electronic properties of all possible centers present in the BEA zeolite are then compared with the characteristics of the same species on the most abundant (010) V2O5 surface. It is demonstrated that they exhibit higher nucleophilic character when introduced into the zeolite, and thus, may be more relevant for catalysis.
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6
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Uzunova EL. Cation pair formation in copper and palladium exchanged MFI zeolite frameworks – a theoretical study. Phys Chem Chem Phys 2019; 21:14786-14798. [DOI: 10.1039/c9cp02088h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
[Pd–O–Pd]2+ as a mediator in proton transfer from Brønsted acid sites to reactants; [Cu–OH–Cu]2+ stabilized by hydrogen bonds to framework oxygen.
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Affiliation(s)
- Ellie L. Uzunova
- Institute of General and Inorganic Chemistry
- Bulgarian Academy of Sciences
- Sofia 1113
- Bulgaria
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7
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Uzunova EL. Theoretical study of nitrogen dioxide and nitric oxide co-adsorption and DeNO x reaction on Cu-SAPO−34 and Cu-SSZ−13 in presence of Brønsted acid sites. MOLECULAR CATALYSIS 2018. [DOI: 10.1016/j.mcat.2018.01.003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Uzunova EL, Mikosch H. A theoretical study of nitric oxide adsorption and dissociation on copper-exchanged zeolites SSZ-13 and SAPO-34: the impact of framework acid-base properties. Phys Chem Chem Phys 2016; 18:11233-42. [PMID: 27053488 DOI: 10.1039/c6cp01146b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The adsorption of nitric oxide as dinitrosyls and the deNOx proton-mediated reaction mechanism are assessed using electronic structure methods and transition state theory. Dinitrosyls bind to copper cations either via a N-atom or via an O-atom, with N-binding being more stable. In their ground states, dinitrosyls reach a planar configuration with the metal cation. The two nitric oxide molecules are kept together in O-bonded dinitrosyls by the N-N bond and the adsorption complex obtains a cyclic planar structure, while N-bonded dinitrosyls have out-of-plane conformations with low energy barriers. An asymmetric structure ZCu(ON)(NO) with one N-bonded nitrosyl and the other O-bonded is of the lowest stability. The cyclic hyponitrite ZCu(ON)2 adsorption complex undergoes O-N bond breaking upon protonation of one oxygen atom and this lowers the energy barrier of the first reaction step of nitric oxide dissociation to yield N2O and a hydroxylated copper site ZCu(OH) by 45 kJ mol(-1) for Cu-SAPO-34 and by 46 kJ mol(-1) for Cu-SSZ-13. The more stable N-bonded dinitrosyl ZCu(NO)2 provides less favorable reaction which passes through the asymmetric ZCu(ON)(NO) intermediate structure. Brønsted acid sites facilitate the reversal of one nitrosyl group. The role of proton transfer from a Brønsted acid site to dinitrosyls is not limited to the initial step of facilitating the N-O bond cleavage, but it also contributes to the stabilization of intermediate oxygen species formed at the copper site as hydroxide ZCu(OH) and hydroperoxide, ZCuOOH. Without protonation, the unstable ZCuO intermediate causes structural deformation with strongly lengthened T-O bonds in the framework. The rate determining step is N2O decomposition to N2 and O2, whether starting with a ZCu(NO)2 or a ZCu(ON)2 adsorption complex, and Cu-SSZ-13 has a clear advantage with an energy barrier of 195 kJ mol(-1)vs. 265 kJ mol(-1) for Cu-SAPO-34. In the final step the Brønsted acid site is restored by proton transfer from the hydroperoxide ZCuOOH to the framework and molecular oxygen is released. The overall energy barrier for the proton-assisted reaction of ZCu(ON)2 decomposition for Cu-SSZ-13 is by 48 kJ mol(-1) lower than the barrier of the proton-free pathway.
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Affiliation(s)
- Ellie L Uzunova
- Institute of General and Inorganic Chemistry, Bulgarian Academy of Sciences, Sofia 1113, Bulgaria.
| | - Hans Mikosch
- Faculty of Physics, University of Havana, Havana 10400, Cuba and Faculty of Informatics, Vienna University of Technology, 1040 Vienna, Austria
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9
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Patet RE, Caratzoulas S, Vlachos DG. Adsorption in zeolites using mechanically embedded ONIOM clusters. Phys Chem Chem Phys 2016; 18:26094-26106. [DOI: 10.1039/c6cp03266d] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
We have explored mechanically embedded three-layer QM/QM/MM ONIOM models for computational studies of binding in Al-substituted zeolites.
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Affiliation(s)
- Ryan E. Patet
- Department of Chemical and Biomolecular Engineering
- University of Delaware
- Newark
- USA
- Catalysis Center for Energy Innovation (CCEI)
| | - Stavros Caratzoulas
- Department of Chemical and Biomolecular Engineering
- University of Delaware
- Newark
- USA
- Catalysis Center for Energy Innovation (CCEI)
| | - Dionisios G. Vlachos
- Department of Chemical and Biomolecular Engineering
- University of Delaware
- Newark
- USA
- Catalysis Center for Energy Innovation (CCEI)
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Christianson JR, Caratzoulas S, Vlachos DG. Computational Insight into the Effect of Sn-Beta Na Exchange and Solvent on Glucose Isomerization and Epimerization. ACS Catal 2015. [DOI: 10.1021/acscatal.5b01258] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jeffrey R. Christianson
- Catalysis
Center for Energy
Innovation and Department of Chemical and Biomolecular Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Stavros Caratzoulas
- Catalysis
Center for Energy
Innovation and Department of Chemical and Biomolecular Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Dionisios G. Vlachos
- Catalysis
Center for Energy
Innovation and Department of Chemical and Biomolecular Engineering, University of Delaware, Newark, Delaware 19716, United States
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11
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Chung LW, Sameera WMC, Ramozzi R, Page AJ, Hatanaka M, Petrova GP, Harris TV, Li X, Ke Z, Liu F, Li HB, Ding L, Morokuma K. The ONIOM Method and Its Applications. Chem Rev 2015; 115:5678-796. [PMID: 25853797 DOI: 10.1021/cr5004419] [Citation(s) in RCA: 743] [Impact Index Per Article: 82.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Lung Wa Chung
- †Department of Chemistry, South University of Science and Technology of China, Shenzhen 518055, China
| | - W M C Sameera
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
| | - Romain Ramozzi
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
| | - Alister J Page
- §Newcastle Institute for Energy and Resources, The University of Newcastle, Callaghan 2308, Australia
| | - Miho Hatanaka
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
| | - Galina P Petrova
- ∥Faculty of Chemistry and Pharmacy, University of Sofia, Bulgaria Boulevard James Bourchier 1, 1164 Sofia, Bulgaria
| | - Travis V Harris
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan.,⊥Department of Chemistry, State University of New York at Oswego, Oswego, New York 13126, United States
| | - Xin Li
- #State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Zhuofeng Ke
- ∇School of Chemistry and Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Fengyi Liu
- ○Key Laboratory of Macromolecular Science of Shaanxi Province, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, Shaanxi 710119, China
| | - Hai-Bei Li
- ■School of Ocean, Shandong University, Weihai 264209, China
| | - Lina Ding
- ▲School of Pharmaceutical Sciences, Zhengzhou University, 100 Kexue Avenue, Zhengzhou, Henan 450001, China
| | - Keiji Morokuma
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
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12
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Kim S, Robichaud DJ, Beckham GT, Paton RS, Nimlos MR. Ethanol Dehydration in HZSM-5 Studied by Density Functional Theory: Evidence for a Concerted Process. J Phys Chem A 2015; 119:3604-14. [PMID: 25802969 DOI: 10.1021/jp513024z] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Seonah Kim
- National
Bioenergy Center, National Renewable Energy Laboratory, 15013 Denver
West Parkway, Golden, Colorado 80401-3393, United States
| | - David J. Robichaud
- National
Bioenergy Center, National Renewable Energy Laboratory, 15013 Denver
West Parkway, Golden, Colorado 80401-3393, United States
| | - Gregg T. Beckham
- National
Bioenergy Center, National Renewable Energy Laboratory, 15013 Denver
West Parkway, Golden, Colorado 80401-3393, United States
| | - Robert S. Paton
- Chemistry Research Laboratory, Mansfield Road, Oxford OX1 3TA, United Kingdom
| | - Mark R. Nimlos
- National
Bioenergy Center, National Renewable Energy Laboratory, 15013 Denver
West Parkway, Golden, Colorado 80401-3393, United States
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13
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Migues AN, Muskat A, Auerbach SM, Sherman W, Vaitheeswaran S. On the Rational Design of Zeolite Clusters. ACS Catal 2015. [DOI: 10.1021/cs501827p] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Angela N. Migues
- Department
of Chemistry, University of Massachusetts, Amherst, Massachusetts 01003, United States
| | - Adina Muskat
- Department
of Chemical Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
| | - Scott M. Auerbach
- Department
of Chemistry, University of Massachusetts, Amherst, Massachusetts 01003, United States
- Department
of Chemical Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
| | - Woody Sherman
- Schrödinger
Inc., 120 West 45th Street, New York, New York 10036, United States
| | - S. Vaitheeswaran
- Department
of Chemistry, University of Massachusetts, Amherst, Massachusetts 01003, United States
- Department
of Chemical Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
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14
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Van Speybroeck V, De Wispelaere K, Van der Mynsbrugge J, Vandichel M, Hemelsoet K, Waroquier M. First principle chemical kinetics in zeolites: the methanol-to-olefin process as a case study. Chem Soc Rev 2014; 43:7326-57. [PMID: 25054453 DOI: 10.1039/c4cs00146j] [Citation(s) in RCA: 135] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
To optimally design next generation catalysts a thorough understanding of the chemical phenomena at the molecular scale is a prerequisite. Apart from qualitative knowledge on the reaction mechanism, it is also essential to be able to predict accurate rate constants. Molecular modeling has become a ubiquitous tool within the field of heterogeneous catalysis. Herein, we review current computational procedures to determine chemical kinetics from first principles, thus by using no experimental input and by modeling the catalyst and reacting species at the molecular level. Therefore, we use the methanol-to-olefin (MTO) process as a case study to illustrate the various theoretical concepts. This process is a showcase example where rational design of the catalyst was for a long time performed on the basis of trial and error, due to insufficient knowledge of the mechanism. For theoreticians the MTO process is particularly challenging as the catalyst has an inherent supramolecular nature, for which not only the Brønsted acidic site is important but also organic species, trapped in the zeolite pores, must be essentially present during active catalyst operation. All these aspects give rise to specific challenges for theoretical modeling. It is shown that present computational techniques have matured to a level where accurate enthalpy barriers and rate constants can be predicted for reactions occurring at a single active site. The comparison with experimental data such as apparent kinetic data for well-defined elementary reactions has become feasible as current computational techniques also allow predicting adsorption enthalpies with reasonable accuracy. Real catalysts are truly heterogeneous in a space- and time-like manner. Future theory developments should focus on extending our view towards phenomena occurring at longer length and time scales and integrating information from various scales towards a unified understanding of the catalyst. Within this respect molecular dynamics methods complemented with additional techniques to simulate rare events are now gradually making their entrance within zeolite catalysis. Recent applications have already given a flavor of the benefit of such techniques to simulate chemical reactions in complex molecular environments.
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15
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Uzunova EL, Mikosch H. Adsorption and Activation of Ethene in Transition Metal Exchanged Zeolite Clinoptilolite: a Density Functional Study. ACS Catal 2013. [DOI: 10.1021/cs4005997] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Ellie L. Uzunova
- Institute of General and Inorganic Chemistry, Bulgarian
Academy of Sciences, Sofia 1113, Bulgaria,
| | - Hans Mikosch
- Institute for Chemical Technologies and Analytics, Vienna University of Technology, Getreidemarkt 9/E164-EC, 1060 Vienna, Austria
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16
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Vaitheeswaran S, Green SK, Dauenhauer P, Auerbach SM. On the Way to Biofuels from Furan: Discriminating Diels–Alder and Ring-Opening Mechanisms. ACS Catal 2013. [DOI: 10.1021/cs4003904] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- S. Vaitheeswaran
- Department
of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts, Amherst Massachusetts 01003, United
States
| | - Sara K. Green
- Department
of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts, Amherst Massachusetts 01003, United
States
| | - Paul Dauenhauer
- Department
of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts, Amherst Massachusetts 01003, United
States
| | - Scott M. Auerbach
- Department
of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts, Amherst Massachusetts 01003, United
States
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17
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Van der Mynsbrugge J, De Ridder J, Hemelsoet K, Waroquier M, Van Speybroeck V. Enthalpy and Entropy Barriers Explain the Effects of Topology on the Kinetics of Zeolite-Catalyzed Reactions. Chemistry 2013; 19:11568-76. [DOI: 10.1002/chem.201301272] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2013] [Indexed: 11/08/2022]
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CHU ZHENKUN, FU GANG, GUO WENPING, XU XIN. EFFECT OF HIGH-LEVEL LAYER SELECTION IN ONIOM ON Na+ ADSORPTION IN ZSM-5 ZEOLITE. JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY 2011. [DOI: 10.1142/s021963361000558x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Here we present a systematical investigation on the effect of high-level layer selection in our own N-layered integrated molecular orbital + molecular mechanics (ONIOM) method. We used the adsorption of Na+ in the M7 site of ZSM-5 as an instructive example. We embedded n tetrahedral sites (nT= 7, 19, 22, 33) for high-level layer into a low-level layer represented by 75T (denoted as nT@75T). Our calculations showed that 7T@75T behaved poorly in both structure optimization and interaction energy calculation. Hence only including the first coordination circle of the ion (i.e. 7T), as commonly used in literature, is not sufficiently good. However, for n ≥ 19, both structure optimization and interaction energy calculation by ONIOM are in good agreement with the full 75T model calculation. Such a reliable ONIOM calculation needs only 1/10 to 1/5 computational time for each self-consistent field (SCF) iteration as compared to the full 75T model calculation, highlighting its pivotal role in zeolite simulation.
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Affiliation(s)
- ZHEN-KUN CHU
- State Key Laboratory of Physical Chemistry of Solid Surfaces, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - GANG FU
- State Key Laboratory of Physical Chemistry of Solid Surfaces, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - WEN-PING GUO
- State Key Laboratory of Physical Chemistry of Solid Surfaces, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - XIN XU
- State Key Laboratory of Physical Chemistry of Solid Surfaces, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
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19
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Theoretical studies of Na+ location in ZSM-5: Model selection for accurate coordination structure and energetics. Catal Today 2011. [DOI: 10.1016/j.cattod.2010.12.043] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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20
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Boronat M, Martínez C, Corma A. Mechanistic differences between methanol and dimethyl ether carbonylation in side pockets and large channels of mordenite. Phys Chem Chem Phys 2011; 13:2603-12. [DOI: 10.1039/c0cp01996h] [Citation(s) in RCA: 131] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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21
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Van Speybroeck V, Van der Mynsbrugge J, Vandichel M, Hemelsoet K, Lesthaeghe D, Ghysels A, Marin GB, Waroquier M. First Principle Kinetic Studies of Zeolite-Catalyzed Methylation Reactions. J Am Chem Soc 2010; 133:888-99. [DOI: 10.1021/ja1073992] [Citation(s) in RCA: 133] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Veronique Van Speybroeck
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
| | - Jeroen Van der Mynsbrugge
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
| | - Matthias Vandichel
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
| | - Karen Hemelsoet
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
| | - David Lesthaeghe
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
| | - An Ghysels
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
| | - Guy B. Marin
- Laboratory of Chemical Technology (LCT), Krijgslaan 281-S5, 9000 Gent, Belgium
| | - Michel Waroquier
- Center for Molecular Modeling (CMM), Ghent University, Technologiepark 903, 9052 Zwijnaarde, Belgium, and QCMM—Alliance, Ghent-Brussels, Belgium
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22
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Rimola A, Zicovich-Wilson CM, Dovesi R, Ugliengo P. Search and Characterization of Transition State Structures in Crystalline Systems Using Valence Coordinates. J Chem Theory Comput 2010. [DOI: 10.1021/ct900680f] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Albert Rimola
- Dipartimento Chimica IFM, NIS Centre of Excellence and INSTM (Materials Science and Technology) National Consortium, University of Torino, Via P. Giuria 7, 10125 Torino, Italy, and Facultad de Ciencias, Universidad Autónoma del Estado de Morelos, Av. Universidad 1001, Col. Chamilpa, 62209 Cuernavaca, Morelos, Mexico
| | - Claudio Marcelo Zicovich-Wilson
- Dipartimento Chimica IFM, NIS Centre of Excellence and INSTM (Materials Science and Technology) National Consortium, University of Torino, Via P. Giuria 7, 10125 Torino, Italy, and Facultad de Ciencias, Universidad Autónoma del Estado de Morelos, Av. Universidad 1001, Col. Chamilpa, 62209 Cuernavaca, Morelos, Mexico
| | - Roberto Dovesi
- Dipartimento Chimica IFM, NIS Centre of Excellence and INSTM (Materials Science and Technology) National Consortium, University of Torino, Via P. Giuria 7, 10125 Torino, Italy, and Facultad de Ciencias, Universidad Autónoma del Estado de Morelos, Av. Universidad 1001, Col. Chamilpa, 62209 Cuernavaca, Morelos, Mexico
| | - Piero Ugliengo
- Dipartimento Chimica IFM, NIS Centre of Excellence and INSTM (Materials Science and Technology) National Consortium, University of Torino, Via P. Giuria 7, 10125 Torino, Italy, and Facultad de Ciencias, Universidad Autónoma del Estado de Morelos, Av. Universidad 1001, Col. Chamilpa, 62209 Cuernavaca, Morelos, Mexico
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Zvereva-Loëte N, Ballandras A, Weber G, Rotger M, Boudon V, Simon JM. Experimental IR study andab initiomodelling of ethylene adsorption in a MFI-type host zeolite. Mol Phys 2009. [DOI: 10.1080/00268970903153683] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Stare J, Henson NJ, Eckert J. Mechanistic Aspects of Propene Epoxidation by Hydrogen Peroxide. Catalytic Role of Water Molecules, External Electric Field, and Zeolite Framework of TS-1. J Chem Inf Model 2009; 49:833-46. [PMID: 19267473 DOI: 10.1021/ci800227n] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jernej Stare
- Theoretical Division and Los Alamos Neutron Science Center, Los Alamos National Laboratory, New Mexico 87545, National Institute of Chemistry, Hajdrihova 19, SI-1000 Ljubljana, Slovenia, and Materials Research Laboratory, University of California, Santa Barbara, California 93106
| | - Neil J. Henson
- Theoretical Division and Los Alamos Neutron Science Center, Los Alamos National Laboratory, New Mexico 87545, National Institute of Chemistry, Hajdrihova 19, SI-1000 Ljubljana, Slovenia, and Materials Research Laboratory, University of California, Santa Barbara, California 93106
| | - Juergen Eckert
- Theoretical Division and Los Alamos Neutron Science Center, Los Alamos National Laboratory, New Mexico 87545, National Institute of Chemistry, Hajdrihova 19, SI-1000 Ljubljana, Slovenia, and Materials Research Laboratory, University of California, Santa Barbara, California 93106
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Yumura T, Takeuchi M, Kobayashi H, Kuroda Y. Effects of ZSM-5 Zeolite Confinement on Reaction Intermediates during Dioxygen Activation by Enclosed Dicopper Cations. Inorg Chem 2008; 48:508-17. [DOI: 10.1021/ic8010184] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Takashi Yumura
- Department of Chemistry and Materials Technology, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto, 606-8585, Japan, and Department of Fundamental Material Science, Division of Molecular and Material Science, Graduate School of Natural Science and Technology, Okayama University, Tsushima, Okayama 700-8530, Japan
| | - Mina Takeuchi
- Department of Chemistry and Materials Technology, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto, 606-8585, Japan, and Department of Fundamental Material Science, Division of Molecular and Material Science, Graduate School of Natural Science and Technology, Okayama University, Tsushima, Okayama 700-8530, Japan
| | - Hisayoshi Kobayashi
- Department of Chemistry and Materials Technology, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto, 606-8585, Japan, and Department of Fundamental Material Science, Division of Molecular and Material Science, Graduate School of Natural Science and Technology, Okayama University, Tsushima, Okayama 700-8530, Japan
| | - Yasushige Kuroda
- Department of Chemistry and Materials Technology, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto, 606-8585, Japan, and Department of Fundamental Material Science, Division of Molecular and Material Science, Graduate School of Natural Science and Technology, Okayama University, Tsushima, Okayama 700-8530, Japan
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Gleeson D. A theoretical study of cis–trans isomerisation in H-ZSM5: probing the impact of cluster size and zeolite framework on energetics and structure. J Comput Aided Mol Des 2008; 22:579-85. [DOI: 10.1007/s10822-008-9207-6] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2007] [Accepted: 03/01/2008] [Indexed: 11/24/2022]
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CASSCF calculations for photoinduced processes in large molecules: Choosing when to use the RASSCF, ONIOM and MMVB approximations. J Photochem Photobiol A Chem 2007. [DOI: 10.1016/j.jphotochem.2007.05.008] [Citation(s) in RCA: 48] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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García JI, Jiménez-Osés G, Martínez-Merino V, Mayoral JA, Pires E, Villalba I. QM/MM Modeling of Enantioselective Pybox–Ruthenium- and Box–Copper-Catalyzed Cyclopropanation Reactions: Scope, Performance, and Applications to Ligand Design. Chemistry 2007; 13:4064-73. [PMID: 17304595 DOI: 10.1002/chem.200601358] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
An extensive comparison of full-QM (B3LYP) and QM/MM (B3LYP:UFF) levels of theory has been made for two enantioselective catalytic systems, namely, Pybox-Ru and Box-Cu complexes, in the cyclopropanation of alkenes (ethylene and styrene) with methyl diazoacetate. The geometries of the key reaction intermediates and transition structures calculated at the QM/MM level are generally in satisfactory agreement with full-QM calculated geometries. More importantly, the relative energies calculated at the QM/MM level are in good agreement with those calculated at the full-QM level in all cases. Furthermore, the QM/MM energies are often in better agreement with the stereoselectivity experimentally observed, and this suggests that QM/MM calculations can be superior to full-QM calculations when subtle differences in inter- and intramolecular interactions are important in determining the selectivity, as is the case in enantioselective catalysis. The predictive value of the model presented is validated by the explanation of the unusual enantioselectivity behavior exhibited by a new bis-oxazoline ligand, the stereogenic centers of which are quaternary carbon atoms.
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Affiliation(s)
- José I García
- Departamento de Química Orgánica, ICMA, CSIC-Universidad de Zaragoza, Pedro Cerbuna 12, 50009 Zaragoza, Spain.
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Larin AV, Semenyuk RA, Trubnikov DN, Vercauteren DP. Electrostatic potential and field approximation for aluminosilicates in cation-substituted forms. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY A 2007. [DOI: 10.1134/s0036024407040012] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Zheng A, Wang L, Chen L, Yue Y, Ye C, Lu X, Deng F. High Activity of Amine-Doped H-ZSM-5 Zeolite in Ethene Protonation: Revealed by Embedding Calculations. Chemphyschem 2007; 8:231-4. [PMID: 17195257 DOI: 10.1002/cphc.200600576] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Anmin Zheng
- State Key Laboratory of Magnetic Resonance and Atomic and Molecular Physics, Wuhan Institute of Physics and Mathematics, The Chinese Academy of Sciences, Wuhan 430071, People's Republic of China
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Refinement of the supramolecular concept in methanol-to-olefin catalysis. ACTA ACUST UNITED AC 2007. [DOI: 10.1016/s0167-2991(07)81045-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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