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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Ebrecht AC, Mofokeng TM, Hollmann F, Smit MS, Opperman DJ. Lactones from Unspecific Peroxygenase-Catalyzed In-Chain Hydroxylation of Saturated Fatty Acids. Org Lett 2023; 25:4990-4995. [PMID: 37389482 PMCID: PMC10353034 DOI: 10.1021/acs.orglett.3c01601] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Indexed: 07/01/2023]
Abstract
γ- and δ-lactones are valuable flavor and fragrance compounds. Their synthesis depends on the availability of suitable hydroxy fatty acid precursors. Three short unspecific peroxygenases were identified that selectively hydroxylate the C4 and C5 positions of C8-C12 fatty acids to yield after lactonization the corresponding γ- and δ-lactones. A preference for C4 over C5 hydroxylation gave γ-lactones as the major products. Overoxidation of the hydroxy fatty acids was addressed via the reduction of the resulting oxo acids using an alcohol dehydrogenase in a bienzymatic cascade reaction.
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Affiliation(s)
- Ana C. Ebrecht
- Department
of Microbiology and Biochemistry, University
of the Free State, Bloemfontein 9300, South Africa
| | - Thato M. Mofokeng
- Department
of Microbiology and Biochemistry, University
of the Free State, Bloemfontein 9300, South Africa
| | - Frank Hollmann
- Department
of Biotechnology, Delft University of Technology, Delft 2629HZ, The Netherlands
| | - Martha S. Smit
- Department
of Microbiology and Biochemistry, University
of the Free State, Bloemfontein 9300, South Africa
| | - Diederik J. Opperman
- Department
of Microbiology and Biochemistry, University
of the Free State, Bloemfontein 9300, South Africa
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3
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Cannazza P, Rabuffetti M, Donzella S, De Vitis V, Contente ML, de Oliveira MDCF, de Mattos MC, Barbosa FG, de Souza Oliveira RP, Pinto A, Molinari F, Romano D. Whole cells of recombinant CYP153A6-E. coli as biocatalyst for regioselective hydroxylation of monoterpenes. AMB Express 2022; 12:48. [PMID: 35478304 PMCID: PMC9046528 DOI: 10.1186/s13568-022-01389-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Accepted: 04/12/2022] [Indexed: 11/13/2022] Open
Abstract
Optimized recombinant whole cells of E. coli bearing CYP153A6 were employed for catalyzing the hydroxylation of different monoterpene derivatives. In most cases, high selectivity was observed with exclusive hydroxylation of the allylic methyl group bound to the aliphatic ring. In the case of (R)- and (S)-carvone, hydroxylation occurred also on the other allylic methyl group, although to a lesser extent. Biotransformations carried out in fed-batch mode on (S)-limonene and α-terpineol showed that recombinant whole cells retained activity for at least 24 h, allowing for the recovery of 3.25 mg mL−1 of (S)-perillyl alcohol and 5.45 mg mL−1 of 7-hydroxy-α-terpineol, respectively. Different monoterpenes can be regioselectively hydroxylated by CYP153A6 monooxygenase The biotransformation with whole cells is complementary to chemical oxyfunctionalization Fed-batch biotransformations have been applied for preparative purposes
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4
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Yeom SJ, Le TK, Yun CH. P450-driven plastic-degrading synthetic bacteria. Trends Biotechnol 2021; 40:166-179. [PMID: 34243985 DOI: 10.1016/j.tibtech.2021.06.003] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2021] [Revised: 06/03/2021] [Accepted: 06/04/2021] [Indexed: 11/27/2022]
Abstract
Plastic contamination currently threatens a wide variety of ecosystems and presents damaging repercussions and negative consequences for many wildlife species. Sustainable plastic waste management is an important approach to environmental protection and a necessity in the current life cycle of plastics in nature. Plastic biodegradation by microorganisms is a notable possible solution. This opinion article includes a proposal to use hypothetical P450 enzymes with an engineered active site as potent trigger biocatalysts to biodegrade polyethylene (PE) via in-chain hydroxylation into smaller products of linear aliphatic alcohols and alkanoic acids based on cascade enzymatic reactions. Furthermore, we propose the adoption of P450 into plastic-eating synthetic bacteria for PE biodegradation. This strategy can be applicable to other dense plastics, such as polypropylene (PP) and polystyrene (PS).
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Affiliation(s)
- Soo-Jin Yeom
- School of Biological Sciences and Technology, Chonnam National University, 77 Yongbong-ro, Buk-gu, Gwangju 61186, Republic of Korea.
| | - Thien-Kim Le
- School of Biological Sciences and Technology, Chonnam National University, 77 Yongbong-ro, Buk-gu, Gwangju 61186, Republic of Korea.
| | - Chul-Ho Yun
- School of Biological Sciences and Technology, Chonnam National University, 77 Yongbong-ro, Buk-gu, Gwangju 61186, Republic of Korea.
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5
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Advances in enzymatic oxyfunctionalization of aliphatic compounds. Biotechnol Adv 2021; 51:107703. [PMID: 33545329 DOI: 10.1016/j.biotechadv.2021.107703] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2020] [Revised: 01/17/2021] [Accepted: 01/25/2021] [Indexed: 12/27/2022]
Abstract
Selective oxyfunctionalizations of aliphatic compounds are difficult chemical reactions, where enzymes can play an important role due to their stereo- and regio-selectivity and operation under mild reaction conditions. P450 monooxygenases are well-known biocatalysts that mediate oxyfunctionalization reactions in different living organisms (from bacteria to humans). Unspecific peroxygenases (UPOs), discovered in fungi, have arisen as "dream biocatalysts" of great biotechnological interest because they catalyze the oxyfunctionalization of aliphatic and aromatic compounds, avoiding the necessity of expensive cofactors and regeneration systems, and only depending on H2O2 for their catalysis. Here, we summarize recent advances in aliphatic oxyfunctionalization reactions by UPOs, as well as the molecular determinants of the enzyme structures responsible for their activities, emphasizing the differences found between well-known P450s and the novel fungal peroxygenases.
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6
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Ebrecht AC, Aschenbrenner JC, Smit MS, Opperman DJ. Biocatalytic synthesis of non-vicinal aliphatic diols. Org Biomol Chem 2021; 19:439-445. [PMID: 33331366 DOI: 10.1039/d0ob02086a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Biocatalysts are receiving increased attention in the field of selective oxyfunctionalization of C-H bonds, with cytochrome P450 monooxygenases (CYP450s), and the related peroxygenases, leading the field. Here we report on the substrate promiscuity of CYP505A30, previously characterized as a fatty acid hydroxylase. In addition to its regioselective oxyfunctionalization of saturated fatty acids (ω-1 - ω-3 hydroxylation), primary fatty alcohols are also accepted with similar regioselectivities. Moreover, alkanes such as n-octane and n-decane are also readily accepted, allowing for the production of non-vicinal diols through sequential oxygenation.
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Affiliation(s)
- Ana C Ebrecht
- Department of Biotechnology, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa.
| | - Jasmin C Aschenbrenner
- Department of Biotechnology, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa. and South African DST-NRF Centre of Excellence in Catalysis, c*change, South Africa
| | - Martha S Smit
- Department of Biotechnology, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa. and South African DST-NRF Centre of Excellence in Catalysis, c*change, South Africa
| | - Diederik J Opperman
- Department of Biotechnology, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa.
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7
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Aschenbrenner JC, Ebrecht AC, Tolmie C, Smit MS, Opperman DJ. Structure of the fungal hydroxylase, CYP505A30, and rational transfer of mutation data from CYP102A1 to alter regioselectivity. Catal Sci Technol 2021. [DOI: 10.1039/d1cy01348c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Regioselective oxyfunctionalisation of n-alkanes and production of non-vicinal diols by evolved CYP505A30 through rational transfer of knowledge between protein scaffolds.
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Affiliation(s)
- Jasmin C. Aschenbrenner
- Department of Microbiology and Biochemistry, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change, University of Cape Town, South Africa
| | - Ana C. Ebrecht
- Department of Microbiology and Biochemistry, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa
| | - Carmien Tolmie
- Department of Microbiology and Biochemistry, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa
| | - Martha S. Smit
- Department of Microbiology and Biochemistry, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change, University of Cape Town, South Africa
| | - Diederik J. Opperman
- Department of Microbiology and Biochemistry, University of the Free State, 205 Nelson Mandela Drive, Bloemfontein, 9300, South Africa
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8
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Wang F, Zhao J, Li Q, Yang J, Li R, Min J, Yu X, Zheng GW, Yu HL, Zhai C, Acevedo-Rocha CG, Ma L, Li A. One-pot biocatalytic route from cycloalkanes to α,ω-dicarboxylic acids by designed Escherichia coli consortia. Nat Commun 2020; 11:5035. [PMID: 33028823 PMCID: PMC7542165 DOI: 10.1038/s41467-020-18833-7] [Citation(s) in RCA: 37] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2020] [Accepted: 09/10/2020] [Indexed: 12/25/2022] Open
Abstract
Aliphatic α,ω‐dicarboxylic acids (DCAs) are a class of useful chemicals that are currently produced by energy-intensive, multistage chemical oxidations that are hazardous to the environment. Therefore, the development of environmentally friendly, safe, neutral routes to DCAs is important. We report an in vivo artificially designed biocatalytic cascade process for biotransformation of cycloalkanes to DCAs. To reduce protein expression burden and redox constraints caused by multi-enzyme expression in a single microbe, the biocatalytic pathway is divided into three basic Escherichia coli cell modules. The modules possess either redox-neutral or redox-regeneration systems and are combined to form E. coli consortia for use in biotransformations. The designed consortia of E. coli containing the modules efficiently convert cycloalkanes or cycloalkanols to DCAs without addition of exogenous coenzymes. Thus, this developed biocatalytic process provides a promising alternative to the current industrial process for manufacturing DCAs. Aliphatic α,ω-dicarboxylic acids (DCAs) are widely used chemicals that are synthesised by multistage chemical oxidations. Here, the authors report an artificially designed biocatalytic cascade for the oxidation of cycloalkanes or cycloalkanols to DCAs in the form of microbial consortia, composed of three Escherichia coli cell modules.
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Affiliation(s)
- Fei Wang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Jing Zhao
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Qian Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Jun Yang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Renjie Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Jian Min
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Xiaojuan Yu
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Gao-Wei Zheng
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Center for Biomanufacturing, East China University of Science and Technology, 200237, Shanghai, P. R. China
| | - Hui-Lei Yu
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Center for Biomanufacturing, East China University of Science and Technology, 200237, Shanghai, P. R. China
| | - Chao Zhai
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | | | - Lixin Ma
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China
| | - Aitao Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, 430062, Wuhan, P. R. China.
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9
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Yuan B, Mahor D, Fei Q, Wever R, Alcalde M, Zhang W, Hollmann F. Water-Soluble Anthraquinone Photocatalysts Enable Methanol-Driven Enzymatic Halogenation and Hydroxylation Reactions. ACS Catal 2020; 10:8277-8284. [PMID: 32802571 PMCID: PMC7418218 DOI: 10.1021/acscatal.0c01958] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2020] [Revised: 06/30/2020] [Indexed: 02/06/2023]
Abstract
![]()
Peroxyzymes
simply use H2O2 as a cosubstrate
to oxidize a broad range of inert C–H bonds. The lability of
many peroxyzymes against H2O2 can be addressed
by a controlled supply of H2O2, ideally in situ.
Here, we report a simple, robust, and water-soluble anthraquinone
sulfonate (SAS) as a promising organophotocatalyst to drive both haloperoxidase-catalyzed
halogenation and peroxygenase-catalyzed oxyfunctionalization reactions.
Simple alcohols, methanol in particular, can be used both as a cosolvent
and an electron donor for H2O2 generation. Very
promising turnover numbers for the biocatalysts of up to 318 000
have been achieved.
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Affiliation(s)
- Bo Yuan
- School of Chemical Engineering and Technology, Xi’an Jiaotong University, Xi’an 710049, China
| | - Durga Mahor
- School of Chemical Engineering and Technology, Xi’an Jiaotong University, Xi’an 710049, China
| | - Qiang Fei
- School of Chemical Engineering and Technology, Xi’an Jiaotong University, Xi’an 710049, China
| | - Ron Wever
- Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Miguel Alcalde
- Department of Biocatalysis, Institute of Catalysis, CSIC, 28049 Madrid, Spain
| | - Wuyuan Zhang
- School of Chemical Engineering and Technology, Xi’an Jiaotong University, Xi’an 710049, China
| | - Frank Hollmann
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629HZ Delft, The Netherlands
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10
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Maseme MJ, Pennec A, Marwijk J, Opperman DJ, Smit MS. CYP505E3: A Novel Self‐Sufficient ω‐7 In‐Chain Hydroxylase. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202001055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Mpeyake Jacob Maseme
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Alizé Pennec
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Jacqueline Marwijk
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Diederik Johannes Opperman
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Martha Sophia Smit
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
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11
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Li RJ, Zhang Z, Acevedo-Rocha CG, Zhao J, Li A. Biosynthesis of organic molecules via artificial cascade reactions based on cytochrome P450 monooxygenases. GREEN SYNTHESIS AND CATALYSIS 2020. [DOI: 10.1016/j.gresc.2020.05.002] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
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12
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Maseme MJ, Pennec A, Marwijk J, Opperman DJ, Smit MS. CYP505E3: A Novel Self‐Sufficient ω‐7 In‐Chain Hydroxylase. Angew Chem Int Ed Engl 2020; 59:10359-10362. [DOI: 10.1002/anie.202001055] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Revised: 02/26/2020] [Indexed: 01/30/2023]
Affiliation(s)
- Mpeyake Jacob Maseme
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Alizé Pennec
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Jacqueline Marwijk
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Diederik Johannes Opperman
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
| | - Martha Sophia Smit
- Department of Microbial, Biochemical and Food Biotechnology University of the Free State P.O. Box 339 Bloemfontein 9300 South Africa
- South African DST-NRF Centre of Excellence in Catalysis, c*change University of Cape Town South Africa
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13
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de Almeida TP, van Schie MMCH, Ma A, Tieves F, Younes SHH, Fernández-Fueyo E, Arends IWCE, Riul A, Hollmann F. Efficient Aerobic Oxidation of trans
-2-Hexen-1-ol using the Aryl Alcohol Oxidase from Pleurotus eryngii. Adv Synth Catal 2019. [DOI: 10.1002/adsc.201801312] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- T. P. de Almeida
- Department of Biotechnology; Delft University of Technology, The; Netherlands
| | | | - A. Ma
- Department of Biotechnology; Delft University of Technology, The; Netherlands
| | - F. Tieves
- Department of Biotechnology; Delft University of Technology, The; Netherlands
| | - S. H. H. Younes
- Department of Biotechnology; Delft University of Technology, The; Netherlands
- Department of Chemistry, Faculty of Science; Sohag University; Sohag 82524 Egypt
| | - E. Fernández-Fueyo
- Department of Biotechnology; Delft University of Technology, The; Netherlands
| | | | - A. Riul
- Department of Applied Physics, “Gleb Wataghin” Institute of Physics (IFGW); University of Campinas (UNICAMP), SP; Brazil
| | - F. Hollmann
- Department of Biotechnology; Delft University of Technology, The; Netherlands
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14
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Deconstruction of the CYP153A6 Alkane Hydroxylase System: Limitations and Optimization of In Vitro Alkane Hydroxylation. Catalysts 2018. [DOI: 10.3390/catal8110531] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
Some of the most promising results for bacterial alkane hydroxylation to alcohols have been obtained with the cytochrome P450 monooxygenase CYP153A6. CYP153A6 belongs to the class I CYPs and is generally expressed from an operon that also encodes the ferredoxin (Fdx) and ferredoxin reductase (FdR) which transfer electrons to CYP153A6. In this study, purified enzymes (CYP, Fdx, FdR and dehydrogenases for cofactor regeneration) were used to deconstruct the CYP153A6 system into its separate components, to investigate the factors limiting octane hydroxylation in vitro. Proteins in the cytoplasm (cell-free extract) were found to better enhance and stabilize hydroxylase activity compared to bovine serum albumin (BSA) and catalase. Optimization of the CYP:Fdx:FdR ratio also significantly improved both turnover frequencies (TFs) and total turnover numbers (TTNs) with the ratio of 1:1:60 giving the highest values of 3872 h−1 and 45,828 moloctanol molCYP−1, respectively. Choice and concentration of dehydrogenase for cofactor regeneration also significantly influenced the reaction. Glucose dehydrogenase concentrations had to be as low as possible to avoid fast acidification of the reaction medium, which in the extreme caused precipitation of the CYP and other proteins. Cofactor regeneration based on glycerol failed, likely due to accumulation of dihydroxyacetone. Scaling the reactions up from 1 mL in vials to 60 mL in shake flasks and 120 mL in bioreactors showed that mixing and shear forces will be important obstacles to overcome in preparative scale reactions.
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15
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Martínez-Montero L, Schrittwieser JH, Kroutil W. Regioselective Biocatalytic Transformations Employing Transaminases and Tyrosine Phenol Lyases. Top Catal 2018. [DOI: 10.1007/s11244-018-1054-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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16
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Brosnan RJ, Pham TL. Anesthetic-sensitive ion channel modulation is associated with a molar water solubility cut-off. BMC Pharmacol Toxicol 2018; 19:57. [PMID: 30217234 PMCID: PMC6137927 DOI: 10.1186/s40360-018-0244-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2018] [Accepted: 08/22/2018] [Indexed: 12/31/2022] Open
Abstract
Background NMDA receptor modulation by hydrocarbons is associated with a molar water solubility cut-off. Low-affinity phenolic modulation of GABAA receptors is also associated with a cut-off, but at much lower molar solubility values. We hypothesized that other anesthetic-sensitive ion channels exhibit distinct cut-off effects associated with hydrocarbon molar water solubility, and that cut-off values are comparatively similar between related receptors than phylogenetically distant ones. Methods Glycine or GABAA receptors or TREK-1, TRESK, Nav1.2, or Nav1.4 channels were expressed separately in frog oocytes. Two electrode voltage clamp techniques were used to study current responses in the presence and absence of hydrocarbon series from eight functional groups with progressively increasing size at saturated aqueous concentrations. Null response (cut-off) was defined by current measurements that were statistically indistinguishable between baseline and hydrocarbon exposure. Results Ion channels exhibited cut-off effects associated with hydrocarbon molar water solubility in the following order of decreasing solubility: Nav1.2 ≈ Nav1.4 ≳ TRESK ≈ TREK-1 > GABAA >> glycine. Previously measured solubility cut-off values for NMDA receptors were intermediate between those for Nav1.4 and TRESK. Conclusions Water solubility cut-off responses were present for all anesthetic-sensitive ion channels; distinct cut-off effects may exist for all cell surface receptors that are sensitive to volatile anesthetics. Suggested is the presence of amphipathic receptor sites normally occupied by water molecules that have dissociation constants inversely related to the cut-off solubility value. Poorly soluble hydrocarbons unable to reach concentrations sufficient to out-compete water for binding site access fail to modulate the receptor.
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Affiliation(s)
- Robert J Brosnan
- Department of Surgical and Radiological Sciences, School of Veterinary Medicine, University of California, One Shields Avenue, Davis, CA, 95616, USA.
| | - Trung L Pham
- Department of Surgical and Radiological Sciences, School of Veterinary Medicine, University of California, One Shields Avenue, Davis, CA, 95616, USA
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17
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Dong J, Fernández‐Fueyo E, Hollmann F, Paul CE, Pesic M, Schmidt S, Wang Y, Younes S, Zhang W. Biocatalytic Oxidation Reactions: A Chemist's Perspective. Angew Chem Int Ed Engl 2018; 57:9238-9261. [PMID: 29573076 PMCID: PMC6099261 DOI: 10.1002/anie.201800343] [Citation(s) in RCA: 276] [Impact Index Per Article: 46.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2018] [Indexed: 01/25/2023]
Abstract
Oxidation chemistry using enzymes is approaching maturity and practical applicability in organic synthesis. Oxidoreductases (enzymes catalysing redox reactions) enable chemists to perform highly selective and efficient transformations ranging from simple alcohol oxidations to stereoselective halogenations of non-activated C-H bonds. For many of these reactions, no "classical" chemical counterpart is known. Hence oxidoreductases open up shorter synthesis routes based on a more direct access to the target products. The generally very mild reaction conditions may also reduce the environmental impact of biocatalytic reactions compared to classical counterparts. In this Review, we critically summarise the most important recent developments in the field of biocatalytic oxidation chemistry and identify the most pressing bottlenecks as well as promising solutions.
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Affiliation(s)
- JiaJia Dong
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Elena Fernández‐Fueyo
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Frank Hollmann
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Caroline E. Paul
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Milja Pesic
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Sandy Schmidt
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Yonghua Wang
- School of Food Science and EngineeringSouth China University of TechnologyGuangzhou510640P. R. China
| | - Sabry Younes
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
| | - Wuyuan Zhang
- Department of BiotechnologyDelft University of Technologyvan der Maasweg 92629HZDelftThe Netherlands
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18
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Dong J, Fernández-Fueyo E, Hollmann F, Paul CE, Pesic M, Schmidt S, Wang Y, Younes S, Zhang W. Biokatalytische Oxidationsreaktionen - aus der Sicht eines Chemikers. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201800343] [Citation(s) in RCA: 84] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- JiaJia Dong
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Elena Fernández-Fueyo
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Frank Hollmann
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Caroline E. Paul
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Milja Pesic
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Sandy Schmidt
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Yonghua Wang
- School of Food Science and Engineering; South China University of Technology; Guangzhou 510640 P. R. China
| | - Sabry Younes
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
| | - Wuyuan Zhang
- Department of Biotechnology; Delft University of Technology; van der Maasweg 9 2629HZ Delft Niederlande
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19
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Porter JL, Sabatini S, Manning J, Tavanti M, Galman JL, Turner NJ, Flitsch SL. Cloning, expression and characterisation of P450-Hal1 (CYP116B62) from Halomonas sp. NCIMB 172: A self-sufficient P450 with high expression and diverse substrate scope. Enzyme Microb Technol 2018; 113:1-8. [PMID: 29602381 DOI: 10.1016/j.enzmictec.2018.02.005] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Revised: 01/29/2018] [Accepted: 02/12/2018] [Indexed: 10/18/2022]
Abstract
Cytochrome P450 monooxygenases are able to catalyse a range of synthetically challenging reactions ranging from hydroxylation and demethylation to sulfoxidation and epoxidation. As such they have great potential for biocatalytic applications but are underutilised due to often-poor expression, stability and solubility in recombinant bacterial hosts. The use of self-sufficient P450 s with fused haem and reductase domains has already contributed heavily to improving catalytic efficiency and simplifying an otherwise more complex multi-component system of P450 and redox partners. Herein, we present a new addition to the class VII family with the cloning, sequencing and characterisation of the self-sufficient CYP116B62 Hal1 from Halomonas sp. NCIMB 172, the genome of which has not yet been sequenced. Hal1 exhibits high levels of expression in a recombinant E. coli host and can be utilised from cell lysate or used in purified form. Hal1 favours NADPH as electron donor and displays a diverse range of activities including hydroxylation, demethylation and sulfoxidation. These properties make Hal1 suitable for future biocatalytic applications or as a template for optimisation through engineering.
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Affiliation(s)
- Joanne L Porter
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK
| | - Selina Sabatini
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK
| | - Jack Manning
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK
| | - Michele Tavanti
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK
| | - James L Galman
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK
| | - Nicholas J Turner
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK
| | - Sabine L Flitsch
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, UK.
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20
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Polakovič M, Švitel J, Bučko M, Filip J, Neděla V, Ansorge-Schumacher MB, Gemeiner P. Progress in biocatalysis with immobilized viable whole cells: systems development, reaction engineering and applications. Biotechnol Lett 2017; 39:667-683. [PMID: 28181062 DOI: 10.1007/s10529-017-2300-y] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2016] [Accepted: 02/01/2017] [Indexed: 11/28/2022]
Abstract
Viable microbial cells are important biocatalysts in the production of fine chemicals and biofuels, in environmental applications and also in emerging applications such as biosensors or medicine. Their increasing significance is driven mainly by the intensive development of high performance recombinant strains supplying multienzyme cascade reaction pathways, and by advances in preservation of the native state and stability of whole-cell biocatalysts throughout their application. In many cases, the stability and performance of whole-cell biocatalysts can be highly improved by controlled immobilization techniques. This review summarizes the current progress in the development of immobilized whole-cell biocatalysts, the immobilization methods as well as in the bioreaction engineering aspects and economical aspects of their biocatalytic applications.
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Affiliation(s)
- Milan Polakovič
- Institute of Chemical and Environmental Engineering, Faculty of Chemical and Food Technology, Slovak Technical University, Bratislava, Slovakia
| | - Juraj Švitel
- Institute of Chemical and Environmental Engineering, Faculty of Chemical and Food Technology, Slovak Technical University, Bratislava, Slovakia
| | - Marek Bučko
- Department of Glycobiotechnology, Institute of Chemistry, Slovak Academy of Sciences, Bratislava, Slovakia
| | - Jaroslav Filip
- Center for Advanced Materials, Qatar University, Doha, Qatar
| | - Vilém Neděla
- Institute of Scientific Instruments, Academy of Sciences Czech Republic, Brno, Czech Republic
| | | | - Peter Gemeiner
- Department of Glycobiotechnology, Institute of Chemistry, Slovak Academy of Sciences, Bratislava, Slovakia.
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21
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Tavanti M, Mangas-Sanchez J, Montgomery SL, Thompson MP, Turner NJ. A biocatalytic cascade for the amination of unfunctionalised cycloalkanes. Org Biomol Chem 2017; 15:9790-9793. [DOI: 10.1039/c7ob02569f] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Here we describe a one-pot, three-enzyme, cascade involving a cytochrome P450 monooxygenase, an alcohol dehydrogenase and a reductive aminase for the synthesis of secondary amines from cycloalkanes.
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Affiliation(s)
- Michele Tavanti
- School of Chemistry
- University of Manchester
- Manchester Institute of Biotechnology
- Manchester M1 7DN
- UK
| | - Juan Mangas-Sanchez
- School of Chemistry
- University of Manchester
- Manchester Institute of Biotechnology
- Manchester M1 7DN
- UK
| | - Sarah L. Montgomery
- School of Chemistry
- University of Manchester
- Manchester Institute of Biotechnology
- Manchester M1 7DN
- UK
| | - Matthew P. Thompson
- School of Chemistry
- University of Manchester
- Manchester Institute of Biotechnology
- Manchester M1 7DN
- UK
| | - Nicholas J. Turner
- School of Chemistry
- University of Manchester
- Manchester Institute of Biotechnology
- Manchester M1 7DN
- UK
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22
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3'-UTR engineering to improve soluble expression and fine-tuning of activity of cascade enzymes in Escherichia coli. Sci Rep 2016; 6:29406. [PMID: 27406241 PMCID: PMC4942690 DOI: 10.1038/srep29406] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2016] [Accepted: 06/20/2016] [Indexed: 02/06/2023] Open
Abstract
3′-Untranslated region (3′UTR) engineering was investigated to improve solubility of heterologous proteins (e.g., Baeyer-Villiger monooxygenases (BVMOs)) in Escherichia coli. Insertion of gene fragments containing putative RNase E recognition sites into the 3′UTR of the BVMO genes led to the reduction of mRNA levels in E. coli. Importantly, the amounts of soluble BVMOs were remarkably enhanced resulting in a proportional increase of in vivo catalytic activities. Notably, this increase in biocatalytic activity correlated to the number of putative RNase E endonucleolytic cleavage sites in the 3′UTR. For instance, the biotransformation activity of the BVMO BmoF1 (from Pseudomonas fluorescens DSM50106) in E. coli was linear to the number of RNase E cleavage sites in the 3′UTR. In summary, 3′UTR engineering can be used to improve the soluble expression of heterologous enzymes, thereby fine-tuning the enzyme activity in microbial cells.
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23
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Baeyer-Villiger oxidations: biotechnological approach. Appl Microbiol Biotechnol 2016; 100:6585-6599. [DOI: 10.1007/s00253-016-7670-x] [Citation(s) in RCA: 72] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2016] [Revised: 06/02/2016] [Accepted: 06/07/2016] [Indexed: 10/21/2022]
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24
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Tieves F, Erenburg IN, Mahmoud O, Urlacher VB. Synthesis of chiral 2-alkanols fromn-alkanes by aP. putidawhole-cell biocatalyst. Biotechnol Bioeng 2016; 113:1845-52. [DOI: 10.1002/bit.25953] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2015] [Accepted: 02/08/2016] [Indexed: 11/11/2022]
Affiliation(s)
- Florian Tieves
- Institute of Biochemistry; Heinrich-Heine University Düsseldorf; 40225 Düsseldorf Germany
| | - Isabelle N. Erenburg
- Institute of Biochemistry; Heinrich-Heine University Düsseldorf; 40225 Düsseldorf Germany
| | - Osama Mahmoud
- Institute of Biochemistry; Heinrich-Heine University Düsseldorf; 40225 Düsseldorf Germany
| | - Vlada B. Urlacher
- Institute of Biochemistry; Heinrich-Heine University Düsseldorf; 40225 Düsseldorf Germany
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25
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Karande R, Debor L, Salamanca D, Bogdahn F, Engesser KH, Buehler K, Schmid A. Continuous cyclohexane oxidation to cyclohexanol using a novel cytochrome P450 monooxygenase from Acidovorax sp. CHX100 in recombinant P. taiwanensis VLB120 biofilms. Biotechnol Bioeng 2015; 113:52-61. [PMID: 26153144 DOI: 10.1002/bit.25696] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2015] [Revised: 06/23/2015] [Accepted: 06/29/2015] [Indexed: 11/06/2022]
Abstract
The applications of biocatalysts in chemical industries are characterized by activity, selectivity, and stability. One key strategy to achieve high biocatalytic activity is the identification of novel enzymes with kinetics optimized for organic synthesis by Nature. The isolation of novel cytochrome P450 monooxygenase genes from Acidovorax sp. CHX100 and their functional expression in recombinant Pseudomonas taiwanensis VLB120 enabled efficient oxidation of cyclohexane to cyclohexanol. Although initial resting cell activities of 20 U gCDW (-1) were achieved, the rapid decrease in catalytic activity due to the toxicity of cyclohexane prevented synthetic applications. Cyclohexane toxicity was reduced and cellular activities stabilized over the reaction time by delivering the toxic substrate through the vapor phase and by balancing the aqueous phase mass transfer with the cellular conversion rate. The potential of this novel CYP enzyme was exploited by transferring the shake flask reaction to an aqueous-air segmented flow biofilm membrane reactor for maximizing productivity. Cyclohexane was continuously delivered via the silicone membrane. This ensured lower reactant toxicity and continuous product formation at an average volumetric productivity of 0.4 g L tube (-1) h(-1) for several days. This highlights the potential of combining a powerful catalyst with a beneficial reactor design to overcome critical issues of cyclohexane oxidation to cyclohexanol. It opens new opportunities for biocatalytic transformations of compounds which are toxic, volatile, and have low solubility in water.
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Affiliation(s)
- Rohan Karande
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany
| | - Linde Debor
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany
| | - Diego Salamanca
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany
| | - Fabian Bogdahn
- Department of Biochemical and Chemical Engineering, Laboratory of Chemical Biotechnology, TU Dortmund University, Emil-Figge-Strasse 66, 44227, Dortmund, Germany
| | - Karl-Heinrich Engesser
- Department of Biological Waste Air Purification, Institute of Sanitary Engineering, Water Quality and Solid Waste Management, University of Stuttgart, Stuttgart, Germany
| | - Katja Buehler
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany. .,Department of Biochemical and Chemical Engineering, Laboratory of Chemical Biotechnology, TU Dortmund University, Emil-Figge-Strasse 66, 44227, Dortmund, Germany.
| | - Andreas Schmid
- Department of Solar Materials, Helmholtz-Centre for Environmental Research - UFZ GmbH, Permoserstrasse 15, 04318, Leipzig, Germany
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