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Song Z, Zhang Q, Wu W, Pu Z, Yu H. Rational design of enzyme activity and enantioselectivity. Front Bioeng Biotechnol 2023; 11:1129149. [PMID: 36761300 PMCID: PMC9902596 DOI: 10.3389/fbioe.2023.1129149] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2022] [Accepted: 01/16/2023] [Indexed: 01/25/2023] Open
Abstract
The strategy of rational design to engineer enzymes is to predict the potential mutants based on the understanding of the relationships between protein structure and function, and subsequently introduce the mutations using the site-directed mutagenesis. Rational design methods are universal, relatively fast and have the potential to be developed into algorithms that can quantitatively predict the performance of the designed sequences. Compared to the protein stability, it was more challenging to design an enzyme with improved activity or selectivity, due to the complexity of enzyme molecular structure and inadequate understanding of the relationships between enzyme structures and functions. However, with the development of computational force, advanced algorithm and a deeper understanding of enzyme catalytic mechanisms, rational design could significantly simplify the process of engineering enzyme functions and the number of studies applying rational design strategy has been increasing. Here, we reviewed the recent advances of applying the rational design strategy to engineer enzyme functions including activity and enantioselectivity. Five strategies including multiple sequence alignment, strategy based on steric hindrance, strategy based on remodeling interaction network, strategy based on dynamics modification and computational protein design are discussed and the successful cases using these strategies are introduced.
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Affiliation(s)
- Zhongdi Song
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy, Zhejiang Shuren University, Hangzhou, China
| | - Qunfeng Zhang
- Institute of Bioengineering, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, Zhejiang, China
| | - Wenhui Wu
- ZJU-Hangzhou Global Scientific and Technological Innovation Centre, Hangzhou, Zhejiang, China
| | - Zhongji Pu
- Institute of Bioengineering, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, Zhejiang, China,ZJU-Hangzhou Global Scientific and Technological Innovation Centre, Hangzhou, Zhejiang, China
| | - Haoran Yu
- Institute of Bioengineering, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, Zhejiang, China,ZJU-Hangzhou Global Scientific and Technological Innovation Centre, Hangzhou, Zhejiang, China,*Correspondence: Haoran Yu,
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2
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Hot spots-making directed evolution easier. Biotechnol Adv 2022; 56:107926. [DOI: 10.1016/j.biotechadv.2022.107926] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2021] [Revised: 01/04/2022] [Accepted: 02/07/2022] [Indexed: 01/20/2023]
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3
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Liu X, Zhao M, Fan X, Fu Y. Enhanced Production of (S)-2-arylpropionic Acids by Protein Engineering and Whole-Cell Catalysis. Front Bioeng Biotechnol 2021; 9:697677. [PMID: 34307324 PMCID: PMC8293918 DOI: 10.3389/fbioe.2021.697677] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2021] [Accepted: 06/16/2021] [Indexed: 11/29/2022] Open
Abstract
Esterases are important biocatalysts for chemical synthesis. Several bHSL family esterases have been used to prepare (S)-2-arylpropionic acids with stronger anti-inflammatory effects via kinetic resolution. Here, we presented the discovery of key residues that controlled the enantioselectivity of bHSL family esterases to ethyl 2-arylpropionates, through careful analysis of the structural information and molecular docking. A new bHSL family esterase, Est924, was identified as a promising catalyst for kinetic resolution of racemic ethyl 2-arylpropionates with slight (R)-stereopreference. Using Est924 as the starting enzyme, protein engineering was conducted at hotspots, and the substitution of A203 was proved to enhance the enantioselectivity. The stereopreference of the mutant M1 (A203W) was inverted to ethyl (S)-2-arylpropionates, and this stereopreference was further improved in variant M3 (I202F/A203W/G208F). In addition, the optimal variant, M3, was also suitable for the resolution of ibuprofen ethyl ester and ketoprofen ethyl ester, and their efficient (S)-isomers were synthesized. Next, the whole-cell catalyst harboring M3 was used to prepare (S)-ketoprofen. (S)-ketoprofen with 86%ee was produced by whole-cell catalyst with a single freeze-thaw cycle, and the cells could be reused for at least five cycles. Our results suggested that Est924 variants could kinetically resolve economically important racemates for industrial production and further offer the opportunity for the rational design of enzyme enantioselectivity. Moreover, it is an economical process to prepare optically pure (S)-ketoprofen and (S)-naproxen by using an engineered strain harboring M3 as the catalyst.
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Affiliation(s)
- Xiaolong Liu
- Hefei National Laboratory for Physical Sciences at the Microscale, CAS Key Laboratory of Urban Pollutant Conversion, Anhui Province Key Laboratory of Biomass Clean Energy, iChEM, University of Science and Technology of China, Hefei, China
| | - Meng Zhao
- School of Basic Medical Sciences, Anhui Medical University, Hefei, China
| | - Xinjiong Fan
- School of Basic Medical Sciences, Anhui Medical University, Hefei, China
| | - Yao Fu
- Hefei National Laboratory for Physical Sciences at the Microscale, CAS Key Laboratory of Urban Pollutant Conversion, Anhui Province Key Laboratory of Biomass Clean Energy, iChEM, University of Science and Technology of China, Hefei, China
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4
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An integrated overview of bacterial carboxylesterase: Structure, function and biocatalytic applications. Colloids Surf B Biointerfaces 2021; 205:111882. [PMID: 34087776 DOI: 10.1016/j.colsurfb.2021.111882] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Revised: 05/21/2021] [Accepted: 05/24/2021] [Indexed: 12/19/2022]
Abstract
Carboxylesterases (CEs) are members of prominent esterase, and as their name imply, they catalyze the cleavage of ester linkages. By far, a considerable number of novel CEs have been identified to investigate their exquisite physiological and biochemical properties. They are abundant enzymes in nature, widely distributed in relatively broad temperature range and in various sources; both macroorganisms and microorganisms. Given the importance of these enzymes in broad industries, interest in the study of their mechanisms and structural-based engineering are greatly increasing. This review presents the current state of knowledge and understanding about the structure and functions of this ester-metabolizing enzyme, primarily from bacterial sources. In addition, the potential biotechnological applications of bacterial CEs are also encompassed. This review will be useful in understanding the molecular basis and structural protein of bacterial CEs that are significant for the advancement of enzymology field in industries.
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5
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Kawabata H, Miyake R, Asada K, Dekishima Y, Miyaike M, Kato R. Asymmetric synthesis of intermediate for (1R,2S)-ethyl 1-amino-2-vinylcyclopropanecarboxylate by desymmetrization using engineered esterase from Bacillus subtilis. J Biosci Bioeng 2021; 131:599-604. [PMID: 33744099 DOI: 10.1016/j.jbiosc.2021.02.004] [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: 11/09/2020] [Revised: 02/08/2021] [Accepted: 02/14/2021] [Indexed: 01/04/2023]
Abstract
(1R,2S)-Ethyl 1-amino-2-vinylcyclopropanecarboxylate (VCPA), is a key intermediate for anti-hepatitis C virus drugs. In this study, we developed an efficient manufacturing method of intermediate for (1R,2S)-VCPA by enzymatic desymmetrization of a malonate diester derivative. In synthesis scheme of VCPA (1S,2S)-1-(ethoxycarbonyl)-2-vinylcyclopropanecarboxylic acid (VCPME) is the monoester intermediate, which is converted from 2-vinylcyclopropane-1,1-dicarboxylate diethyl ester (VCPDE). As a result of esterase screening for producing (1S,2S)-VCPME from VCPDE by enzymatic desymmetrization, p-nitrobenzyl esterase from Bacillus subtilis NBRC3027 (PNBE3027) showed high enantioselectivity (more than 90% e.e.). Based on the homology model of PNBE3027, a library of mutants with the substitution of L70, L270, L273, and L313 in substrate-binding pocket was created for improvement in enantioselectivity. (1S,2S)-VCPME produced by the best variant harboring L70D, L270Q, L273R, and L313M showed 98.9% e.e. of enanthiopurity. Furthermore, preparative scale production of (1S,2S)-VCPME using the quadruple mutant was achieved. Our investigations present a new efficient process for (1R,2S)-VCPA using esterase and diverse to be applied for the industrial scale production.
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Affiliation(s)
- Hiroshi Kawabata
- Mitsubishi Chemical Corporation, Yokohama R&D Center, 1000 Kamoshida-cho, Aoba-ku, Yokohama 227-8502, Japan; API Corporation, 13-4 Uchikanda 1-chome, Chiyoda-ku, Tokyo 101-0047, Japan
| | - Ryoma Miyake
- Mitsubishi Chemical Corporation, Yokohama R&D Center, 1000 Kamoshida-cho, Aoba-ku, Yokohama 227-8502, Japan.
| | - Kuniko Asada
- Mitsubishi Chemical Corporation, Yokohama R&D Center, 1000 Kamoshida-cho, Aoba-ku, Yokohama 227-8502, Japan
| | - Yasumasa Dekishima
- Mitsubishi Chemical Corporation, Yokohama R&D Center, 1000 Kamoshida-cho, Aoba-ku, Yokohama 227-8502, Japan
| | - Mitsuko Miyaike
- Mitsubishi Chemical Corporation, Yokohama R&D Center, 1000 Kamoshida-cho, Aoba-ku, Yokohama 227-8502, Japan
| | - Ryohei Kato
- Mitsubishi Chemical Corporation, Yokohama R&D Center, 1000 Kamoshida-cho, Aoba-ku, Yokohama 227-8502, Japan
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6
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Xiao Y, Lu Q, Yi X, Zhong G, Liu J. Synergistic Degradation of Pyrethroids by the Quorum Sensing-Regulated Carboxylesterase of Bacillus subtilis BSF01. Front Bioeng Biotechnol 2020; 8:889. [PMID: 32850741 PMCID: PMC7403188 DOI: 10.3389/fbioe.2020.00889] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Accepted: 07/10/2020] [Indexed: 12/31/2022] Open
Abstract
The well-studied quorum sensing (QS) mechanism has established a complex knowledge system of how microorganisms behave collectively in natural ecosystems, which contributes to bridging the gap between the ecological functions of microbial communities and the molecular mechanisms of cell-to-cell communication. In particular, the ability of agrochemical degradation has been one most attractive potential of functional bacteria, but the interaction and mutual effects of intracellular degradation and intraspecific behavior remained unclear. In this study, we establish a connection between QS regulation and biodegradation by harnessing the previously isolated Bacillus subtilis BSF01 as a template which degrades various pyrethroids. First, we characterize the genetic and transcriptional basis of comA-involved QS system in B. subtilis BSF01 since the ComQXPA circuit coordinates group behaviors in B. subtilis isolates. Second, the genetic and transcriptional details of pyrethroid-degrading carboxylesterase CesB are defined, and its catalytic capacity is evaluated under different conditions. More importantly, we adopt DNA pull-down and yeast one-hybrid techniques to reveal that the enzymatic degradation of pyrethroids is initiated through QS signal regulator ComA binding to carboxylesterase gene cesB, highlighting the synergistic effect of QS regulation and pyrethroid degradation in B. subtilis BSF01. Taken together, the elucidated mechanism provides novel details on the intercellular response of functional bacteria against xenobiotic exposure, which opens up possibilities to facilitate the in-situ contaminant bioremediation via combining the QS-mediated strategies.
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Affiliation(s)
- Ying Xiao
- Key Laboratory of Integrated Pest Management of Crop in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou, China.,Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou, China.,Guangdong Research Institute of Petrochemical and Fine Chemical Engineering, Guangzhou, China
| | - Qiqi Lu
- Key Laboratory of Integrated Pest Management of Crop in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou, China.,Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou, China
| | - Xin Yi
- Key Laboratory of Integrated Pest Management of Crop in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou, China.,Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou, China
| | - Guohua Zhong
- Key Laboratory of Integrated Pest Management of Crop in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou, China.,Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agricultural Science and Technology, Guangzhou, China
| | - Jie Liu
- Key Laboratory of Integrated Pest Management of Crop in South China, Ministry of Agriculture, South China Agricultural University, Guangzhou, China.,Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou, China
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7
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Xue F, Zhang LH, Xu Q. Significant improvement of the enantioselectivity of a halohydrin dehalogenase for asymmetric epoxide ring opening reactions by protein engineering. Appl Microbiol Biotechnol 2020; 104:2067-2077. [DOI: 10.1007/s00253-020-10356-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2019] [Revised: 12/15/2019] [Accepted: 01/05/2020] [Indexed: 02/03/2023]
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8
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De Vitis V, Nakhnoukh C, Pinto A, Contente ML, Barbiroli A, Milani M, Bolognesi M, Molinari F, Gourlay LJ, Romano D. A stereospecific carboxyl esterase from Bacillus coagulans hosting nonlipase activity within a lipase-like fold. FEBS J 2018; 285:903-914. [PMID: 29278448 DOI: 10.1111/febs.14368] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Revised: 11/30/2017] [Accepted: 12/20/2017] [Indexed: 11/30/2022]
Abstract
Microbial carboxylesterases are important biocatalysts that selectively hydrolyze an extensive range of esters. Here, we report the biochemical and structural characterization of an atypical carboxylesterase from Bacillus coagulans (BCE), endowed with high enantioselectivity toward different 1,2-O-isopropylideneglycerol (IPG or solketal) esters. BCE efficiently catalyzes the production of enantiopure (S)-IPG, a chiral building block for the synthesis of β-blockers, glycerophospholipids, and prostaglandins; efficient hydrolysis was observed up to 65 °C. To gain insight into the mechanistic bases of such enantioselectivity, we solved the crystal structures of BCE in apo- and glycerol-bound forms at resolutions of 1.9 and 1.8 Å, respectively. In silico docking studies on the BCE structure confirmed that IPG esters with small acyl chains (≤ C6) were easily accommodated in the active site pocket, indicating that small conformational changes are necessary to accept longer substrates. Furthermore, docking studies suggested that enantioselectivity may be due to an improved stabilization of the tetrahedral reaction intermediate for the S-enantiomer. Contrary to the above functional data implying nonlipolytic functions, BCE displays a lipase-like 3D structure that hosts a "lid" domain capping the main entrance to the active site. In lipases the lid mediates catalysis through interfacial activation, a process that we did not observe for BCE. Overall, we present the functional-structural properties of an atypical carboxyl esterase that has nonlipase-like functions, yet possesses a lipase-like 3D fold. Our data provide original enzymatic information in view of BCE applications as an inexpensive, efficient biocatalyst for the production of enantiopure (S)-IPG. DATABASE Coordinates and structure factors have been deposited in the Protein Data Bank (www.rcsb.org) under accession numbers 5O7G (apo-BCE) and 5OLU (glycerol-bound BCE).
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Affiliation(s)
- Valerio De Vitis
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, Italy
| | | | - Andrea Pinto
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, Italy
| | - Martina L Contente
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, Italy.,School of Chemistry, University of Nottingham, UK
| | - Alberto Barbiroli
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, Italy
| | - Mario Milani
- Biophysics Institute, National Research Council c/o, Department of Biosciences, Università degli Studi di Milano, Italy
| | - Martino Bolognesi
- Department of Biosciences, Università degli Studi di Milano, Italy.,Biophysics Institute, National Research Council c/o, Department of Biosciences, Università degli Studi di Milano, Italy.,Pediatric Research Center "Romeo e Enrica Invernizzi", Cryo Electron Microscopy Laboratory, University of Milano, Italy
| | - Francesco Molinari
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, Italy
| | - Louise J Gourlay
- Department of Biosciences, Università degli Studi di Milano, Italy
| | - Diego Romano
- Department of Food, Environmental and Nutritional Sciences (DeFENS), Università degli Studi di Milano, Italy
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9
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Gong YH, Ai GM, Li M, Shi XY, Diao QY, Gao XW. Functional characterization of carboxylesterase gene mutations involved in Aphis gossypii resistance to organophosphate insecticides. INSECT MOLECULAR BIOLOGY 2017; 26:702-714. [PMID: 28799241 DOI: 10.1111/imb.12331] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Carboxylesterases (CarEs) play an important role in detoxifying insecticides in insects. Over-expression and structural modification of CarEs have been implicated in the development of organophosphate (OP) insecticide resistance in insects. A previous study identified four nonsynonymous mutations (resulting in four amino acid residue substitutions) in the open reading frame of the carboxylesterase gene of resistant cotton aphids compared to the omethoate susceptible strain, which has possibly influenced the development of resistance to omethoate (a systemic OP insecticide). The current study further characterized the function of these mutations, both alone and in combination, in the hydrolysis of OP insecticides. The metabolism results suggest that the combination of four mutations, mainly existing in the laboratory-selected OP-resistant cotton aphid population, increased the OP hydrolase activity (approximately twofold) at the cost of detectable carboxylesterase activity. The functional studies of single or multiple mutations suggest the positive effect of H104R, A128V and T333P on the acquisition of OP hydrolase activity, especially the combination of H104R with A128V or T333P. K484R substitution decreased both the OP hydrolase activity and the CarE activity, indicating that this mutation primarily drives the negative effect on the acquisition of OP hydrolase activity amongst these four mutations in the resistant strain. The modelling and docking results are basically consistent with the metabolic results, which strongly suggest that the structural gene modification is the molecular basis for the OP resistance in this laboratory-selected cotton aphid strain.
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Affiliation(s)
- Y-H Gong
- Department of Entomology, China Agricultural University, Beijing, China
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - G-M Ai
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - M Li
- University of California, Riverside, CA, USA
| | - X-Y Shi
- Department of Entomology, China Agricultural University, Beijing, China
| | - Q-Y Diao
- Department of Honeybee Protection and Biosafety, Institute of Apicultural Research, Chinese Academy of Agricultural Science, Beijing, China
| | - X-W Gao
- Department of Entomology, China Agricultural University, Beijing, China
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10
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Cui C, Zhang Z, Zeng Q, Chen B. Insight into the synthesis of isosorbide diester plasticizer using immobilized lipases. RSC Adv 2016. [DOI: 10.1039/c6ra23984f] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The biosafety isosorbide dicaprylate ester plasticizer was sequential synthesized with different immobilized lipases.
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Affiliation(s)
- Caixia Cui
- National Energy R&D Center for Biorefinery
- Beijing Key Laboratory of Bioprocess
- College of Biology Science and Technology
- Beijing University of Chemical Technology
- Beijing 100029
| | - Zhe Zhang
- National Energy R&D Center for Biorefinery
- Beijing Key Laboratory of Bioprocess
- College of Biology Science and Technology
- Beijing University of Chemical Technology
- Beijing 100029
| | - Qingqian Zeng
- National Energy R&D Center for Biorefinery
- Beijing Key Laboratory of Bioprocess
- College of Biology Science and Technology
- Beijing University of Chemical Technology
- Beijing 100029
| | - Biqiang Chen
- National Energy R&D Center for Biorefinery
- Beijing Key Laboratory of Bioprocess
- College of Biology Science and Technology
- Beijing University of Chemical Technology
- Beijing 100029
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11
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Romano D, Bonomi F, de Mattos MC, de Sousa Fonseca T, de Oliveira MDCF, Molinari F. Esterases as stereoselective biocatalysts. Biotechnol Adv 2015; 33:547-65. [PMID: 25677731 DOI: 10.1016/j.biotechadv.2015.01.006] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2014] [Revised: 01/19/2015] [Accepted: 01/20/2015] [Indexed: 12/23/2022]
Abstract
Non-lypolitic esterases are carboxylester hydrolases with preference for the hydrolysis of water-soluble esters bearing short-chain acyl residues. The potential of esterases as enantioselective biocatalysts has enlarged in the last few years due to the progresses achieved in different areas, such as screening methodologies, overproduction of recombinant esterases, structural information useful for understanding the rational behind enantioselectivity, and efficient methods in protein engineering. Contributions of these complementary know-hows to the development of new robust enantioselective esterases are critically discussed in this review.
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Affiliation(s)
- Diego Romano
- Department of Food, Environmental and Nutritional Sciences (DEFENS), University of Milan, Via Mangiagalli 25, 20133 Milan, Italy
| | - Francesco Bonomi
- Department of Food, Environmental and Nutritional Sciences (DEFENS), University of Milan, Via Mangiagalli 25, 20133 Milan, Italy
| | - Marcos Carlos de Mattos
- Department of Organic and Inorganic Chemistry, Federal University of Ceará, Campus do Pici, Postal Box 6044, 60455-970 Fortaleza, Ceará, Brazil
| | - Thiago de Sousa Fonseca
- Department of Organic and Inorganic Chemistry, Federal University of Ceará, Campus do Pici, Postal Box 6044, 60455-970 Fortaleza, Ceará, Brazil
| | | | - Francesco Molinari
- Department of Food, Environmental and Nutritional Sciences (DEFENS), University of Milan, Via Mangiagalli 25, 20133 Milan, Italy
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12
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Rational design of esterase BioH with enhanced enantioselectivity towards methyl (S)-o-chloromandelate. Appl Microbiol Biotechnol 2014; 99:1709-18. [DOI: 10.1007/s00253-014-5995-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2014] [Revised: 07/24/2014] [Accepted: 07/26/2014] [Indexed: 12/01/2022]
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13
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Gu J, Liu M, Guo F, Xie W, Lu W, Ye L, Chen Z, Yuan S, Yu H. Virtual screening of mandelate racemase mutants with enhanced activity based on binding energy in the transition state. Enzyme Microb Technol 2014; 55:121-7. [DOI: 10.1016/j.enzmictec.2013.10.008] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2013] [Revised: 10/22/2013] [Accepted: 10/23/2013] [Indexed: 11/30/2022]
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14
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Rozeboom HJ, Godinho LF, Nardini M, Quax WJ, Dijkstra BW. Crystal structures of two Bacillus carboxylesterases with different enantioselectivities. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2014; 1844:567-75. [PMID: 24418394 DOI: 10.1016/j.bbapap.2014.01.003] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2013] [Revised: 01/02/2014] [Accepted: 01/05/2014] [Indexed: 01/08/2023]
Abstract
Naproxen esterase (NP) from Bacillus subtilis Thai I-8 is a carboxylesterase that catalyzes the enantioselective hydrolysis of naproxenmethylester to produce S-naproxen (E>200). It is a homolog of CesA (98% sequence identity) and CesB (64% identity), both produced by B. subtilis strain 168. CesB can be used for the enantioselective hydrolysis of 1,2-O-isopropylideneglycerol (solketal) esters (E>200 for IPG-caprylate). Crystal structures of NP and CesB, determined to a resolution of 1.75Å and 2.04Å, respectively, showed that both proteins have a canonical α/β hydrolase fold with an extra N-terminal helix stabilizing the cap subdomain. The active site in both enzymes is located in a deep hydrophobic groove and includes the catalytic triad residues Ser130, His274, and Glu245. A product analog, presumably 2-(2-hydroxyethoxy)acetic acid, was bound in the NP active site. The enzymes have different enantioselectivities, which previously were shown to result from only a few amino acid substitutions in the cap domain. Modeling of a substrate in the active site of NP allowed explaining the different enantioselectivities. In addition, Ala156 may be a determinant of enantioselectivity as well, since its side chain appears to interfere with the binding of certain R-enantiomers in the active site of NP. However, the exchange route for substrate and product between the active site and the solvent is not obvious from the structures. Flexibility of the cap domain might facilitate such exchange. Interestingly, both carboxylesterases show higher structural similarity to meta-cleavage compound (MCP) hydrolases than to other α/β hydrolase fold esterases.
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Affiliation(s)
- Henriëtte J Rozeboom
- Laboratory of Biophysical Chemistry, Centre of Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands
| | - Luis F Godinho
- Department of Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713AV Groningen, The Netherlands
| | - Marco Nardini
- Laboratory of Biophysical Chemistry, Centre of Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands
| | - Wim J Quax
- Department of Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713AV Groningen, The Netherlands
| | - Bauke W Dijkstra
- Laboratory of Biophysical Chemistry, Centre of Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands.
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15
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Zhang ZJ, Pan J, Ma BD, Xu JH. Efficient Biocatalytic Synthesis of Chiral Chemicals. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2014; 155:55-106. [DOI: 10.1007/10_2014_291] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
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