1
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Fansher D, Besna JN, Fendri A, Pelletier JN. Choose Your Own Adventure: A Comprehensive Database of Reactions Catalyzed by Cytochrome P450 BM3 Variants. ACS Catal 2024; 14:5560-5592. [PMID: 38660610 PMCID: PMC11036407 DOI: 10.1021/acscatal.4c00086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2024] [Revised: 03/11/2024] [Accepted: 03/12/2024] [Indexed: 04/26/2024]
Abstract
Cytochrome P450 BM3 monooxygenase is the topic of extensive research as many researchers have evolved this enzyme to generate a variety of products. However, the abundance of information on increasingly diversified variants of P450 BM3 that catalyze a broad array of chemistry is not in a format that enables easy extraction and interpretation. We present a database that categorizes variants by their catalyzed reactions and includes details about substrates to provide reaction context. This database of >1500 P450 BM3 variants is downloadable and machine-readable and includes instructions to maximize ease of gathering information. The database allows rapid identification of commonly reported substitutions, aiding researchers who are unfamiliar with the enzyme in identifying starting points for enzyme engineering. For those actively engaged in engineering P450 BM3, the database, along with this review, provides a powerful and user-friendly platform to understand, predict, and identify the attributes of P450 BM3 variants, encouraging the further engineering of this enzyme.
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Affiliation(s)
- Douglas
J. Fansher
- Chemistry
Department, Université de Montréal, Montreal, QC, Canada H2V 0B3
- PROTEO,
The Québec Network for Research on Protein Function, Engineering,
and Applications, 201
Av. du Président-Kennedy, Montréal, QC, Canada H2X 3Y7
- CGCC,
Center in Green Chemistry and Catalysis, Montreal, QC, Canada H2V 0B3
| | - Jonathan N. Besna
- PROTEO,
The Québec Network for Research on Protein Function, Engineering,
and Applications, 201
Av. du Président-Kennedy, Montréal, QC, Canada H2X 3Y7
- CGCC,
Center in Green Chemistry and Catalysis, Montreal, QC, Canada H2V 0B3
- Department
of Biochemistry and Molecular Medicine, Université de Montréal, Montreal, QC, Canada H3T 1J4
| | - Ali Fendri
- Chemistry
Department, Université de Montréal, Montreal, QC, Canada H2V 0B3
- PROTEO,
The Québec Network for Research on Protein Function, Engineering,
and Applications, 201
Av. du Président-Kennedy, Montréal, QC, Canada H2X 3Y7
- CGCC,
Center in Green Chemistry and Catalysis, Montreal, QC, Canada H2V 0B3
| | - Joelle N. Pelletier
- Chemistry
Department, Université de Montréal, Montreal, QC, Canada H2V 0B3
- PROTEO,
The Québec Network for Research on Protein Function, Engineering,
and Applications, 201
Av. du Président-Kennedy, Montréal, QC, Canada H2X 3Y7
- CGCC,
Center in Green Chemistry and Catalysis, Montreal, QC, Canada H2V 0B3
- Department
of Biochemistry and Molecular Medicine, Université de Montréal, Montreal, QC, Canada H3T 1J4
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2
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Hilberath T, van Oosten R, Victoria J, Brasselet H, Alcalde M, Woodley JM, Hollmann F. Toward Kilogram-Scale Peroxygenase-Catalyzed Oxyfunctionalization of Cyclohexane. Org Process Res Dev 2023; 27:1384-1389. [PMID: 37496955 PMCID: PMC10367066 DOI: 10.1021/acs.oprd.3c00135] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Indexed: 07/28/2023]
Abstract
Mol-scale oxyfunctionalization of cyclohexane to cyclohexanol/cyclohexanone (KA-oil) using an unspecific peroxygenase is reported. Using AaeUPO from Agrocybe aegerita and simple H2O2 as an oxidant, cyclohexanol concentrations of more than 300 mM (>60% yield) at attractive productivities (157 mM h-1, approx. 15 g L-1 h-1) were achieved. Current limitations of the proposed biooxidation system have been identified paving the way for future improvements and implementation.
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Affiliation(s)
- Thomas Hilberath
- Department
of Biotechnology, Delft University of Technology, van der Maasweg 9, 2629HZ Delft, The Netherlands
| | - Remco van Oosten
- Department
of Biotechnology, Delft University of Technology, van der Maasweg 9, 2629HZ Delft, The Netherlands
| | - Juliet Victoria
- Department
of Chemical and Biochemical Engineering, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark
| | - Hugo Brasselet
- Atlant.
Innov., Koornmarkt 52, 2611 EH Delft, The Netherlands
| | - Miguel Alcalde
- Department
of Biocatalysis, Institute of Catalysis,
CSIC, 28049 Madrid, Spain
| | - John M. Woodley
- Department
of Chemical and Biochemical Engineering, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark
| | - Frank Hollmann
- Department
of Biotechnology, Delft University of Technology, van der Maasweg 9, 2629HZ Delft, The Netherlands
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3
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Nesterova OV, Kuznetsov ML, Pombeiro AJL, Shul'pin GB, Nesterov DS. Homogeneous oxidation of C–H bonds with m-CPBA catalysed by a Co/Fe system: mechanistic insights from the point of view of the oxidant. Catal Sci Technol 2022. [DOI: 10.1039/d1cy01991k] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A Co/Fe system efficiently catalyses the oxidation of C–H bonds with m-CPBA. The nitric acid promoter hampers the m-CPBA homolysis, suppressing the free radical activity. Experimental and computational data evidence a concerted oxidation mechanism.
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Affiliation(s)
- Oksana V. Nesterova
- Centro de Química Estrutural, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal
| | - Maxim L. Kuznetsov
- Centro de Química Estrutural, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal
| | - Armando J. L. Pombeiro
- Centro de Química Estrutural, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal
- Peoples' Friendship University of Russia (RUDN University), Research Institute of Chemistry, 6 Miklukho-Maklaya st, Moscow 117198, Russia
| | - Georgiy B. Shul'pin
- Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Ulitsa Kosygina 4, Moscow 119991, Russia
- Chair of Chemistry and Physics, Plekhanov Russian University of Economics, Stremyannyi pereulok 36, Moscow 117997, Russia
| | - Dmytro S. Nesterov
- Centro de Química Estrutural, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001 Lisboa, Portugal
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4
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Monteiro AF, Righetto GM, Simões LV, Almeida LCD, Costa-Lotufo LV, Camargo ILBDC, Castro-Gamboa I. Oxidative functionalization of a halimane diterpenoid achieved by fungal transformation. Bioorg Chem 2019; 86:550-556. [PMID: 30782573 DOI: 10.1016/j.bioorg.2019.02.021] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Revised: 02/07/2019] [Accepted: 02/08/2019] [Indexed: 12/29/2022]
Abstract
Regio and stereoselective activation of sp3 CH bonds remain one of the major advantages of biocatalysis over traditional chemocatalytic methods. Herein, we describe the oxy-functionalization of halimane diterpenoid 1 by whole cells of three filamentous fungi, aiming to obtain derivatives with desirable biological properties. After incubating 1 with Fusarium oxysporum, Myrothecium verrucaria, and Rhinocladiella similis at different concentrations and incubation times, four known (3, 5, 6, and 7) and three new (2, 4, and 8) halimane derivatives were obtained and characterized. F. oxysporum catalyzed the hydroxylation of positions C-2 (2) and C-7 (4), while R. similis simultaneously mediated the 2-oxo-functionalization and the hydration of 13,14-(CC)double bond belonging to an α,β-unsaturated carbonyl system (8). Compounds 1-7 were non-cytotoxic against HCT-116 and MCF-7 cancer cell lines at tested concentrations. However, substrate 1 displayed moderate reduction ability against biofilm produced by Staphylococcus epidermidis ATCC35984 (84% at 1.6 mM), and this effect was retained to some extent by derivatives 4 and 7. These results emphasize the prominent potential of filamentous fungi associated with the microbiota of medicinal plants as versatile catalysts for singularly useful reactions through their complex enzymatic machinery, as well as the high susceptibility of halimane-diterpenoid substrates.
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Affiliation(s)
- Afif Felix Monteiro
- Núcleo de Bioensaios, Biossíntese e Ecofisiologia de Produtos Naturais (NuBBE), Universidade Estadual Paulista (UNESP), Instituto de Química, Departamento de Química Orgância, Francisco Degni, 55, 14800-900, Araraquara, SP, Brazil.
| | - Gabriela Marinho Righetto
- São Carlos Institute of Physics, University of São Paulo, PO Box 369, 135560-970, São Carlos, SP, Brazil
| | - Laura Vilar Simões
- Núcleo de Bioensaios, Biossíntese e Ecofisiologia de Produtos Naturais (NuBBE), Universidade Estadual Paulista (UNESP), Instituto de Química, Departamento de Química Orgância, Francisco Degni, 55, 14800-900, Araraquara, SP, Brazil
| | - Larissa Costa de Almeida
- Universidade de São Paulo (USP), Instituto de Ciências Biomédicas, Av. Lineu Prestes, 1524, 05508-900, São Paulo, SP, Brazil
| | - Letícia Veras Costa-Lotufo
- Universidade de São Paulo (USP), Instituto de Ciências Biomédicas, Av. Lineu Prestes, 1524, 05508-900, São Paulo, SP, Brazil
| | | | - Ian Castro-Gamboa
- Núcleo de Bioensaios, Biossíntese e Ecofisiologia de Produtos Naturais (NuBBE), Universidade Estadual Paulista (UNESP), Instituto de Química, Departamento de Química Orgância, Francisco Degni, 55, 14800-900, Araraquara, SP, Brazil.
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5
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Porter JL, Manning J, Sabatini S, Tavanti M, Turner NJ, Flitsch SL. Characterisation of CYP102A25 fromBacillus marmarensisand CYP102A26 fromPontibacillus halophilus: P450 Homologues of BM3 with Preference towards Hydroxylation of Medium-Chain Fatty Acids. Chembiochem 2018; 19:513-520. [DOI: 10.1002/cbic.201700598] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2017] [Indexed: 12/16/2022]
Affiliation(s)
- Joanne L. Porter
- School of Chemistry; Manchester Institute of Biotechnology; The University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Jack Manning
- School of Chemistry; Manchester Institute of Biotechnology; The University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Selina Sabatini
- School of Chemistry; Manchester Institute of Biotechnology; The University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Michele Tavanti
- School of Chemistry; Manchester Institute of Biotechnology; The University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Nicholas J. Turner
- School of Chemistry; Manchester Institute of Biotechnology; The University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Sabine L. Flitsch
- School of Chemistry; Manchester Institute of Biotechnology; The University of Manchester; 131 Princess Street Manchester M1 7DN UK
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6
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Xu SH, Wang WW, Zhang C, Liu XF, Yu BY, Zhang J. Site-selective oxidation of unactivated C–H sp 3 bonds of oleanane triterpenes by Streptomyces griseus ATCC 13273. Tetrahedron 2017. [DOI: 10.1016/j.tet.2017.04.036] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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7
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Holec C, Hartrampf U, Neufeld K, Pietruszka J. P450 BM3-Catalyzed Regio- and Stereoselective Hydroxylation Aiming at the Synthesis of Phthalides and Isocoumarins. Chembiochem 2017; 18:676-684. [PMID: 28107587 DOI: 10.1002/cbic.201600685] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2016] [Indexed: 11/06/2022]
Abstract
Cytochrome P450 BM3 monooxygenases are able to catalyze the regio- and stereoselective oxygenation of a broad range of substrates, with promising potential for synthetic applications. To study the suitability of P450 BM3 variants for stereoselective benzylic hydroxylation of 2-alkylated benzoic acid esters, the biotransformation of methyl 2-ethylbenzoate, resulting in both enantiomeric forms of 3-methylphthalide, was investigated. In the case of methyl 2-propylbenzoate as a substrate the regioselectivity of the reaction was shifted towards β-hydroxylation, resulting in the synthesis of enantioenriched R- and S-configured 3-methylisochroman-1-one. The potential of P450 BM3 variants for regio- and stereoselective synthesis of phthalides and isocoumarins offers a new route to a class of compounds that are valuable synthons for a variety of natural compounds.
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Affiliation(s)
- Claudia Holec
- Institut für Bioorganische Chemie der Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich, Stetternicher Forst, Gebäude 15.8, 52426, Jülich, Germany
| | - Ute Hartrampf
- Institut für Bio- und Geowissenschaften (IBG-1: Biotechnologie), Forschungszentrum Jülich, 52426, Jülich, Germany
| | - Katharina Neufeld
- Institut für Bioorganische Chemie der Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich, Stetternicher Forst, Gebäude 15.8, 52426, Jülich, Germany
| | - Jörg Pietruszka
- Institut für Bioorganische Chemie der Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich, Stetternicher Forst, Gebäude 15.8, 52426, Jülich, Germany.,Institut für Bio- und Geowissenschaften (IBG-1: Biotechnologie), Forschungszentrum Jülich, 52426, Jülich, Germany
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8
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Britton J, Raston CL, Weiss GA. Rapid protein immobilization for thin film continuous flow biocatalysis. Chem Commun (Camb) 2016; 52:10159-62. [PMID: 27461146 PMCID: PMC4983276 DOI: 10.1039/c6cc04210d] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
A versatile enzyme immobilization strategy for thin film continuous flow processing is reported. Here, non-covalent and glutaraldehyde bioconjugation are used to immobilize enzymes on the surfaces of borosilicate reactors. This approach requires only ng of protein per reactor tube, with the stock protein solution readily recycled to sequentially coat >10 reactors. Confining reagents to thin films during immobilization reduced the amount of protein, piranha-cleaning solution, and other reagents by ∼96%. Through this technique, there was no loss of catalytic activity over 10 h processing. The results reported here combines the benefits of thin film flow processing with the mild conditions of biocatalysis.
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Affiliation(s)
- Joshua Britton
- Departments of Chemistry, Molecular Biology and Biochemistry, University of California, Irvine, California 92697-2025, USA. and Centre for NanoScale Science and Technology, School of Chemical and Physical Sciences, Flinders University, Bedford Park, Adelaide, South Australia 5001, Australia.
| | - Colin L Raston
- Centre for NanoScale Science and Technology, School of Chemical and Physical Sciences, Flinders University, Bedford Park, Adelaide, South Australia 5001, Australia.
| | - Gregory A Weiss
- Departments of Chemistry, Molecular Biology and Biochemistry, University of California, Irvine, California 92697-2025, USA.
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9
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Li RJ, Xu JH, Yin YC, Wirth N, Ren JM, Zeng BB, Yu HL. Rapid probing of the reactivity of P450 monooxygenases from the CYP116B subfamily using a substrate-based method. NEW J CHEM 2016. [DOI: 10.1039/c6nj00809g] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Four types of O-methylated substrates were designed as probes for the detection of fingerprints of Type IV P450s.
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Affiliation(s)
- Ren-Jie Li
- State Key of Laboratory of Bioreactor Engineering
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
| | - Jian-He Xu
- State Key of Laboratory of Bioreactor Engineering
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
| | - Yue-Cai Yin
- State Key of Laboratory of Bioreactor Engineering
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
| | - Nicolas Wirth
- State Key of Laboratory of Bioreactor Engineering
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
| | - Jiang-Meng Ren
- Shanghai Key Laboratory of New Drug Design
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
| | - Bu-Bing Zeng
- Shanghai Key Laboratory of New Drug Design
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
| | - Hui-Lei Yu
- State Key of Laboratory of Bioreactor Engineering
- East China University of Science and Technology
- Shanghai 200237
- P. R. China
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Roiban GD, Reetz MT. Expanding the toolbox of organic chemists: directed evolution of P450 monooxygenases as catalysts in regio- and stereoselective oxidative hydroxylation. Chem Commun (Camb) 2015; 51:2208-24. [DOI: 10.1039/c4cc09218j] [Citation(s) in RCA: 120] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Cytochrome P450 enzymes (CYPs) have been used for more than six decades as catalysts for the CH-activating oxidative hydroxylation of organic compounds with formation of added-value products.
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Affiliation(s)
| | - Manfred T. Reetz
- Department of Chemistry
- Philipps-Universität Marburg
- 35032 Marburg
- Germany
- Max-Planck-Institut für Kohlenforschung
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