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Wei S, Xu G, Zhou J, Ni Y. Structure-Guided Evolution of Cyclohexanone Monooxygenase Toward Bulky Omeprazole Sulfide: Substrate Migration and Stereoselectivity Inversion. Chemphyschem 2024; 25:e202400008. [PMID: 38514394 DOI: 10.1002/cphc.202400008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Revised: 03/06/2024] [Accepted: 03/20/2024] [Indexed: 03/23/2024]
Abstract
Structure-guided engineering of a CHMO from Amycolatopsis methanolica (AmCHMO) was performed for asymmetric sulfoxidation activity and stereoselectivity toward omeprazole sulfide. Initially, combinatorial active-site saturation test (CASTing) and iteratively saturation mutagenesis (ISM) were performed on 5 residues at the "bottleneck" of substrate tunnel, and MT3 was successfully obtained with a specific activity of 46.19 U/g and R-stereoselectivity of 99 % toward OPS. Then, 4 key mutations affecting the stereoselectivity were identified through multiple rounds of ISM on residues at the substrate binding pocket region, resulting MT8 with an inversed stereoselectivity from 99 % (R) to 97 % (S). MT8 has a greatly compromised specific activity of 0.08 U/g. By introducing additional beneficial mutations, MT11 was constructed with significantly increased specific activity of 2.29 U/g and stereoselectivity of 97 % (S). Enlarged substrate tunnel is critical to the expanded substrate spectrum of AmCHMO, while reshaping of substrate binding pocket is important for stereoselective inversion. Based on MD simulation, pre-reaction states of MT3-OPSproR, MT8-OPSproS, and MT11-OPSproS were calculated to be 45.56 %, 17.94 %, and 28.65 % respectively, which further confirm the experimental data on activity and stereoselectivity. Our results pave the way for engineering distinct activity and stereoselectivity of BVMOs toward bulky prazole thioethers.
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Affiliation(s)
- Shiyu Wei
- Institution: School of Biological and Pharmaceutical Engineering, Lanzhou Jiaotong University, Address, Lanzhou Jiaotong University, Lanzhou, 730070, Gansu, China
- Department: Key laboratory of industrial Biotechnology. Institution: Ministry of Education, School of Biotechnology, Address, Jiangnan University, Wuxi, 214122, Jiangsu, China
| | - Guochao Xu
- Department: Key laboratory of industrial Biotechnology. Institution: Ministry of Education, School of Biotechnology, Address, Jiangnan University, Wuxi, 214122, Jiangsu, China
| | - Jieyu Zhou
- Department: Key laboratory of industrial Biotechnology. Institution: Ministry of Education, School of Biotechnology, Address, Jiangnan University, Wuxi, 214122, Jiangsu, China
| | - Ye Ni
- Department: Key laboratory of industrial Biotechnology. Institution: Ministry of Education, School of Biotechnology, Address, Jiangnan University, Wuxi, 214122, Jiangsu, China
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Occhipinti G, Nascimento DL, Foscato M, Fogg DE, Jensen VR. The Janus face of high trans-effect carbenes in olefin metathesis: gateway to both productivity and decomposition. Chem Sci 2022; 13:5107-5117. [PMID: 35655574 PMCID: PMC9093171 DOI: 10.1039/d2sc00855f] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Accepted: 03/19/2022] [Indexed: 11/25/2022] Open
Abstract
Ruthenium–cyclic(alkyl)(amino)carbene (CAAC) catalysts, used at ppm levels, can enable dramatically higher productivities in olefin metathesis than their N-heterocyclic carbene (NHC) predecessors. A key reason is the reduced susceptibility of the metallacyclobutane (MCB) intermediate to decomposition via β-H elimination. The factors responsible for promoting or inhibiting β-H elimination are explored via density functional theory (DFT) calculations, in metathesis of ethylene or styrene (a representative 1-olefin) by Ru–CAAC and Ru–NHC catalysts. Natural bond orbital analysis of the frontier orbitals confirms the greater strength of the orbital interactions for the CAAC species, and the consequent increase in the carbene trans influence and trans effect. The higher trans effect of the CAAC ligands inhibits β-H elimination by destabilizing the transition state (TS) for decomposition, in which an agostic MCB Cβ–H bond is positioned trans to the carbene. Unproductive cycling with ethylene is also curbed, because ethylene is trans to the carbene ligand in the square pyramidal TS for ethylene metathesis. In contrast, metathesis of styrene proceeds via a ‘late’ TS with approximately trigonal bipyramidal geometry, in which carbene trans effects are reduced. Importantly, however, the positive impact of a strong trans-effect ligand in limiting β-H elimination is offset by its potent accelerating effect on bimolecular coupling, a major competing means of catalyst decomposition. These two decomposition pathways, known for decades to limit productivity in olefin metathesis, are revealed as distinct, antinomic, responses to a single underlying phenomenon. Reconciling these opposing effects emerges as a clear priority for design of robust, high-performing catalysts. In ruthenium catalysts for olefin metathesis, carbene ligands of high trans influence/effect suppress decomposition via β-H elimination, but increase susceptibility to bimolecular decomposition.![]()
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Affiliation(s)
- Giovanni Occhipinti
- Department of Chemistry, University of Bergen Allégaten 41 N-5007 Bergen Norway
| | - Daniel L Nascimento
- Center for Catalysis Research & Innovation, Department of Chemistry and Biomolecular Sciences, University of Ottawa Ottawa Canada K1N 6N5
| | - Marco Foscato
- Department of Chemistry, University of Bergen Allégaten 41 N-5007 Bergen Norway
| | - Deryn E Fogg
- Department of Chemistry, University of Bergen Allégaten 41 N-5007 Bergen Norway .,Center for Catalysis Research & Innovation, Department of Chemistry and Biomolecular Sciences, University of Ottawa Ottawa Canada K1N 6N5
| | - Vidar R Jensen
- Department of Chemistry, University of Bergen Allégaten 41 N-5007 Bergen Norway
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Recent advances in theoretical studies on ligand-controlled selectivity of nickel- and palladium-catalyzed cross-coupling reactions. CHINESE CHEM LETT 2021. [DOI: 10.1016/j.cclet.2020.04.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Saideh Ghorbaninezhad, Ghiasi R, Marjani A. Computational Investigation of Substituent Effect on the Thermodynamics and Kinetics of β-Hydrocarbyl Elimination from a Rhodium(I) Iminyl Complex. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY A 2021. [DOI: 10.1134/s0036024421010076] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Sandford C, Fries LR, Ball TE, Minteer SD, Sigman MS. Mechanistic Studies into the Oxidative Addition of Co(I) Complexes: Combining Electroanalytical Techniques with Parameterization. J Am Chem Soc 2019; 141:18877-18889. [DOI: 10.1021/jacs.9b10771] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Christopher Sandford
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Lydia R. Fries
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Tyler E. Ball
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Shelley D. Minteer
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Matthew S. Sigman
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
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Xu Z, Xu JZ, Zhang J, Zheng ZJ, Cao J, Cui YM, Xu LW. Mechanistic Insights into Palladium-Catalyzed Silylation of Aryl Iodides with Hydrosilanes through a DFT Study. Chem Asian J 2017; 12:1749-1757. [PMID: 28452198 DOI: 10.1002/asia.201700174] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2017] [Revised: 04/21/2017] [Indexed: 11/05/2022]
Abstract
The catalytic cycles of palladium-catalyzed silylation of aryl iodides, which are initiated by oxidative addition of hydrosilane or aryl iodide through three different mechanisms characterized by intermediates R3 Si-PdII -H (Cycle A), Ar-PdII -I (Cycle B), and PdIV (Cycle C), have been explored in detail by hybrid DFT. Calculations suggest that the chemical selectivity and reactivity of the reaction depend on the ligation state of the catalyst and specific reaction conditions, including feeding order of substrates and the presence of base. For less bulky biligated catalyst, Cycle C is energetically favored over Cycle A, through which the silylation process is slightly favored over the reduction process. Interestingly, for bulky monoligated catalyst, Cycle B is energetically more favored over generally accepted Cycle A, in which the silylation channel is slightly disfavored in comparison to that of the reduction channel. Moreover, the inclusion of base in this channel allows the silylated product become dominant. These findings offer a good explanation for the complex experimental observations. Designing a reaction process that allows the oxidative addition of palladium(0) complex to aryl iodide to occur prior to that with hydrosilane is thus suggested to improve the reactivity and chemoselectivity for the silylated product by encouraging the catalytic cycle to proceed through Cycles B (monoligated Pd0 catalyst) or C (biligated Pd0 catalyst), instead of Cycle A.
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Affiliation(s)
- Zheng Xu
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China
| | - Jin-Zhou Xu
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China
| | - Jin Zhang
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China
| | - Zhan-Jiang Zheng
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China
| | - Jian Cao
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China
| | - Yu-Ming Cui
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China
| | - Li-Wen Xu
- Key Laboratory of Organosilicon Chemistry and, Material Technology of Ministry of Education, Hangzhou Normal University, No 1378, Wenyi West Road, Science Park of HZNU, Hangzhou, P.R. China.,Suzhou Research Institute and State Key Laboratory, for Oxo Synthesis and Selective Oxidation, Lanzhou Institute of Chemical Physics, Chinese Academy of Sciences, P.R. China
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Bhat V, Welin ER, Guo X, Stoltz BM. Advances in Stereoconvergent Catalysis from 2005 to 2015: Transition-Metal-Mediated Stereoablative Reactions, Dynamic Kinetic Resolutions, and Dynamic Kinetic Asymmetric Transformations. Chem Rev 2017; 117:4528-4561. [PMID: 28164696 PMCID: PMC5516946 DOI: 10.1021/acs.chemrev.6b00731] [Citation(s) in RCA: 227] [Impact Index Per Article: 32.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Stereoconvergent catalysis is an important subset of asymmetric synthesis that encompasses stereoablative transformations, dynamic kinetic resolutions, and dynamic kinetic asymmetric transformations. Initially, only enzymes were known to catalyze dynamic kinetic processes, but recently various synthetic catalysts have been developed. This Review summarizes major advances in nonenzymatic, transition-metal-promoted dynamic asymmetric transformations reported between 2005 and 2015.
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Affiliation(s)
| | - Eric R. Welin
- The Warren and Katharine Schlinger Laboratory of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
| | | | - Brian M. Stoltz
- The Warren and Katharine Schlinger Laboratory of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
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Cherney AH, Kadunce NT, Reisman SE. Enantioselective and Enantiospecific Transition-Metal-Catalyzed Cross-Coupling Reactions of Organometallic Reagents To Construct C-C Bonds. Chem Rev 2015; 115:9587-652. [PMID: 26268813 PMCID: PMC4566132 DOI: 10.1021/acs.chemrev.5b00162] [Citation(s) in RCA: 615] [Impact Index Per Article: 68.3] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Alan H Cherney
- The Warren and Katharine Schlinger Laboratory for Chemistry and Chemical Engineering, Division of Chemistry and Chemical Engineering, California Institute of Technology , Pasadena, California 91125, United States
| | - Nathaniel T Kadunce
- The Warren and Katharine Schlinger Laboratory for Chemistry and Chemical Engineering, Division of Chemistry and Chemical Engineering, California Institute of Technology , Pasadena, California 91125, United States
| | - Sarah E Reisman
- The Warren and Katharine Schlinger Laboratory for Chemistry and Chemical Engineering, Division of Chemistry and Chemical Engineering, California Institute of Technology , Pasadena, California 91125, United States
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Sperger T, Sanhueza IA, Kalvet I, Schoenebeck F. Computational Studies of Synthetically Relevant Homogeneous Organometallic Catalysis Involving Ni, Pd, Ir, and Rh: An Overview of Commonly Employed DFT Methods and Mechanistic Insights. Chem Rev 2015. [PMID: 26207572 DOI: 10.1021/acs.chemrev.5b00163] [Citation(s) in RCA: 410] [Impact Index Per Article: 45.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Theresa Sperger
- Institute of Organic Chemistry, RWTH Aachen University , Landoltweg 1, 52074 Aachen, Germany
| | - Italo A Sanhueza
- Institute of Organic Chemistry, RWTH Aachen University , Landoltweg 1, 52074 Aachen, Germany.,Laboratory of Organic Chemistry, ETH Zürich , Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland
| | - Indrek Kalvet
- Institute of Organic Chemistry, RWTH Aachen University , Landoltweg 1, 52074 Aachen, Germany
| | - Franziska Schoenebeck
- Institute of Organic Chemistry, RWTH Aachen University , Landoltweg 1, 52074 Aachen, Germany
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Pudasaini B, Janesko BG. Agostic Interactions in Nickel(II) Complexes: Trans Influence of Ancillary Ligands on the Strength of the Bond. Organometallics 2013. [DOI: 10.1021/om400731j] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Bimal Pudasaini
- Department
of Chemistry, Texas Christian University, Box 298860, Fort
Worth, Texas 76129, United States
| | - Benjamin G. Janesko
- Department
of Chemistry, Texas Christian University, Box 298860, Fort
Worth, Texas 76129, United States
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Zhang TX, Li Z. A DFT study on Pd-catalyzed Suzuki cross-coupling polycondensation of aryl bromide monomers. COMPUT THEOR CHEM 2013. [DOI: 10.1016/j.comptc.2013.04.015] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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12
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Fleury-Brégeot N, Oehlrich D, Rombouts F, Molander GA. Suzuki-Miyaura cross-coupling of potassium dioxolanylethyltrifluoroborate and aryl/heteroaryl chlorides. Org Lett 2013; 15:1536-9. [PMID: 23489071 DOI: 10.1021/ol400320q] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
A robust and efficient protocol for the introduction of the dioxolanylethyl moiety onto various aryl and heteroaryl halides has been developed, providing cross-coupling yields up to 93%. Copper-catalyzed borylation of 2-(2-bromoethyl)-1,3-dioxolane with bis(pinacolato)diboron followed by treatment with potassium bifluoride provides the key organotrifluoroborate reagent.
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Affiliation(s)
- Nicolas Fleury-Brégeot
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, United States
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Fleury-Brégeot N, Presset M, Beaumard F, Colombel V, Oehlrich D, Rombouts F, Molander GA. Suzuki-Miyaura cross-coupling of potassium alkoxyethyltrifluoroborates: access to aryl/heteroarylethyloxy motifs. J Org Chem 2012; 77:10399-408. [PMID: 23131122 DOI: 10.1021/jo3021665] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The introduction of an alkoxyethyl moiety onto aromatic substructures has remained a long-standing challenge for synthetic organic chemists. The main reasons are the inherent instability of alkoxyethylmetallic species and the lack of general procedures to access them. A new method utilizing a cross-coupling strategy based on the exceptional properties of organotrifluoroborates has been developed, and the method allows an easy and efficient installation of this unit on a broad range of aryl and heteroaryl bromides.
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Affiliation(s)
- Nicolas Fleury-Brégeot
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, USA
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