1
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Wang N, Li Y, Zheng M, Dong W, Zhang Q, Wang W. BhrPETase catalyzed polyethylene terephthalate depolymerization: A quantum mechanics/molecular mechanics approach. JOURNAL OF HAZARDOUS MATERIALS 2024; 477:135414. [PMID: 39102770 DOI: 10.1016/j.jhazmat.2024.135414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2024] [Revised: 07/20/2024] [Accepted: 08/01/2024] [Indexed: 08/07/2024]
Abstract
Polyethylene terephthalate (PET) is a widely used material in our daily life, particularly in areas such as packaging, fibers, and engineering plastics. However, PET waste can accumulate in the environment and pose a great threat to our ecosystem. Recently enzymatic conversion has emerged as an efficient and green strategy to address the PET crisis. Here, using a theoretical approach combining molecular dynamics simulation and quantum mechanics/molecular mechanics calculations, the depolymerization mechanism of the thermophilic cutinase BhrPETase was fully deciphered. Surprisingly, unlike the previously studied cutinase LCCICCG, our results indicate that the first step, catalytic triad assisted nucleophilic attack, is the rate-determining step. The corresponding Boltzmann weighted average energy barrier is 18.2 kcal/mol. Through extensive comparison between BhrPETase and LCCICCG, we evidence that key features like charge CHis@N1 and angle APET@C1-Ser@O1-His@H1 significantly impact the depolymerization efficiency of BhrPETase. Non-covalent bond interaction and distortion/interaction analysis inform new insights on enzyme engineer and may aid the recycling of enzymatic PET waste. This study will aid the advancement of the plastic bio-recycling economy and promote resource conservation and reuse.
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Affiliation(s)
- Ningru Wang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Yanwei Li
- Environment Research Institute, Shandong University, Qingdao 266237, PR China.
| | - Mingna Zheng
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Weiliang Dong
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211800, PR China.
| | - Qingzhu Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Wenxing Wang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
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2
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Wen X, Zhang Z, Ren K, Zhang W, Zhou G, Luo Y. Theoretical investigations of 2-vinylpyridine stereoselective polymerization catalyzed by cationic yttrium complexes with different ancillary ligands. Dalton Trans 2024; 53:9198-9206. [PMID: 38743042 DOI: 10.1039/d4dt00838c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2024]
Abstract
The polymerization mechanism of 2-vinylpyridine catalyzed by cationic yttrium complexes with diverse ancillary ligands, specifically [L1Y(CH2SiMe3)(THF)]+ [L1 = (2,6-Et2C6H3)NC(Me)CHC(Me)N(2,6-Et2C6H3)] (Y-1), [L2Y(CH2SiMe3)(THF)]+ [L2 = (2,6-Cl2C6H3)NC(Me)CHC(Me)N(2,6-Cl2C6H3)] (Y-2), and [L3Y(CH2SiMe3)(THF)]+ [L3 = (2,6-C6H5)NC(Me)CHC(Me)N(2,6-iPr2C6H3)] (Y-3), was studied using density functional theory (DFT) calculations. Having achieved an agreement between theory and experiment, it is found that isotactic selectivity induced by Y-1 or Y-2 results from a combination of smaller deformation of the catalyst and stronger electronic effects. Conversely, the Y-3 complex exhibits comparable energy barriers for proceeding via either isotactic or syndiotactic pathways, aligning with the production of atactic polymers as seen experimentally. To examine the steric effects on the kinetic and thermodynamic properties, a computational model of an analogue complex [L4Y(CH2SiMe3)(THF)]+ [L4 = (2,6-Cl2C6H3)NC(Me)CHC(Me)N(iPr2C6H3)] (Y-4), featuring increased steric hindrance, was analyzed. Distortion-interaction and topographic steric map analyses further affirmed that steric hindrance significantly influences stereoselectivity. A direct relationship was identified between the energy barriers of isotactic insertion transition states and the bulkiness of ancillary ligands; greater distortion energy of the catalyst correlates with higher barriers for isotactic polymerization. These findings enhance the mechanistic comprehension of 2-vinylpyridine polymerization and are expected to contribute valuable insights for the improvement of catalytic polymerization systems of 2-vinylpyridine.
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Affiliation(s)
- Xin Wen
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian 116024, China
| | - Zhenli Zhang
- National Elite Institute of Engineering, CNPC, Beijing 100096, China
| | - Kaipai Ren
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian 116024, China
| | - Wenzhen Zhang
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian 116024, China
| | - Guangli Zhou
- School of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China.
| | - Yi Luo
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian 116024, China
- PetroChina Petrochemical Research Institute, Beijing, 102206, China.
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3
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Yan J, Dong L, Yang Y, Zhang D. DFT Insight into a Strain-Release Mechanism in Bicyclo[1.1.0]butanes via Concerted Activation of Central and Lateral C-C Bonds with Rh(III) Catalysis. Inorg Chem 2024; 63:8879-8888. [PMID: 38676642 DOI: 10.1021/acs.inorgchem.4c00800] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/29/2024]
Abstract
Transition-metal-catalyzed, strain-release-driven transformations of "spring-loaded" bicyclo[1.1.0]butanes (BCBs) are considered potent tools in synthetic organic chemistry. Previously proposed strain-release mechanisms involve either the insertion of the central C-C bond of BCBs into a metal-carbon bond, followed by β-C elimination, or the oxidative addition of the central or lateral C-C bond on the transition metal center, followed by reductive elimination. This study, employing DFT calculations on a Rh(III)-catalyzed model system in a three-component protocol involving oxime ether, BCB ester, and ethyl glyoxylate for constructing diastereoselective quaternary carbon centers, introduces an unusual strain-release mechanism for BCBs. In this mechanism, the catalytic reaction is initiated by the simultaneous cleavage of two C-C bonds (the central and lateral C-C bonds), resulting in the formation of a Rh-carbene intermediate. The new mechanism exhibits a barrier of 21.0 kcal/mol, making it energetically more favorable by 11.1 kcal/mol compared to the previously suggested most favorable pathway. This unusual reaction mode rationalizes experimental observation of the construction of quaternary carbon centers, including the excellent E-selectivity and diastereoselectivity. The newly proposed strain-release mechanism holds promise in advancing our understanding of transition-metal-catalyzed C-C bond activation mechanisms and facilitating the synthesis of transition metal carbene complexes.
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Affiliation(s)
- Jing Yan
- School of Chemistry and Chemical Engineering, Qilu Normal University, Jinan 250013, Shandong, China
| | - Lihua Dong
- School of Chemistry and Chemical Engineering, Qilu Normal University, Jinan 250013, Shandong, China
| | - Yiying Yang
- Key Lab of Colloid and Interface Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, P. R. China
| | - Dongju Zhang
- Key Lab of Colloid and Interface Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, P. R. China
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4
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Labadie N, Pellegrinet SC. Diels–Alder Reactivity of Allenylboronic Acid Pinacol Ester and Related Dienophiles: Mechanistic Studies and Distortion/Interaction-Activation Strain Model Analysis. J Org Chem 2022; 87:16776-16784. [DOI: 10.1021/acs.joc.2c02445] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Natalia Labadie
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Rosario 2000, Argentina
| | - Silvina C. Pellegrinet
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Rosario 2000, Argentina
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5
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Zhao Y, Li H, Xin S, Li H, Luo Y, He S. DFT Studies on the Early-Transition-Metal-Catalyzed Polymerization of Polar Monomers with a Methylene Spacer between Vinyl and Functional Groups. Organometallics 2022. [DOI: 10.1021/acs.organomet.2c00323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Yanan Zhao
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian 116024, China
| | - Huashu Li
- PetroChina Petrochemical Research Institute, Beijing 102206, China
| | - Shixuan Xin
- PetroChina Petrochemical Research Institute, Beijing 102206, China
| | - Hao Li
- PetroChina Petrochemical Research Institute, Beijing 102206, China
| | - Yi Luo
- State Key Laboratory of Fine Chemicals, School of Chemical Engineering, Dalian University of Technology, Dalian 116024, China
- PetroChina Petrochemical Research Institute, Beijing 102206, China
| | - Shengbao He
- PetroChina Petrochemical Research Institute, Beijing 102206, China
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6
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Qi H, Xie R, Yang GW, Zhang YY, Xu CK, Wang Y, Wu GP. Rational Optimization of Bifunctional Organoboron Catalysts for Versatile Polyethers via Ring-Opening Polymerization of Epoxides. Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c01596] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Huan Qi
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
| | - Rui Xie
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
| | - Guan-Wen Yang
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
| | - Yao-Yao Zhang
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
| | - Cheng-Kai Xu
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
| | - Yuhui Wang
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
| | - Guang-Peng Wu
- MOE Key Laboratory of Macromolecular Synthesis and Functionalization, Department of Polymer Science and Engineering, Zhejiang University, Hangzhou310027, China
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7
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Lai W, Zhong K, Liu S, Liu S, Chen H, Ni H, Zeng Z, Zhao Z, Lan Y, Bai R. How Strain-Release Determines Chemoselectivity: A Mechanistic Study of Rhodium-Catalyzed Bicyclo[1.1.0]butane Activation. J Phys Chem Lett 2022; 13:7694-7701. [PMID: 35960186 DOI: 10.1021/acs.jpclett.2c01528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Bicyclo[1.1.0]butane (BCB) derivatives are versatile coupling partners, and various reaction modes for their activation and transformation have been proposed. In this work, three BCB-activation modes in Rh-catalyzed BCB transformations that construct diastereoselective α-quaternary β-lactones were investigated by density functional theory calculations. Our results show that, compared with C1-C3 insertion and C-C3 oxidative addition, C2-C3 oxidative addition is more favorable. The whole catalytic cycle involves five main steps: C-H activation, oxidative addition, β-C elimination/reductive elimination, Rh walking, and aldehyde insertion/protonation. Independent gradient model, intrinsic reaction coordinate, distortion-interaction energy, and Laplacian electron-density analyses were carried out to investigate the mode of BCB activation. Our calculation also showed that aldehyde-insertion is the diastereoselectivity determining step, which is controlled by the steric effect between the ligand, methyl group, and aldehyde.
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Affiliation(s)
- Wei Lai
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Kangbao Zhong
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Song Liu
- Chongqing Key Laboratory of Environmental Materials and Remediation Technologies, College of Chemistry and Environmental Engineering, Chongqing University of Arts and Sciences, Chongqing, 402160, P. R. China
| | - Shihan Liu
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Haohua Chen
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Hao Ni
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Zhen Zeng
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Zhuang Zhao
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
| | - Yu Lan
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
- College of Chemistry, and Institute of Green Catalysis, Zhengzhou University, Zhengzhou 450001, CP. R. China
| | - Ruopeng Bai
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, P. R. China
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8
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Sun B, Oakley MS, Yoshida K, Yang Y, Tommasini M, Zanchi C, Lucotti A, Ferguson MJ, Hampel F, Klobukowski M, Tykwinski RR. The Effects of Ring Strain on Cyclic Tetraaryl[5]cumulenes. Chemistry 2022; 28:e202200616. [DOI: 10.1002/chem.202200616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Indexed: 11/10/2022]
Affiliation(s)
- Bozheng Sun
- Department of Chemistry University of Alberta Edmonton AB T6G 2G2 Canada
| | - Meagan S. Oakley
- Department of Chemistry University of Alberta Edmonton AB T6G 2G2 Canada
| | - Kota Yoshida
- Department of Chemistry Graduate School of Science Kyoto University Kyoto 606-8502 Japan
| | - Yanwen Yang
- Department of Chemistry University of Alberta Edmonton AB T6G 2G2 Canada
| | - Matteo Tommasini
- Dipartimento di Chimica Materiali e Ingegneria Chimica “Giulio Natta” Politecnico di Milano Piazza Leonardo da Vinci 32 20133 Milano Italy
| | - Chiara Zanchi
- Dipartimento di Chimica Materiali e Ingegneria Chimica “Giulio Natta” Politecnico di Milano Piazza Leonardo da Vinci 32 20133 Milano Italy
| | - Andrea Lucotti
- Dipartimento di Chimica Materiali e Ingegneria Chimica “Giulio Natta” Politecnico di Milano Piazza Leonardo da Vinci 32 20133 Milano Italy
| | | | - Frank Hampel
- Department of Chemistry and Pharmacy & Interdisciplinary Center for Molecular Materials (ICMM) University of Erlangen-Nuremberg Nikolaus-Fiebiger Str. 10 91058 Erlangen Germany
| | | | - Rik R. Tykwinski
- Department of Chemistry University of Alberta Edmonton AB T6G 2G2 Canada
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9
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Duan M, Díaz‐Oviedo CD, Zhou Y, Chen X, Yu P, List B, Houk KN, Lan Y. Chiral Phosphoric Acid Catalyzed Conversion of Epoxides into Thiiranes: Mechanism, Stereochemical Model, and New Catalyst Design. Angew Chem Int Ed Engl 2022; 61:e202113204. [PMID: 34889494 PMCID: PMC9305870 DOI: 10.1002/anie.202113204] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Indexed: 11/28/2022]
Abstract
Computations and experiments leading to new chiral phosphoric acids (CPAs) for epoxide thionations are reported. Density functional theory calculations reveal the mechanism and origin of the enantioselectivity of such CPA-catalyzed epoxide thionations. The calculated mechanistic information was used to design new efficient CPAs that were tested experimentally and found to be highly effective. Bulky ortho-substituents on the 3,3'-aryl groups of the CPA are important to restrict the position of the epoxide in the key transition states for the enantioselectivity-determining step. Larger para-substituents significantly improve the enantioselectivity of the reaction.
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Affiliation(s)
- Meng Duan
- Green Catalysis Centerand College of ChemistryZhengzhou UniversityZhengzhouHenan450001China
- Department of Chemistry and BiochemistryUniversity of CaliforniaLos AngelesCA90095USA
- Department of Chemistry and Shenzhen Grubbs InstituteGuangdong Provincial Key Laboratory of CatalysisSouthern University of Science and TechnologyShenzhen518055China
| | | | - Yang Zhou
- Department of Chemistry and Shenzhen Grubbs InstituteGuangdong Provincial Key Laboratory of CatalysisSouthern University of Science and TechnologyShenzhen518055China
| | - Xiangyang Chen
- Department of Chemistry and BiochemistryUniversity of CaliforniaLos AngelesCA90095USA
| | - Peiyuan Yu
- Department of Chemistry and Shenzhen Grubbs InstituteGuangdong Provincial Key Laboratory of CatalysisSouthern University of Science and TechnologyShenzhen518055China
| | - Benjamin List
- Max-Planck-Institut für Kohlenforschung45470Mülheim an der RuhrGermany
| | - Kendall N. Houk
- Department of Chemistry and BiochemistryUniversity of CaliforniaLos AngelesCA90095USA
| | - Yu Lan
- Green Catalysis Centerand College of ChemistryZhengzhou UniversityZhengzhouHenan450001China
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10
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Zheng M, Li Y, Dong W, Feng S, Zhang Q, Wang W. Computational biotransformation of polyethylene terephthalate by depolymerase: A QM/MM approach. JOURNAL OF HAZARDOUS MATERIALS 2022; 423:127017. [PMID: 34464862 DOI: 10.1016/j.jhazmat.2021.127017] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2021] [Revised: 08/20/2021] [Accepted: 08/21/2021] [Indexed: 06/13/2023]
Abstract
Despite increasing environmental concerns on ever-lasting Polyethylene Terephthalate (PET), its global production is continuously growing. Effective strategies that can completely remove PET from environment are urgently desired. Here biotransformation processes of PET by one of the most effective enzymes, leaf-branch compost cutinase (LCC), were systematically explored with Molecular Dynamics and Quantum Mechanics/Molecular Mechanics approaches. We found that four concerted steps are required to complete the whole catalytic cycle. The last concerted step, deacylation, was determined as the rate-determining step with Boltzmann-weighted average barrier of 13.6 kcal/mol and arithmetic average of 16.1 ± 2.9 kcal/mol. Interestingly, unprecedented fluctuations of hydrogen bond length during LCC catalyzed transformation process toward PET were found. This fluctuation was also observed in enzyme IsPETase, indicating that it may widely exist in other catalytic triad (Ser-His-Asp) containing enzymes as well. In addition, possible features (bond, angle, dihedral angle and charge) that influence the catalytic reaction were identified and correlations between activation energies and key features were established. Our results present new insights into catalytic mechanism of hydrolases and shed light on the efficient recycling of the ever-lasting PET.
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Affiliation(s)
- Mingna Zheng
- Environment Research Institute, Shandong University, Qingdao Campus, 266237, PR China
| | - Yanwei Li
- Environment Research Institute, Shandong University, Qingdao Campus, 266237, PR China.
| | - Weiliang Dong
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, PR China
| | - Shanshan Feng
- Environment Research Institute, Shandong University, Qingdao Campus, 266237, PR China
| | - Qingzhu Zhang
- Environment Research Institute, Shandong University, Qingdao Campus, 266237, PR China
| | - Wenxing Wang
- Environment Research Institute, Shandong University, Qingdao Campus, 266237, PR China
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11
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Duan M, Díaz‐Oviedo CD, Zhou Y, Chen X, Yu P, List B, Houk KN, Lan Y. Chiral Phosphoric Acid Catalyzed Conversion of Epoxides into Thiiranes: Mechanism, Stereochemical Model, and New Catalyst Design. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202113204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Meng Duan
- Green Catalysis Center and College of Chemistry Zhengzhou University Zhengzhou Henan 450001 China
- Department of Chemistry and Biochemistry University of California Los Angeles CA 90095 USA
- Department of Chemistry and Shenzhen Grubbs Institute Guangdong Provincial Key Laboratory of Catalysis Southern University of Science and Technology Shenzhen 518055 China
| | | | - Yang Zhou
- Department of Chemistry and Shenzhen Grubbs Institute Guangdong Provincial Key Laboratory of Catalysis Southern University of Science and Technology Shenzhen 518055 China
| | - Xiangyang Chen
- Department of Chemistry and Biochemistry University of California Los Angeles CA 90095 USA
| | - Peiyuan Yu
- Department of Chemistry and Shenzhen Grubbs Institute Guangdong Provincial Key Laboratory of Catalysis Southern University of Science and Technology Shenzhen 518055 China
| | - Benjamin List
- Max-Planck-Institut für Kohlenforschung 45470 Mülheim an der Ruhr Germany
| | - Kendall N. Houk
- Department of Chemistry and Biochemistry University of California Los Angeles CA 90095 USA
| | - Yu Lan
- Green Catalysis Center and College of Chemistry Zhengzhou University Zhengzhou Henan 450001 China
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12
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Yang J, Kong D, Wu H, Shen Z, Zou H, Zhao W, Huang G. Palladium-Catalyzed Regio- and Chemoselective Double-Alkoxycarbonylation of 1,3-Diynes: A Computational Study. Org Chem Front 2022. [DOI: 10.1039/d2qo00122e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The palladium-catalyzed double-alkoxycarbonylation of 1,3-diynes provides an efficient approach for the selective synthesis of 1,2,3,4-tetrasubstituted conjugated dienes. In this report, density functional theory calculations have been performed to elucidate the...
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13
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Prasad VK, Pei Z, Edelmann S, Otero-de-la-Roza A, DiLabio GA. BH9, a New Comprehensive Benchmark Data Set for Barrier Heights and Reaction Energies: Assessment of Density Functional Approximations and Basis Set Incompleteness Potentials. J Chem Theory Comput 2021; 18:151-166. [PMID: 34911294 DOI: 10.1021/acs.jctc.1c00694] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The calculation of accurate reaction energies and barrier heights is essential in computational studies of reaction mechanisms and thermochemistry. To assess methods regarding their ability to predict these two properties, high-quality benchmark sets are required that comprise a reasonably large and diverse set of organic reactions. Due to the time-consuming nature of both locating transition states and computing accurate reference energies for reactions involving large molecules, previous benchmark sets have been limited in scope, the number of reactions considered, and the size of the reactant and product molecules. Recent advances in coupled-cluster theory, in particular local correlation methods like DLPNO-CCSD(T), now allow the calculation of reaction energies and barrier heights for relatively large systems. In this work, we present a comprehensive and diverse benchmark set of barrier heights and reaction energies based on DLPNO-CCSD(T)/CBS called BH9. BH9 comprises 449 chemical reactions belonging to nine types common in organic chemistry and biochemistry. We examine the accuracy of DLPNO-CCSD(T) vis-a-vis canonical CCSD(T) for a subset of BH9 and conclude that, although there is a penalty in using the DLPNO approximation, the reference data are accurate enough to serve as a benchmark for density functional theory (DFT) methods. We then present two applications of the BH9 set. First, we examine the performance of several density functional approximations commonly used in thermochemical and mechanistic studies. Second, we assess our basis set incompleteness potentials regarding their ability to mitigate basis set incompleteness errors. The number of data points, the diversity of the reactions considered, and the relatively large size of the reactant molecules make BH9 the most comprehensive thermochemical benchmark set to date and a useful tool for the development and assessment of computational methods.
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Affiliation(s)
- Viki Kumar Prasad
- Department of Chemistry, University of British Columbia, 3247 University Way, Kelowna, British Columbia, Canada V1V 1V7
| | - Zhipeng Pei
- Department of Chemistry, University of British Columbia, 3247 University Way, Kelowna, British Columbia, Canada V1V 1V7
| | - Simon Edelmann
- Department of Chemistry, University of British Columbia, 3247 University Way, Kelowna, British Columbia, Canada V1V 1V7
| | - Alberto Otero-de-la-Roza
- Departamento de Química Física y Analítica and MALTA Consolider Team, Facultad de Química, Universidad de Oviedo, 33006 Oviedo, Spain
| | - Gino A DiLabio
- Department of Chemistry, University of British Columbia, 3247 University Way, Kelowna, British Columbia, Canada V1V 1V7
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14
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Zhao F, Yu P, Chen Y, Liu F, Houk KN. π-Facial Stereoselectivity in Acyl Nitroso Cycloadditions to 5,5-Unsymmetrically Substituted Cyclopentadienes: Computational Exploration of Origins of Selectivity and the Role of Substituent Conformations on Selectivity. J Org Chem 2021; 86:17082-17089. [PMID: 34783567 DOI: 10.1021/acs.joc.1c02191] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The π-facial selectivity of Diels-Alder cycloadditions of 5-monosubstituted cyclopentadienes is known experimentally and has been extensively studied computationally. Previous studies on 5-monosubstituted cyclopentadienes by the Burnell and Houk groups showed that facial selectivity arises principally from hyperconjugative aromaticity or antiaromaticity of polar groups that cause distortion of the cyclopentadiene; steric effects of nonpolar groups can also be important. We have now explored the stereoselective cycloaddition of 5,5-unsymmetrically substituted cyclopentadienes to an acyl nitroso dienophile reported by Kan and co-workers. Computational studies with M06-2X/6-311+G(d,p) indicate that the stereoselectivity in the cycloadditions of 5,5-unsymmetrically substituted cyclopentadienes is not just a simple combination of effects found for monosubstituted counterparts. Substituent conformations and diene-dienophile steric and electronic interaction effects all influence stereoselectivity. Predictions are made about several as-yet-unstudied cyclopentadiene cycloadditions.
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Affiliation(s)
- Fengyue Zhao
- College of Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Peiyuan Yu
- Department of Chemistry and Shenzhen Grubbs Institute, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China
| | - Yu Chen
- College of Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - Fang Liu
- College of Sciences, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China
| | - K N Houk
- Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, California 90095, United States
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15
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Origins of catalyst-controlled enantiodivergent hydroamination of enones with pyridazinones: A computational study. CHINESE CHEM LETT 2021. [DOI: 10.1016/j.cclet.2021.02.049] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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16
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Merzoud L, Guégan F, Chermette H, Morell C. Understanding the intermolecular Diels-Alder cycloaddition promotion: Activation strain model/energy decomposition analysis model and conceptual density functional theory viewpoints. J Comput Chem 2021; 42:1364-1372. [PMID: 34056727 DOI: 10.1002/jcc.26548] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2020] [Revised: 02/19/2021] [Accepted: 03/23/2021] [Indexed: 01/25/2023]
Abstract
The present work reports the computational study of the major Diels-Alder reaction between 2-bromocycloalkenone and a variety of mono- and di-substituted dienes. Through density functional theory (DFT) calculations and subsequent activation strain model/energy decomposition analysis/conceptual DFT (C-DFT) analyses, the key factors governing the activation barriers heights, and thus reactivity, are characterized. In contrast with a previous study, steric effects do not appear to control reactivity. Conversely, in all presented cases, a subtle interplay between deformation and interaction energies is evidenced at transition states. In the end, neither term alone is enough to explain or predict reactivity. Yet a simple C-DFT descriptor allows to predict with a reasonable efficiency the activation barriers: the excitation energy needed to observe a charge transfer from the diene to the dienophile. Theoretical elements are provided to support the use of this descriptor.
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Affiliation(s)
- Lynda Merzoud
- Institut des Sciences Analytiques, Université de Lyon, Université Claude Bernard Lyon 1, Villeurbanne Cedex, France
| | - Frédéric Guégan
- IC2MP UMR 7285, Université de Poitiers, 4 rue Michel Brunet, Poitiers, 86073, France
| | - Henry Chermette
- Institut des Sciences Analytiques, Université de Lyon, Université Claude Bernard Lyon 1, Villeurbanne Cedex, France
| | - Christophe Morell
- Institut des Sciences Analytiques, Université de Lyon, Université Claude Bernard Lyon 1, Villeurbanne Cedex, France
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17
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Liu S, Rong C. Quantifying Frustrations for Molecular Complexes with Noncovalent Interactions. J Phys Chem A 2021; 125:4910-4917. [PMID: 34056899 DOI: 10.1021/acs.jpca.1c02690] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Molecular systems bound together through noncovalent interactions are involved in a lot of life-essential processes such as molecular recognition, signal transduction, and allosteric regulation. While cooperation as an important effect discovered in these systems focuses on the behavior of system's entirety, we need also examine the behavior of individual parts. In this work, using the distortion energy as the descriptor, we quantify frustration as the energetic loss of individual parts due to the formation of nonadditive molecular complexes. The applicability of our approach has been illustrated by a few simple clusters. Our results show that the frustration effect is smaller than the cooperation effect, but same as cooperativity, it can be both positive and negative. The ultimate benefit of a system made of multiple parts is dictated by the balance between the cooperative behavior among parts and the sacrifice from its individuals. This conflicting yet complementary conceptual pair of cooperation and frustration provides us with a different perspective from the systems' viewpoint for molecular complexes. This new angle of appreciating molecular complexes can be applied in conformational changes, enzymatic catalysis, and many more.
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Affiliation(s)
- Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, United States.,Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599-3290, United States
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), and College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan 410081, P. R. China
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18
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Khorief Nacereddine A, Merzoud L, Morell C, Chermette H. A computational investigation of the selectivity and mechanism of the Lewis acid catalyzed oxa-Diels-Alder cycloaddition of substituted diene with benzaldehyde. J Comput Chem 2021; 42:1296-1311. [PMID: 33931864 DOI: 10.1002/jcc.26547] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2020] [Revised: 04/09/2021] [Accepted: 04/14/2021] [Indexed: 11/11/2022]
Abstract
The selectivity and the mechanism of the uncatalyzed and AlCl3 catalyzed hetero-Diels-Alder reaction (HDR) between ([E]-4-methylpenta-2,4-dienyloxy)(tert-butyl)dimethylsilane 1 and benzaldehyde 2 have been studied using density functional theory at the MPWB1K/6-31G(d) level of theory. The uncatalyzed HDR between diene 1 and alkene 2 is characterized by a polar character and proceeds via an asynchronous one-step mechanism for the meta paths and synchronous for the ortho ones. In the presence of AlCl3 catalyst, the mechanism changes to be stepwise, while the first step is the rate-determining step. The activation energies widely decrease, and the polar character increases dramatically. A large analysis of the mechanism is performed using the activation strain model/energy decomposition analysis (ASM/EDA) model, the natural bond orbital (NBO) and state specific dual descriptors (SSDDs). The obtained results indicate that the combined interaction energy associated with the distortion of the reactants in these HDR are at the origin of the observed kinetics. NBO analyses were applied to estimate the Lewis-acid catalyst donor-acceptor interaction with the molecular system. The SSDD analysis shed light into the orientation effects on the reaction kinetics by providing important information about charge transfer interactions during the chemical reaction. It indicates that the more favorable HDR pathway have the lowest excitation energies, facilitating the interaction between diene 1 and benzaldehyde 2 moieties. Non-covalent interaction (NCI) and QTAIM analyses of the meta-endo structure indicate that the presence of several weak NCIs formed at this approach is at the origin of the meta-endo selectivity.
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Affiliation(s)
- Abdelmalek Khorief Nacereddine
- Laboratory of Physical Chemistry and Biology of Materials, Department of Physics and Chemistry, Higher Normal School of Technological Education-Skikda, City of Boucetta Brothers, Azzaba, Skikda, Algeria
| | - Lynda Merzoud
- Institut des Sciences Analytiques, Université de Lyon, CNRS, Université Claude Bernard Lyon 1, Villeurbanne Cedex, France
| | - Christophe Morell
- Institut des Sciences Analytiques, Université de Lyon, CNRS, Université Claude Bernard Lyon 1, Villeurbanne Cedex, France
| | - Henry Chermette
- Institut des Sciences Analytiques, Université de Lyon, CNRS, Université Claude Bernard Lyon 1, Villeurbanne Cedex, France
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19
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Zhao X, Chen X, Yuk H, Lin S, Liu X, Parada G. Soft Materials by Design: Unconventional Polymer Networks Give Extreme Properties. Chem Rev 2021; 121:4309-4372. [PMID: 33844906 DOI: 10.1021/acs.chemrev.0c01088] [Citation(s) in RCA: 321] [Impact Index Per Article: 107.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Hydrogels are polymer networks infiltrated with water. Many biological hydrogels in animal bodies such as muscles, heart valves, cartilages, and tendons possess extreme mechanical properties including being extremely tough, strong, resilient, adhesive, and fatigue-resistant. These mechanical properties are also critical for hydrogels' diverse applications ranging from drug delivery, tissue engineering, medical implants, wound dressings, and contact lenses to sensors, actuators, electronic devices, optical devices, batteries, water harvesters, and soft robots. Whereas numerous hydrogels have been developed over the last few decades, a set of general principles that can rationally guide the design of hydrogels using different materials and fabrication methods for various applications remain a central need in the field of soft materials. This review is aimed at synergistically reporting: (i) general design principles for hydrogels to achieve extreme mechanical and physical properties, (ii) implementation strategies for the design principles using unconventional polymer networks, and (iii) future directions for the orthogonal design of hydrogels to achieve multiple combined mechanical, physical, chemical, and biological properties. Because these design principles and implementation strategies are based on generic polymer networks, they are also applicable to other soft materials including elastomers and organogels. Overall, the review will not only provide comprehensive and systematic guidelines on the rational design of soft materials, but also provoke interdisciplinary discussions on a fundamental question: why does nature select soft materials with unconventional polymer networks to constitute the major parts of animal bodies?
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Affiliation(s)
- Xuanhe Zhao
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States.,Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Xiaoyu Chen
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Hyunwoo Yuk
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Shaoting Lin
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Xinyue Liu
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - German Parada
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
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20
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Li X, Ren X, Wu H, Zhao W, Tang X, Huang G. Mechanism and selectivity of copper-catalyzed borocyanation of 1-aryl-1,3-butadienes: A computational study. CHINESE CHEM LETT 2021. [DOI: 10.1016/j.cclet.2020.11.045] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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21
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Shi Y, Wu H, Huang G. Rhodium( i)/bisoxazolinephosphine-catalyzed regio- and enantioselective amination of allylic carbonates: a computational study. Org Chem Front 2021. [DOI: 10.1039/d1qo00370d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
DFT calculations were performed to investigate the rhodium(i)/bisoxazolinephosphine-catalyzed regio- and enantioselective amination of allylic carbonates.
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Affiliation(s)
- Yu Shi
- Department of Chemistry
- School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences
- Tianjin University
- Tianjin 300072
- P. R. China
| | - Hongli Wu
- Department of Chemistry
- School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences
- Tianjin University
- Tianjin 300072
- P. R. China
| | - Genping Huang
- Department of Chemistry
- School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences
- Tianjin University
- Tianjin 300072
- P. R. China
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22
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Yang T, Jiang Y, Luo Y, Lim JJH, Lan Y, Koh MJ. Chemoselective Union of Olefins, Organohalides, and Redox-Active Esters Enables Regioselective Alkene Dialkylation. J Am Chem Soc 2020; 142:21410-21419. [DOI: 10.1021/jacs.0c09922] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Tao Yang
- Department of Chemistry, National University of Singapore, 12 Science Drive 2, Singapore 117549, Republic of Singapore
| | - Yi Jiang
- Department of Chemistry, National University of Singapore, 12 Science Drive 2, Singapore 117549, Republic of Singapore
| | - Yixin Luo
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Joel Jun Han Lim
- Department of Chemistry, National University of Singapore, 12 Science Drive 2, Singapore 117549, Republic of Singapore
| | - Yu Lan
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
- College of Chemistry and Institute of Green Catalysis, Zhengzhou University, Zhengzhou, Henan 450001, China
| | - Ming Joo Koh
- Department of Chemistry, National University of Singapore, 12 Science Drive 2, Singapore 117549, Republic of Singapore
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23
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Zuo Y, Meng X, Hu C, Li J, Su Z. Mechanism study on asymmetric Michael addition reaction between alkynone and α-angelica lactone catalyzed by chiral N, N'-dioxide-Sc(III) complex. Catal Today 2020. [DOI: 10.1016/j.cattod.2019.03.056] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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24
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Luo X, Liu S, Lan Y. Mechanism and Regioselectivity of 1,3‐Dipolar Cycloaddition of Nitrile Oxides to 3‐Methylene Oxindole: A Density Functional Theory Study. ChemistrySelect 2020. [DOI: 10.1002/slct.202002672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Xiaoling Luo
- Chongqing Key Laboratory of Inorganic Functional Materials, College of ChemistryChongqing Normal University Chongqing 401331 China
| | - Song Liu
- Chongqing Key Laboratory of Theoretical and Computational ChemistrySchool of Chemistry and Chemical EngineeringChongqing University Chongqing 400030 China
| | - Yu Lan
- Chongqing Key Laboratory of Theoretical and Computational ChemistrySchool of Chemistry and Chemical EngineeringChongqing University Chongqing 400030 China
- College of Chemistryand Institute of Green CatalysisZhengzhou University Zhengzhou Henan 450001 China
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25
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Understanding chemical reactivity using the activation strain model. Nat Protoc 2020; 15:649-667. [PMID: 31925400 DOI: 10.1038/s41596-019-0265-0] [Citation(s) in RCA: 168] [Impact Index Per Article: 42.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2019] [Accepted: 10/29/2019] [Indexed: 12/20/2022]
Abstract
Understanding chemical reactivity through the use of state-of-the-art computational techniques enables chemists to both predict reactivity and rationally design novel reactions. This protocol aims to provide chemists with the tools to implement a powerful and robust method for analyzing and understanding any chemical reaction using PyFrag 2019. The approach is based on the so-called activation strain model (ASM) of reactivity, which relates the relative energy of a molecular system to the sum of the energies required to distort the reactants into the geometries required to react plus the strength of their mutual interactions. Other available methods analyze only a stationary point on the potential energy surface, but our methodology analyzes the change in energy along a reaction coordinate. The use of this methodology has been proven to be critical to the understanding of reactions, spanning the realms of the inorganic and organic, as well as the supramolecular and biochemical, fields. This protocol provides step-by-step instructions-starting from the optimization of the stationary points and extending through calculation of the potential energy surface and analysis of the trend-decisive energy terms-that can serve as a guide for carrying out the analysis of any given reaction of interest within hours to days, depending on the size of the molecular system.
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26
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Luo Y, Shan C, Liu S, Zhang T, Zhu L, Zhong K, Bai R, Lan Y. Oxidative Addition Promoted C–C Bond Cleavage in Rh-Mediated Cyclopropenone Activation: A DFT Study. ACS Catal 2019. [DOI: 10.1021/acscatal.9b03361] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Yixin Luo
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Chunhui Shan
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Song Liu
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Tao Zhang
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
- College of Chemistry and Molecular Engineering, Zhengzhou University, Zhengzhou 450001, China
| | - Lei Zhu
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Kangbao Zhong
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Ruopeng Bai
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
| | - Yu Lan
- School of Chemistry and Chemical Engineering, Chongqing Key Laboratory of Theoretical and Computational Chemistry, Chongqing University, Chongqing 400030, China
- College of Chemistry and Molecular Engineering, Zhengzhou University, Zhengzhou 450001, China
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27
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Sun X, Soini TM, Poater J, Hamlin TA, Bickelhaupt FM. PyFrag 2019-Automating the exploration and analysis of reaction mechanisms. J Comput Chem 2019; 40:2227-2233. [PMID: 31165500 PMCID: PMC6771738 DOI: 10.1002/jcc.25871] [Citation(s) in RCA: 50] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2019] [Revised: 05/16/2019] [Accepted: 05/16/2019] [Indexed: 02/06/2023]
Abstract
We present a substantial update to the PyFrag 2008 program, which was originally designed to perform a fragment-based activation strain analysis along a provided potential energy surface. The original PyFrag 2008 workflow facilitated the characterization of reaction mechanisms in terms of the intrinsic properties, such as strain and interaction, of the reactants. The new PyFrag 2019 program has automated and reduced the time-consuming and laborious task of setting up, running, analyzing, and visualizing computational data from reaction mechanism studies to a single job. PyFrag 2019 resolves three main challenges associated with the automated computational exploration of reaction mechanisms: it (1) computes the reaction path by carrying out multiple parallel calculations using initial coordinates provided by the user; (2) monitors the entire workflow process; and (3) tabulates and visualizes the final data in a clear way. The activation strain and canonical energy decomposition results that are generated relate the characteristics of the reaction profile in terms of intrinsic properties (strain, interaction, orbital overlaps, orbital energies, populations) of the reactant species. © 2019 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc.
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Affiliation(s)
- Xiaobo Sun
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale ModelingVrije Universiteit AmsterdamDe Boelelaan 1083, 1081 HVAmsterdamNetherlands
| | - Thomas M. Soini
- Software for Chemistry & Materials B.V.De Boelelaan 1083, 1081 HVAmsterdamNetherlands
| | - Jordi Poater
- ICREA, Pg. Lluís Companys 23, 08010 Barcelona, Spain and Departament de Química Inorgànica i Orgànica & IQTCUBUniversitat de Barcelona08028BarcelonaCataloniaSpain
| | - Trevor A. Hamlin
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale ModelingVrije Universiteit AmsterdamDe Boelelaan 1083, 1081 HVAmsterdamNetherlands
| | - F. Matthias Bickelhaupt
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale ModelingVrije Universiteit AmsterdamDe Boelelaan 1083, 1081 HVAmsterdamNetherlands
- Institute for Molecules and MaterialsRadboud UniversityHeyendaalseweg 135, 6525 AJNijmegenNetherlands
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28
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Vaughn LT, Baseden KA, Tye JW. Factors Affecting the Regiochemical Outcome of Alkene Insertions into Rhodium–Carbon and Rhodium–Nitrogen Bonds. Org Process Res Dev 2019. [DOI: 10.1021/acs.oprd.9b00165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Logan T. Vaughn
- Department of Chemistry, Ball State University, Muncie, Indiana 47306, United States
| | - Kyle A. Baseden
- Department of Chemistry, Ball State University, Muncie, Indiana 47306, United States
| | - Jesse W. Tye
- Department of Chemistry, Ball State University, Muncie, Indiana 47306, United States
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29
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Qi X, Kohler DG, Hull KL, Liu P. Energy Decomposition Analyses Reveal the Origins of Catalyst and Nucleophile Effects on Regioselectivity in Nucleopalladation of Alkenes. J Am Chem Soc 2019; 141:11892-11904. [PMID: 31322875 DOI: 10.1021/jacs.9b02893] [Citation(s) in RCA: 46] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Nucleopalladation is one of the most common mechanisms for Pd-catalyzed hydro- and oxidative functionalization of alkenes. Due to the electronic bias of the π-alkene-palladium complexes, nucleopalladations with terminal aliphatic alkenes typically deliver the nucleophile to the more substituted sp2 carbon to form the Markovnikov-selective products. The selective formation of the anti-Markovnikov nucleopalladation products requires the inherent electronic effects to be overridden, which is still a significant challenge for reactions with simple aliphatic alkenes. Because the interactions between the nucleophile and the alkene substrate are influenced by a complex combination of multiple types of steric and electronic effects, a thorough understanding of the interplay of these underlying interactions is needed to rationalize and predict the regioselectivity. Here, we employ an energy decomposition approach to quantitatively separate the different types of nucleophile-substrate interactions, including steric, electrostatic, orbital interactions, and dispersion effects, and to predict the impacts of each factor on regioselectivity. We demonstrate the use of this approach on the origins of catalyst-controlled anti-Markovnikov-selectivity in Hull's Pd-catalyzed oxidative amination reactions. In addition, we evaluated the regioselectivity in a series of nucleopalladation reactions with different neutral and anionic Pd catalysts and N- and O-nucleophiles with different steric and electronic properties. On the basis of these computational analyses, a generalized scheme is established to identify the dominant nucleophile-substrate interaction affecting the regioselectivity of nucleopalladations with different Pd catalysts and nucleophiles.
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Affiliation(s)
- Xiaotian Qi
- Department of Chemistry , University of Pittsburgh , Pittsburgh , Pennsylvania 15260 , United States
| | - Daniel G Kohler
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
| | - Kami L Hull
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
| | - Peng Liu
- Department of Chemistry , University of Pittsburgh , Pittsburgh , Pennsylvania 15260 , United States.,Department of Chemical and Petroleum Engineering , University of Pittsburgh , Pittsburgh , Pennsylvania 15261 , United States
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30
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Li X, Wu H, Wu Z, Huang G. Mechanism and Origins of Regioselectivity of Copper-Catalyzed Borocyanation of 2-Aryl-Substituted 1,3-Dienes: A Computational Study. J Org Chem 2019; 84:5514-5523. [DOI: 10.1021/acs.joc.9b00471] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Xiaojie Li
- Department of Chemistry, School of Science, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
| | - Hongli Wu
- Department of Chemistry, School of Science, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
| | - Zhenzhen Wu
- Department of Chemistry, School of Science, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
| | - Genping Huang
- Department of Chemistry, School of Science, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
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31
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Wang J, Wu K, Qi X. Theoretical study of the ligand effect on NHC–cobalt-catalyzed hydrogenation of ketones. Catal Sci Technol 2019. [DOI: 10.1039/c9cy01239g] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Theoretical study of ketone hydrogenation revealed that the catalyst regeneration step is more sensitive to the ligand effect.
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Affiliation(s)
- Juan Wang
- Key Laboratory for Material Chemistry of Energy Conversion and Storage, Ministry of Education
- School of Chemistry and Chemical Engineering
- Huazhong University of Science and Technology
- Wuhan 430074
- China
| | - Kangbing Wu
- Key Laboratory for Material Chemistry of Energy Conversion and Storage, Ministry of Education
- School of Chemistry and Chemical Engineering
- Huazhong University of Science and Technology
- Wuhan 430074
- China
| | - Xiaotian Qi
- Department of Chemistry
- University of Pittsburgh
- Pittsburgh
- USA
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32
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Liu Y, Liu S, Li D, Zhang N, Peng L, Ao J, Song CE, Lan Y, Yan H. Kinetic Resolution of Allylic Alcohol with Chiral BINOL-Based Alkoxides: A Combination of Experimental and Theoretical Studies. J Am Chem Soc 2018; 141:1150-1159. [DOI: 10.1021/jacs.8b12796] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
| | | | | | | | | | | | - Choong Eui Song
- Department of Chemistry, Sungkyunkwan University, 2066, Seobu-ro,
Jangan-gu, Suwon, Gyeonggi 440-746, Korea
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33
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Xiong Y, Du Z, Chen H, Yang Z, Tan Q, Zhang C, Zhu L, Lan Y, Zhang M. Well-Designed Phosphine–Urea Ligand for Highly Diastereo- and Enantioselective 1,3-Dipolar Cycloaddition of Methacrylonitrile: A Combined Experimental and Theoretical Study. J Am Chem Soc 2018; 141:961-971. [DOI: 10.1021/jacs.8b10939] [Citation(s) in RCA: 58] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Yang Xiong
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, and ‡School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 401331, China
| | - Zhuanzhuan Du
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, and ‡School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 401331, China
| | | | - Zhao Yang
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, and ‡School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 401331, China
| | - Qiuyuan Tan
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, and ‡School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 401331, China
| | - Changhui Zhang
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, and ‡School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 401331, China
| | | | - Yu Lan
- College of Chemistry and Molecular Engineering, Zhengzhou University, Zhengzhou 450001, China
| | - Min Zhang
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, and ‡School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 401331, China
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34
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Yu S, de Bruijn HM, Svatunek D, Hamlin TA, Bickelhaupt FM. Factors Controlling the Diels-Alder Reactivity of Hetero-1,3-Butadienes. ChemistryOpen 2018; 7:995-1004. [PMID: 30524925 PMCID: PMC6276106 DOI: 10.1002/open.201800193] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2018] [Indexed: 12/29/2022] Open
Abstract
We have quantum chemically explored the Diels-Alder reactivities of a systematic series of hetero-1,3-butadienes with ethylene by using density functional theory at the BP86/TZ2P level. Activation strain analyses provided physical insight into the factors controlling the relative cycloaddition reactivity of aza- and oxa-1,3-butadienes. We find that dienes with a terminal heteroatom, such as 2-propen-1-imine (NCCC) or acrolein (OCCC), are less reactive than the archetypal 1,3-butadiene (CCCC), primarily owing to weaker orbital interactions between the more electronegative heteroatoms with ethylene. Thus, the addition of a second heteroatom at the other terminal position (NCCN and OCCO) further reduces the reactivity. However, the introduction of a nitrogen atom in the backbone (CNCC) leads to enhanced reactivity, owing to less Pauli repulsion resulting from polarization of the diene HOMO in CNCC towards the nitrogen atom and away from the terminal carbon atom. The Diels-Alder reactions of ethenyl-diazene (NNCC) and 1,3-diaza-butadiene (NCNC), which contain heteroatoms at both the terminal and backbone positions, are much more reactive due to less activation strain compared to CCCC.
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Affiliation(s)
- Song Yu
- Department of Theoretical Chemistry, Amsterdam Center for Multiscale Modeling (ACMM) Vrije Universiteit Amsterdam De Boelelaan 1083 1081 HV Amsterdam The Netherlands
| | - Hans M de Bruijn
- Department of Theoretical Chemistry, Amsterdam Center for Multiscale Modeling (ACMM) Vrije Universiteit Amsterdam De Boelelaan 1083 1081 HV Amsterdam The Netherlands
- Leiden Institute of Chemistry, Gorlaeus Laboratories Leiden University P.O. Box 9502 2300 RA Leiden The Netherlands
| | - Dennis Svatunek
- Department of Theoretical Chemistry, Amsterdam Center for Multiscale Modeling (ACMM) Vrije Universiteit Amsterdam De Boelelaan 1083 1081 HV Amsterdam The Netherlands
- Institut für Angewandte Synthesechemie Technische Universität Wien (TU Wien) Getreidemarkt 9 1060 Vienna Austria
| | - Trevor A Hamlin
- Department of Theoretical Chemistry, Amsterdam Center for Multiscale Modeling (ACMM) Vrije Universiteit Amsterdam De Boelelaan 1083 1081 HV Amsterdam The Netherlands
| | - F Matthias Bickelhaupt
- Department of Theoretical Chemistry, Amsterdam Center for Multiscale Modeling (ACMM) Vrije Universiteit Amsterdam De Boelelaan 1083 1081 HV Amsterdam The Netherlands
- Institute for Molecules and Materials (IMM) Radboud University Heyendaalseweg 135 6525 AJ Nijmegen The Netherlands
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35
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Hamlin TA, Svatunek D, Yu S, Ridder L, Infante I, Visscher L, Bickelhaupt FM. Elucidating the Trends in Reactivity of Aza-1,3-Dipolar Cycloadditions. European J Org Chem 2018. [DOI: 10.1002/ejoc.201800572] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Trevor A. Hamlin
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM); Vrije Universiteit Amsterdam; De Boelelaan 1083 1081 HV Amsterdam The Netherlands
| | - Dennis Svatunek
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM); Vrije Universiteit Amsterdam; De Boelelaan 1083 1081 HV Amsterdam The Netherlands
- Institute of Applied Synthetic Chemistry; Technische Universität Wien (TU Wien); Getreidemarkt 9 1060 Vienna Austria
| | - Song Yu
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM); Vrije Universiteit Amsterdam; De Boelelaan 1083 1081 HV Amsterdam The Netherlands
| | - Lars Ridder
- Netherlands eScience Center; Science Park 140 1098 XG Amsterdam The Netherlands
| | - Ivan Infante
- Institute for Molecules and Materials (IMM); Radboud University; Heyendaalseweg 135 6525 AJ Nijmegen The Netherlands
| | - Lucas Visscher
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM); Vrije Universiteit Amsterdam; De Boelelaan 1083 1081 HV Amsterdam The Netherlands
| | - F. Matthias Bickelhaupt
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM); Vrije Universiteit Amsterdam; De Boelelaan 1083 1081 HV Amsterdam The Netherlands
- Institute for Molecules and Materials (IMM); Radboud University; Heyendaalseweg 135 6525 AJ Nijmegen The Netherlands
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36
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Theoretical insight into phosphoric acid-catalyzed asymmetric conjugate addition of indolizines to α,β-unsaturated ketones. CHINESE CHEM LETT 2018. [DOI: 10.1016/j.cclet.2018.03.018] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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37
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Wu H, Li X, Tang X, Feng C, Huang G. Mechanisms of Rhodium(III)-Catalyzed C–H Functionalizations of Benzamides with α,α-Difluoromethylene Alkynes. J Org Chem 2018; 83:9220-9230. [DOI: 10.1021/acs.joc.8b01229] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Hongli Wu
- Department of Chemistry, School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
| | - Xiaojie Li
- Department of Chemistry, School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
| | - Xiangyang Tang
- Department of Chemistry, School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
| | - Chao Feng
- Institute of Advanced Synthesis, School of Chemistry and Molecular Engineering, Jiangsu National Synergetic Innovation Center for Advanced Materials, Nanjing Tech University, Nanjing 211816, P. R. China
| | - Genping Huang
- Department of Chemistry, School of Science and Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Tianjin University, Tianjin 300072, P. R. China
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38
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Mechanistic insight into cobalt-catalyzed stereodivergent semihydrogenation of alkynes: The story of selectivity control. J Catal 2018. [DOI: 10.1016/j.jcat.2018.03.016] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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39
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Zhao F, Xu B, Ren D, Han L, Yu Z, Liu T. C–H Alkynylation of N-Methylisoquinolone by Rhodium or Gold Catalysis: Theoretical Studies on the Mechanism, Regioselectivity, and Role of TIPS-EBX. Organometallics 2018. [DOI: 10.1021/acs.organomet.8b00029] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Fengyue Zhao
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Benzhen Xu
- Department of Chemistry and Chemical Engineering, Jining University, Qufu 273155, Shandong, China
| | - Dongcheng Ren
- Department of Chemistry and Chemical Engineering, Jining University, Qufu 273155, Shandong, China
| | - Lingli Han
- Department of Chemistry and Chemical Engineering, Jining University, Qufu 273155, Shandong, China
| | - Zhangyu Yu
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
- Department of Chemistry and Chemical Engineering, Jining University, Qufu 273155, Shandong, China
| | - Tao Liu
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
- Department of Chemistry and Chemical Engineering, Jining University, Qufu 273155, Shandong, China
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40
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Yuan C, Zhu L, Zeng R, Lan Y, Zhao Y. Ruthenium(II)-Catalyzed C−H Difluoromethylation of Ketoximes: Tuning the Regioselectivity from the meta
to the para
Position. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201711221] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Chunchen Yuan
- Key Laboratory of Organic Synthesis of Jiangsu Province; College of Chemistry, Chemical Engineering, and Materials Science; Soochow University; Suzhou 215123 P.R. China
| | - Lei Zhu
- School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 40030 P.R. China
| | - Runsheng Zeng
- Key Laboratory of Organic Synthesis of Jiangsu Province; College of Chemistry, Chemical Engineering, and Materials Science; Soochow University; Suzhou 215123 P.R. China
| | - Yu Lan
- School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 40030 P.R. China
| | - Yingsheng Zhao
- Key Laboratory of Organic Synthesis of Jiangsu Province; College of Chemistry, Chemical Engineering, and Materials Science; Soochow University; Suzhou 215123 P.R. China
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41
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Yuan C, Zhu L, Zeng R, Lan Y, Zhao Y. Ruthenium(II)-Catalyzed C-H Difluoromethylation of Ketoximes: Tuning the Regioselectivity from the meta to the para Position. Angew Chem Int Ed Engl 2018; 57:1277-1281. [PMID: 29215181 DOI: 10.1002/anie.201711221] [Citation(s) in RCA: 88] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2017] [Indexed: 11/06/2022]
Abstract
A highly para-selective CAr -H difluoromethylation of ketoxime ethers under ruthenium catalysis has been developed. A wide variety of ketoxime ethers are compatible with the reaction, which leads to the corresponding para-difluoromethylated products in moderate to good yield. A mechanistic study clearly showed that chelation-assisted cycloruthenation is the key factor in the para selectivity of the difluoromethylation of ketoxime ethers. Density functional theory was used to gain a theoretical understanding of the para selectivity.
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Affiliation(s)
- Chunchen Yuan
- Key Laboratory of Organic Synthesis of Jiangsu Province, College of Chemistry, Chemical Engineering, and Materials Science, Soochow University, Suzhou, 215123, P.R. China
| | - Lei Zhu
- School of Chemistry and Chemical Engineering, Chongqing University, Chongqing, 40030, P.R. China
| | - Runsheng Zeng
- Key Laboratory of Organic Synthesis of Jiangsu Province, College of Chemistry, Chemical Engineering, and Materials Science, Soochow University, Suzhou, 215123, P.R. China
| | - Yu Lan
- School of Chemistry and Chemical Engineering, Chongqing University, Chongqing, 40030, P.R. China
| | - Yingsheng Zhao
- Key Laboratory of Organic Synthesis of Jiangsu Province, College of Chemistry, Chemical Engineering, and Materials Science, Soochow University, Suzhou, 215123, P.R. China
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42
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Liu S, Qi X, Qu LB, Bai R, Lan Y. C–H bond cleavage occurring on a Rh(v) intermediate: a theoretical study of Rh-catalyzed arene azidation. Catal Sci Technol 2018. [DOI: 10.1039/c7cy02367g] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Our theoretical calculations indicated that the oxidation of Rh(iii) to Rh(v) by PhI(OAc)OTs is a facile process. Subsequent electrophilic deprotonation was shown to occur from a Rh(v) intermediate rather than a Rh(iii) intermediate.
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Affiliation(s)
- Song Liu
- School of Chemistry and Chemical Engineering
- Chongqing University
- Chongqing 400030
- China
| | - Xiaotian Qi
- School of Chemistry and Chemical Engineering
- Chongqing University
- Chongqing 400030
- China
| | - Ling-Bo Qu
- College of Chemistry and Molecular Engineering
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Ruopeng Bai
- School of Chemistry and Chemical Engineering
- Chongqing University
- Chongqing 400030
- China
| | - Yu Lan
- School of Chemistry and Chemical Engineering
- Chongqing University
- Chongqing 400030
- China
- College of Chemistry and Molecular Engineering
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43
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Merzoud L, Saal A, Moussaoui R, Ouamerali O, Morell C, Chermette H. Fluorine substituent effect on the stereochemistry of catalyzed and non-catalyzed Diels–Alder reactions. The case of R-butenone with cyclopentadiene: a computational assessment of the mechanism. Phys Chem Chem Phys 2018; 20:16102-16116. [DOI: 10.1039/c8cp00985f] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
A semiquantitative prediction of stereoselectivity due to substitutions of dienophile is obtained.
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Affiliation(s)
- Lynda Merzoud
- Laboratory of Computational and Theoretical Chemistry and Photonics
- USTHB University
- Algeria
- Département de Chimie
- UMMTO University of Tizi–Ouzou
| | - Amar Saal
- Laboratory of Computational and Theoretical Chemistry and Photonics
- USTHB University
- Algeria
- Département de Chimie
- UMMTO University of Tizi–Ouzou
| | - Ramdane Moussaoui
- Laboratoire de Chimie Appliquée et de Génie Chimique
- Université M. Mammeri
- Tizi Ouzou
- Algeria
| | - Ourida Ouamerali
- Laboratory of Computational and Theoretical Chemistry and Photonics
- USTHB University
- Algeria
| | - Christophe Morell
- Université de Lyon
- Université Claude Bernard Lyon 1
- ENS-Lyon
- Institut des Sciences Analytiques
- 69622 Villeurbanne Cedex
| | - Henry Chermette
- Université de Lyon
- Université Claude Bernard Lyon 1
- ENS-Lyon
- Institut des Sciences Analytiques
- 69622 Villeurbanne Cedex
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44
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Kang K, Liu S, Xu T, Wang D, Leng X, Bai R, Lan Y, Shen Q. C(sp2)–C(sp2) Reductive Elimination from Well-Defined Diarylgold(III) Complexes. Organometallics 2017. [DOI: 10.1021/acs.organomet.7b00588] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kai Kang
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, People’s Republic of China
| | - Shuanshuan Liu
- Biotechnology
and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, Jiangsu Province 210009, People’s Republic of China
| | - Ting Xu
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
| | - Decai Wang
- Biotechnology
and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, Jiangsu Province 210009, People’s Republic of China
| | - Xuebing Leng
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, People’s Republic of China
| | - Ruopeng Bai
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
| | - Yu Lan
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
| | - Qilong Shen
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, People’s Republic of China
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45
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Li M, Xue XS, Cheng JP. Mechanism and Origins of Stereoinduction in Natural Cinchona Alkaloid Catalyzed Asymmetric Electrophilic Trifluoromethylthiolation of β-Keto Esters with N-Trifluoromethylthiophthalimide as Electrophilic SCF3 Source. ACS Catal 2017. [DOI: 10.1021/acscatal.7b03007] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Man Li
- State
Key Laboratory of Elemento-Organic Chemistry, College of Chemistry,
Collaborative Innovation Center of Chemical Science and Engineering, Nankai University, Tianjin 300071, People’s Republic of China
| | - Xiao-Song Xue
- State
Key Laboratory of Elemento-Organic Chemistry, College of Chemistry,
Collaborative Innovation Center of Chemical Science and Engineering, Nankai University, Tianjin 300071, People’s Republic of China
| | - Jin-Pei Cheng
- State
Key Laboratory of Elemento-Organic Chemistry, College of Chemistry,
Collaborative Innovation Center of Chemical Science and Engineering, Nankai University, Tianjin 300071, People’s Republic of China
- Center
of Basic Molecular Science, Department of Chemistry, Tsinghua University, Beijing 100084, People’s Republic of China
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46
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Levandowski BJ, Hamlin TA, Bickelhaupt FM, Houk KN. Role of Orbital Interactions and Activation Strain (Distortion Energies) on Reactivities in the Normal and Inverse Electron-Demand Cycloadditions of Strained and Unstrained Cycloalkenes. J Org Chem 2017; 82:8668-8675. [DOI: 10.1021/acs.joc.7b01673] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Brian J. Levandowski
- Department
of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, United States
| | - Trevor A. Hamlin
- Department
of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling
(ACMM), Vrije Universiteit Amsterdam, 1081 HV Amsterdam, The Netherlands
| | - F. Matthias Bickelhaupt
- Department
of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling
(ACMM), Vrije Universiteit Amsterdam, 1081 HV Amsterdam, The Netherlands
- Institute
for Molecules and Materials (IMM), Radboud University, 6525 AJ Nijmegen, The Netherlands
| | - K. N. Houk
- Department
of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, United States
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47
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Huang J, Gu Y, Guo K, Zhu L, Lan Y, Gong J, Yang Z. Bioinspired Total Synthesis of Homodimericin A. Angew Chem Int Ed Engl 2017; 56:7890-7894. [PMID: 28514079 DOI: 10.1002/anie.201702768] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Indexed: 11/07/2022]
Abstract
Homodimericin A is a remarkable fungal metabolite. This highly oxygenated racemic unsaturated polyketide poses a significant synthetic challenge owing to its sterically demanding central cagelike core containing eight contiguous stereogenic centers (including three quaternary stereocenters) and several carbonyl functionalities. On the basis of its proposed biogenetic synthesis, we designed a total synthesis of homodimericin A that proceeds in seven steps and features a double Michael reaction, an intramolecular Diels-Alder reaction, and an ene reaction.
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Affiliation(s)
- Jun Huang
- Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, 518055, China
| | - Yueqing Gu
- Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, 518055, China
| | - Kai Guo
- Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, 518055, China
| | - Lei Zhu
- Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, 518055, China.,School of Chemistry and Chemical Engineering, Chongqing University, Chongqing, 400030, China
| | - Yu Lan
- School of Chemistry and Chemical Engineering, Chongqing University, Chongqing, 400030, China
| | - Jianxian Gong
- Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, 518055, China
| | - Zhen Yang
- Laboratory of Chemical Genomics, School of Chemical Biology and Biotechnology, Peking University Shenzhen Graduate School, Shenzhen, 518055, China.,Beijing National Laboratory for Molecular Science and Key Laboratory of Bioorganic Chemistry and Molecular Engineering of the Ministry of Education, College of Chemistry and Molecular Engineering and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, 100871, China.,Laboratory for Marine Drugs and Bioproducts of Qingdao, National Laboratory for Marine Science and Technology, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China
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48
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Huang J, Gu Y, Guo K, Zhu L, Lan Y, Gong J, Yang Z. Bioinspired Total Synthesis of Homodimericin A. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201702768] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Jun Huang
- Laboratory of Chemical Genomics; School of Chemical Biology and Biotechnology; Peking University Shenzhen Graduate School; Shenzhen 518055 China
| | - Yueqing Gu
- Laboratory of Chemical Genomics; School of Chemical Biology and Biotechnology; Peking University Shenzhen Graduate School; Shenzhen 518055 China
| | - Kai Guo
- Laboratory of Chemical Genomics; School of Chemical Biology and Biotechnology; Peking University Shenzhen Graduate School; Shenzhen 518055 China
| | - Lei Zhu
- Laboratory of Chemical Genomics; School of Chemical Biology and Biotechnology; Peking University Shenzhen Graduate School; Shenzhen 518055 China
- School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 400030 China
| | - Yu Lan
- School of Chemistry and Chemical Engineering; Chongqing University; Chongqing 400030 China
| | - Jianxian Gong
- Laboratory of Chemical Genomics; School of Chemical Biology and Biotechnology; Peking University Shenzhen Graduate School; Shenzhen 518055 China
| | - Zhen Yang
- Laboratory of Chemical Genomics; School of Chemical Biology and Biotechnology; Peking University Shenzhen Graduate School; Shenzhen 518055 China
- Beijing National Laboratory for Molecular Science and Key Laboratory of Bioorganic Chemistry and Molecular Engineering of the Ministry of Education; College of Chemistry and Molecular Engineering and Peking-Tsinghua Center for Life Sciences; Peking University; Beijing 100871 China
- Laboratory for Marine Drugs and Bioproducts of Qingdao; National Laboratory for Marine Science and Technology; Ocean University of China; 5 Yushan Road Qingdao 266003 China
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49
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Li Y, Shan C, Yang YF, Shi F, Qi X, Houk KN, Lan Y. Mechanism, Regio-, and Diastereoselectivity of Rh(III)-Catalyzed Cyclization Reactions of N-Arylnitrones with Alkynes: A Density Functional Theory Study. J Phys Chem A 2017; 121:4496-4504. [DOI: 10.1021/acs.jpca.7b01020] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Yingzi Li
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
- Department
of Chemistry and Biochemistry, University of California, Los Angeles, Los
Angeles, California 90095-1569, United States
| | - Chunhui Shan
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
| | - Yun-Fang Yang
- Department
of Chemistry and Biochemistry, University of California, Los Angeles, Los
Angeles, California 90095-1569, United States
| | - Fuqiang Shi
- Department
of Chemistry and Biochemistry, University of California, Los Angeles, Los
Angeles, California 90095-1569, United States
| | - Xiaotian Qi
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
| | - K. N. Houk
- Department
of Chemistry and Biochemistry, University of California, Los Angeles, Los
Angeles, California 90095-1569, United States
| | - Yu Lan
- School
of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400030, People’s Republic of China
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50
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Cui CX, Liu YJ. Regioselectivity and stereoselectivity of Diels-Alder reaction: a DFT study on the functionalization of organic semiconductor crystals. J PHYS ORG CHEM 2017. [DOI: 10.1002/poc.3610] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Cheng-Xing Cui
- School of Chemistry and Chemical Engineering; Henan Institute of Science and Technology; Xinxiang 453003 China
| | - Ya-Jun Liu
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry; Beijing Normal University; Beijing 100875 China
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