1
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Schemenauer D, Pool EH, Raynor SN, Ruiz GP, Goehring LM, Koelper AJ, Wilson MA, Durand AJ, Kourtoglou EC, Larsen EM, Lavis LD, Esteb JJ, Hoops GC, Johnson RJ. Sequence and Structural Motifs Controlling the Broad Substrate Specificity of the Mycobacterial Hormone-Sensitive Lipase LipN. ACS OMEGA 2023; 8:13252-13264. [PMID: 37065048 PMCID: PMC10099132 DOI: 10.1021/acsomega.3c00534] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/26/2023] [Accepted: 03/24/2023] [Indexed: 06/19/2023]
Abstract
Mycobacterium tuberculosis has a complex life cycle transitioning between active and dormant growth states depending on environmental conditions. LipN (Rv2970c) is a conserved mycobacterial serine hydrolase with regulated catalytic activity at the interface between active and dormant growth conditions. LipN also catalyzes the xenobiotic degradation of a tertiary ester substrate and contains multiple conserved motifs connected with the ability to catalyze the hydrolysis of difficult tertiary ester substrates. Herein, we expanded a library of fluorogenic ester substrates to include more tertiary and constrained esters and screened 33 fluorogenic substrates for activation by LipN, identifying its unique substrate signature. LipN preferred short, unbranched ester substrates, but had its second highest activity against a heteroaromatic five-membered oxazole ester. Oxazole esters are present in multiple mycobacterial serine hydrolase inhibitors but have not been tested widely as ester substrates. Combined structural modeling, kinetic measurements, and substitutional analysis of LipN showcased a fairly rigid binding pocket preorganized for catalysis of short ester substrates. Substitution of diverse amino acids across the binding pocket significantly impacted the folded stability and catalytic activity of LipN with two conserved motifs (HGGGW and GDSAG) playing interconnected, multidimensional roles in regulating its substrate specificity. Together this detailed substrate specificity profile of LipN illustrates the complex interplay between structure and function in mycobacterial hormone-sensitive lipase homologues and indicates oxazole esters as promising inhibitor and substrate scaffolds for mycobacterial hydrolases.
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Affiliation(s)
- Daniel
E. Schemenauer
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Emily H. Pool
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Stephanie N. Raynor
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Gabriela P. Ruiz
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Leah M. Goehring
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Andrew J. Koelper
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Madeleine A. Wilson
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Anthony J. Durand
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Elexi C. Kourtoglou
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Erik M. Larsen
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Luke D. Lavis
- Howard
Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia 20147, United States
| | - John J. Esteb
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - Geoffrey C. Hoops
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
| | - R. Jeremy Johnson
- Department
of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana 46208, United States
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2
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Do H, Yoo W, Wang Y, Nam Y, Shin SC, Kim HW, Kim KK, Lee JH. Crystal structure and biochemical analysis of acetylesterase (LgEstI) from Lactococcus garvieae. PLoS One 2023; 18:e0280988. [PMID: 36745644 PMCID: PMC9901739 DOI: 10.1371/journal.pone.0280988] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Accepted: 01/12/2023] [Indexed: 02/07/2023] Open
Abstract
Esterase, a member of the serine hydrolase family, catalyzes the cleavage and formation of ester bonds with high regio- and stereospecificity, making them attractive biocatalysts for the synthesis of optically pure molecules. In this study, we performed an in-depth biochemical and structural characterization of a novel microbial acetylesterase, LgEstI, from the bacterial fish pathogen Lactococcus garvieae. The dimeric LgEstI displayed substrate preference for the short acyl chain of p-nitrophenyl esters and exhibited increased activity with F207A mutation. Comparative analysis with other esterases indicated that LgEstI has a narrow and shallow active site that may exhibit substrate specificity to short acyl chains. Unlike other esterases, LgEstI contains bulky residues such as Trp89, Phe194, and Trp217, which block the acyl chain channel. Furthermore, immobilized LgEstI retained approximately 90% of its initial activity, indicating its potential in industrial applications. This study expands our understanding of LgEstI and proposes novel ideas for improving its catalytic efficiency and substrate specificity for various applications.
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Affiliation(s)
- Hackwon Do
- Research Unit of Cryogenic Novel Material, Korea Polar Research Institute, Incheon, Korea
- Department of Polar Sciences, University of Science and Technology, Incheon, Korea
| | - Wanki Yoo
- Department of Precision Medicine, Graduate School of Basic Medical Science (GSBMS), Sungkyunkwan University School of Medicine, Suwon, Korea
| | - Ying Wang
- Department of Chemistry, Graduate School of General Studies, Sookmyung Women’s University, Seoul, Korea
| | - Yewon Nam
- Research Unit of Cryogenic Novel Material, Korea Polar Research Institute, Incheon, Korea
| | - Seung Chul Shin
- Division of Life Sciences, Korea Polar Research Institute, Incheon, Korea
| | - Han-Woo Kim
- Research Unit of Cryogenic Novel Material, Korea Polar Research Institute, Incheon, Korea
- Department of Polar Sciences, University of Science and Technology, Incheon, Korea
| | - Kyeong Kyu Kim
- Department of Precision Medicine, Graduate School of Basic Medical Science (GSBMS), Sungkyunkwan University School of Medicine, Suwon, Korea
| | - Jun Hyuck Lee
- Research Unit of Cryogenic Novel Material, Korea Polar Research Institute, Incheon, Korea
- Department of Polar Sciences, University of Science and Technology, Incheon, Korea
- * E-mail:
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3
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Hou Q, Li N, Chao Y, Li S, Zhang L. Design and regulation of the surface and interfacial behavior of protein molecules. Chin J Chem Eng 2020. [DOI: 10.1016/j.cjche.2020.05.035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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4
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Kodama K, Yi M, Shitara H, Hirose T. Chirality switching in the enantioseparation of 2-hydroxy-4-phenylbutyric acid: Role of solvents in selective crystallization of the diastereomeric salt. Tetrahedron Lett 2020. [DOI: 10.1016/j.tetlet.2020.151773] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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5
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Li Q, Chen Y, Bai S, Shao X, Jiang L, Li Q. Immobilized lipase in bio-based metal-organic frameworks constructed by biomimetic mineralization: A sustainable biocatalyst for biodiesel synthesis. Colloids Surf B Biointerfaces 2020; 188:110812. [DOI: 10.1016/j.colsurfb.2020.110812] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2019] [Revised: 01/17/2020] [Accepted: 01/18/2020] [Indexed: 12/22/2022]
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6
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Heterologous overexpression of a novel halohydrin dehalogenase from Pseudomonas pohangensis and modification of its enantioselectivity by semi-rational protein engineering. Int J Biol Macromol 2020; 146:80-88. [DOI: 10.1016/j.ijbiomac.2019.12.203] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2019] [Revised: 11/06/2019] [Accepted: 12/22/2019] [Indexed: 02/08/2023]
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7
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Yuan X, Kang S, Zhang P, Xu W, Tang K. Experiment and simulation on kinetic resolution of (
R,S
)‐2‐chloromandelic acid by enzymatic transesterification. Biotechnol Prog 2019; 35:e2815. [DOI: 10.1002/btpr.2815] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2018] [Revised: 03/17/2019] [Accepted: 03/23/2019] [Indexed: 11/11/2022]
Affiliation(s)
- Xin Yuan
- Department of Chemistry and Chemical EngineeringHunan Institute of Science and Technology Yueyang Hunan China
| | - Shuangjian Kang
- Department of Chemistry and Chemical EngineeringHunan Institute of Science and Technology Yueyang Hunan China
| | - Panliang Zhang
- Department of Chemistry and Chemical EngineeringHunan Institute of Science and Technology Yueyang Hunan China
| | - Weifeng Xu
- Department of Chemistry and Chemical EngineeringHunan Institute of Science and Technology Yueyang Hunan China
| | - Kewen Tang
- Department of Chemistry and Chemical EngineeringHunan Institute of Science and Technology Yueyang Hunan China
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8
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Cao J, Wang M, Chen W, She Y, Wang J, Wang F, Lao S. Artificial Esterase Based on Self-assembly Gel Microspheres Constructed from Chitosan and Amino Acids. Chem Res Chin Univ 2019. [DOI: 10.1007/s40242-019-8283-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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9
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Rational design to improve activity of the Est3563 esterase from Acinetobacter sp. LMB-5. Enzyme Microb Technol 2019; 131:109331. [PMID: 31615665 DOI: 10.1016/j.enzmictec.2019.04.005] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2018] [Revised: 04/03/2019] [Accepted: 04/04/2019] [Indexed: 12/15/2022]
Abstract
Acinetobacter sp. strain LMB-5 can produce a kind of esterase degrading phthalate esters. However, low activity of Est3563 esterase limited its large-scale application. In this study, computer-aided simulation mutagenesis was used to improve the esterase activity with a tightened screening library and enlarged success rate. Two positive mutants, P218R and A242R, were obtained with 2.5 and 2.1 folds higher than the WT Est3563 esterase, with 11.96 ± 0.45 U·mg-1 and 9.90 ± 0.52 U·mg-1, respectively. With the help of bioinformatics analysis and three-dimensional printing technology, it was found that the mutations could increase the 240-280 residues swing distance and make them deviate from the catalytic pocket. The instability and deviation of these residues on the lid-like structure of the esterase could deteriorate the seal of the binding pocket and expose the active site. Thus, the catalytic efficiency of the mutants became higher. This result demonstrates that the instability and deviation of the lid-like structure could expand the binding pocket of the esterase and enhance the esterase activity.
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10
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Ishani M, Dekamin MG, Alirezvani Z. Superparamagnetic silica core-shell hybrid attached to graphene oxide as a promising recoverable catalyst for expeditious synthesis of TMS-protected cyanohydrins. J Colloid Interface Sci 2018; 521:232-241. [DOI: 10.1016/j.jcis.2018.02.060] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Revised: 02/16/2018] [Accepted: 02/19/2018] [Indexed: 10/18/2022]
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11
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Highly Efficient Deracemization of Racemic 2-Hydroxy Acids in a Three-Enzyme Co-Expression System Using a Novel Ketoacid Reductase. Appl Biochem Biotechnol 2018; 186:563-575. [PMID: 29675666 DOI: 10.1007/s12010-018-2760-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Accepted: 04/10/2018] [Indexed: 12/26/2022]
Abstract
Enantiopure 2-hydroxy acids (2-HAs) are important intermediates for the synthesis of pharmaceuticals and fine chemicals. Deracemization of racemic 2-HAs into the corresponding single enantiomers represents an economical and highly efficient approach for synthesizing chiral 2-HAs in industry. In this work, a novel ketoacid reductase from Leuconostoc lactis (LlKAR) with higher activity and substrate tolerance towards aromatic α-ketoacids was discovered by genome mining, and then its enzymatic properties were characterized. Accordingly, an engineered Escherichia coli (HADH-LlKAR-GDH) co-expressing 2-hydroxyacid dehydrogenase, LlKAR, and glucose dehydrogenase was constructed for efficient deracemization of racemic 2-HAs. Most of the racemic 2-HAs were deracemized to their (R)-isomers at high yields and enantiomeric purity. In the case of racemic 2-chloromandelic acid, as much as 300 mM of substrate was completely transformed into the optically pure (R)-2-chloromandelic acid (> 99% enantiomeric excess) with a high productivity of 83.8 g L-1 day-1 without addition of exogenous cofactor, which make this novel whole-cell biocatalyst more promising and competitive in practical application.
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12
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Gao H, Li C, Bandikari R, Liu Z, Hu N, Yong Q. A novel cold-adapted esterase from Enterobacter cloacae: Characterization and improvement of its activity and thermostability via the site of Tyr193Cys. Microb Cell Fact 2018; 17:45. [PMID: 29554914 PMCID: PMC5858142 DOI: 10.1186/s12934-018-0885-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2017] [Accepted: 02/26/2018] [Indexed: 11/10/2022] Open
Abstract
Background In industries lipolytic reactions occur in insensitive conditions such as high temperature thus novel stout esterases with unique properties are attracts to the industrial application. Protein engineering is the tool to obtain desirable characters of enzymes. A novel esterase gene was isolated from South China Sea and subjected to a random mutagenesis and site directed mutagenesis for higher activity and thermo-stability compared to wild type. Results A novel esterase showed the highest hydrolytic activity against p-nitrophenyl acetate (pNPA, C2) and the optimal activity at 40 °C and pH 8.5. It was a cold-adapted enzyme and retained approximately 40% of its maximum activity at 0 °C. A mutant, with higher activity and thermo-stability was obtained by random mutagenesis. Kinetic analysis indicated that the mutant Val29Ala/Tyr193Cys shown 43.5% decrease in Km, 2.6-fold increase in Kcat, and 4.7-fold increase in Kcat/Km relative to the wild type. Single mutants V29A and Y193C were constructed and their kinetic parameters were measured. The results showed that the values of Km, Kcat, and Kcat/Km of V29A were similar to those of the wild type while Y193C showed 52.7% decrease in Km, 2.7-fold increase in Kcat, and 5.6-fold increase in Kcat/Km compared with the wild type. The 3-D structure and docking analysis revealed that the replacement of Tyr by Cys could enlarge the binding pocket. Moreover Y193C also showed a better thermo-stability for the reason its higher hydrophobicity and retained 67% relative activity after incubation for 3 h at 50 °C. Conclusions The superior quality of modified esterase suggested it has great potential application in extreme conditions and the mutational work recommended that important information for the study of esterase structure and function. Electronic supplementary material The online version of this article (10.1186/s12934-018-0885-z) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Haofeng Gao
- College of Light Industry Science and Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing, 210018, China.,College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, 30 Puzhu South Road, Nanjing, 211800, China
| | - Chanjuan Li
- College of Life Science and Technology, State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Ramesh Bandikari
- College of Life Science and Technology, State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Ziduo Liu
- College of Life Science and Technology, State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Nan Hu
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, 30 Puzhu South Road, Nanjing, 211800, China.
| | - Qiang Yong
- College of Light Industry Science and Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing, 210018, China.
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13
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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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14
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A novel, versatile family IV carboxylesterase exhibits high stability and activity in a broad pH spectrum. Biotechnol Lett 2017; 39:577-587. [DOI: 10.1007/s10529-016-2282-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2016] [Accepted: 12/21/2016] [Indexed: 10/20/2022]
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15
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McKary MG, Abendroth J, Edwards TE, Johnson RJ. Structural Basis for the Strict Substrate Selectivity of the Mycobacterial Hydrolase LipW. Biochemistry 2016; 55:7099-7111. [PMID: 27936614 DOI: 10.1021/acs.biochem.6b01057] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The complex life cycle of Mycobacterium tuberculosis requires diverse energy mobilization and utilization strategies facilitated by a battery of lipid metabolism enzymes. Among lipid metabolism enzymes, the Lip family of mycobacterial serine hydrolases is essential to lipid scavenging, metabolic cycles, and reactivation from dormancy. On the basis of the homologous rescue strategy for mycobacterial drug targets, we have characterized the three-dimensional structure of full length LipW from Mycobacterium marinum, the first structure of a catalytically active Lip family member. LipW contains a deep, expansive substrate-binding pocket with only a narrow, restrictive active site, suggesting tight substrate selectivity for short, unbranched esters. Structural alignment reinforced this strict substrate selectivity of LipW, as the binding pocket of LipW aligned most closely with the bacterial acyl esterase superfamily. Detailed kinetic analysis of two different LipW homologues confirmed this strict substrate selectivity, as each homologue selected for unbranched propionyl ester substrates, irrespective of the alcohol portion of the ester. Using comprehensive substitutional analysis across the binding pocket, the strict substrate selectivity of LipW for propionyl esters was assigned to a narrow funnel in the acyl-binding pocket capped by a key hydrophobic valine residue. The polar, negatively charged alcohol-binding pocket also contributed to substrate orientation and stabilization of rotameric states in the catalytic serine. Together, the structural, enzymatic, and substitutional analyses of LipW provide a connection between the structure and metabolic properties of a Lip family hydrolase that refines its biological function in active and dormant tuberculosis infection.
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Affiliation(s)
- Magy G McKary
- Department of Chemistry, Butler University , 4600 Sunset Avenue, Indianapolis, Indiana 46208, United States
| | - Jan Abendroth
- Beryllium Discovery Corporation, Seattle Structural Genomics Center for Infectious Disease (SSGCID) , 7869 Northeast Day Road West, Bainbridge Island, Washington 98110, United States
| | - Thomas E Edwards
- Beryllium Discovery Corporation, Seattle Structural Genomics Center for Infectious Disease (SSGCID) , 7869 Northeast Day Road West, Bainbridge Island, Washington 98110, United States
| | - R Jeremy Johnson
- Department of Chemistry, Butler University , 4600 Sunset Avenue, Indianapolis, Indiana 46208, United States
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16
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Hong DK, Jang SH, Lee C. Gene cloning and characterization of a psychrophilic phthalate esterase with organic solvent tolerance from an Arctic bacterium Sphingomonas glacialis PAMC 26605. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.molcatb.2017.02.004] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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17
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He H, Han H, Shi H, Tian Y, Sun F, Song Y, Li Q, Zhu G. Construction of Thermophilic Lipase-Embedded Metal-Organic Frameworks via Biomimetic Mineralization: A Biocatalyst for Ester Hydrolysis and Kinetic Resolution. ACS APPLIED MATERIALS & INTERFACES 2016; 8:24517-24. [PMID: 27580160 DOI: 10.1021/acsami.6b05538] [Citation(s) in RCA: 151] [Impact Index Per Article: 18.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Enhancing the activity and stability of enzymes and improving their reusability are critical challenges in the field of enzyme immobilization. Here we report a facile and efficient biomimetic mineralization to embed thermophilic lipase QLM in zeolite imidazolate framework-8 (ZIF-8). Systematic characterization indicated that the entrapment of lipase molecules was successfully achieved during the crystal growth of ZIF-8 with an enzyme loading of ∼72.2 ± 1.88 mg/g lipase@ZIF-8, and the enzymes could facilitate the construction of framework building blocks. Then the composite lipase@ZIF-8 was observed to possess favorable catalytic activity and stability in the ester hydrolysis, using the hydrolysis of p-nitrophenyl caprylate as a model. Finally, the composite was successfully applied in the kinetic resolution of (R,S)-2-octanol, with favorable catalytic activity and enantioselectivity during 10 cycle reactions. Thus, the biomimetic mineralization process can be potentially used as an effective technique for realizing the entrapment of biomacromolecules and constructing efficient catalysts for industrial biocatalysis.
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Affiliation(s)
- Hongming He
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry, College of Chemistry, Jilin University , Changchun 130012, P. R. China
| | - Haobo Han
- Key Laboratory for Molecular Enzymology and Engineering of Ministry of Education, School of Life Sciences, Jilin University , Changchun 130012, P. R. China
| | - Hui Shi
- Key Laboratory for Molecular Enzymology and Engineering of Ministry of Education, School of Life Sciences, Jilin University , Changchun 130012, P. R. China
| | - Yuyang Tian
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry, College of Chemistry, Jilin University , Changchun 130012, P. R. China
| | - Fuxing Sun
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry, College of Chemistry, Jilin University , Changchun 130012, P. R. China
| | - Yang Song
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry, College of Chemistry, Jilin University , Changchun 130012, P. R. China
| | - Quanshun Li
- Key Laboratory for Molecular Enzymology and Engineering of Ministry of Education, School of Life Sciences, Jilin University , Changchun 130012, P. R. China
| | - Guangshan Zhu
- State Key Laboratory of Inorganic Synthesis and Preparative Chemistry, College of Chemistry, Jilin University , Changchun 130012, P. R. China
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18
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Sheng B, Xu J, Ge Y, Zhang S, Wang D, Gao C, Ma C, Xu P. Enzymatic Resolution by ad-Lactate Oxidase Catalyzed Reaction for (S)-2-Hydroxycarboxylic Acids. ChemCatChem 2016. [DOI: 10.1002/cctc.201600536] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Binbin Sheng
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
- School of Environmental Science and Engineering; Sun Yat-sen University, Guangzhou 510275 (China)
| | - Jing Xu
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
| | - Yongsheng Ge
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
| | - Shuo Zhang
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
| | - Danqi Wang
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
| | - Chao Gao
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
| | - Cuiqing Ma
- State Key Lab of Microbial Technology; Shandong University; 27 Shanda South Road Jinan 250100 China
| | - Ping Xu
- State Key Laboratory of Microbial Metabolism and; School of Life Sciences and Biotechnology; Shanghai Jiao Tong University; 800 Dongchuan Road Shanghai 200240 China
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19
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Truongvan N, Jang SH, Lee C. Flexibility and Stability Trade-Off in Active Site of Cold-Adapted Pseudomonas mandelii Esterase EstK. Biochemistry 2016; 55:3542-9. [DOI: 10.1021/acs.biochem.6b00177] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ngoc Truongvan
- Department of Biomedical
Science and Center for Bio-Nanomaterials, Daegu University, Gyeongsan 38453, South Korea
| | - Sei-Heon Jang
- Department of Biomedical
Science and Center for Bio-Nanomaterials, Daegu University, Gyeongsan 38453, South Korea
| | - ChangWoo Lee
- Department of Biomedical
Science and Center for Bio-Nanomaterials, Daegu University, Gyeongsan 38453, South Korea
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Wu S, Zhou Y, Wang T, Too HP, Wang DIC, Li Z. Highly regio- and enantioselective multiple oxy- and amino-functionalizations of alkenes by modular cascade biocatalysis. Nat Commun 2016; 7:11917. [PMID: 27297777 PMCID: PMC4911676 DOI: 10.1038/ncomms11917] [Citation(s) in RCA: 113] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2015] [Accepted: 05/12/2016] [Indexed: 12/24/2022] Open
Abstract
New types of asymmetric functionalizations of alkenes are highly desirable for chemical synthesis. Here, we develop three novel types of regio- and enantioselective multiple oxy- and amino-functionalizations of terminal alkenes via cascade biocatalysis to produce chiral α-hydroxy acids, 1,2-amino alcohols and α-amino acids, respectively. Basic enzyme modules 1–4 are developed to convert alkenes to (S)-1,2-diols, (S)-1,2-diols to (S)-α-hydroxyacids, (S)-1,2-diols to (S)-aminoalcohols and (S)-α-hydroxyacids to (S)-α-aminoacids, respectively. Engineering of enzyme modules 1 & 2, 1 & 3 and 1, 2 & 4 in Escherichia coli affords three biocatalysts over-expressing 4–8 enzymes for one-pot conversion of styrenes to the corresponding (S)-α-hydroxyacids, (S)-aminoalcohols and (S)-α-aminoacids in high e.e. and high yields, respectively. The new types of asymmetric alkene functionalizations provide green, safe and useful alternatives to the chemical syntheses of these compounds. The modular approach for engineering multi-step cascade biocatalysis is useful for developing other new types of one-pot biotransformations for chemical synthesis. Biocatalysis can perform highly selective multi-step synthesis in one pot, but with a limited range of non-natural reactions and products. Here, the authors report regio- and enantioselective bio-cascades, able to convert styrenes into a number of nitrogen and oxygen containing chiral molecules.
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Affiliation(s)
- Shuke Wu
- Department of Chemical and Biomolecular Engineering, National University of Singapore, Singapore 117585, Singapore.,Singapore-MIT Alliance, National University of Singapore, Singapore 117583, Singapore.,Synthetic Biology for Clinical and Technological Innovation (SynCTI), Life Sciences Institute, National University of Singapore, Singapore 117456, Singapore
| | - Yi Zhou
- Synthetic Biology for Clinical and Technological Innovation (SynCTI), Life Sciences Institute, National University of Singapore, Singapore 117456, Singapore
| | - Tianwen Wang
- Department of Chemical and Biomolecular Engineering, National University of Singapore, Singapore 117585, Singapore
| | - Heng-Phon Too
- Singapore-MIT Alliance, National University of Singapore, Singapore 117583, Singapore
| | - Daniel I C Wang
- Singapore-MIT Alliance, National University of Singapore, Singapore 117583, Singapore.,Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
| | - Zhi Li
- Department of Chemical and Biomolecular Engineering, National University of Singapore, Singapore 117585, Singapore.,Singapore-MIT Alliance, National University of Singapore, Singapore 117583, Singapore.,Synthetic Biology for Clinical and Technological Innovation (SynCTI), Life Sciences Institute, National University of Singapore, Singapore 117456, Singapore
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21
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Ma BD, Yu HL, Pan J, Xu JH. High-yield production of enantiopure 2-hydroxy-2-(2′-chlorophenyl) acetic acid by long-term operation of a continuous packed bed reactor. Biochem Eng J 2016. [DOI: 10.1016/j.bej.2015.12.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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22
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Conserved tyrosine 182 residue in hyperthermophilic esterase EstE1 plays a critical role in stabilizing the active site. Extremophiles 2016; 20:187-93. [DOI: 10.1007/s00792-016-0812-3] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2015] [Accepted: 01/15/2016] [Indexed: 12/12/2022]
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23
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Yin JG, Gong Y, Zhang XY, Zheng GW, Xu JH. Green access to chiral Vince lactam in a buffer-free aqueous system using a newly identified substrate-tolerant (−)-γ-lactamase. Catal Sci Technol 2016. [DOI: 10.1039/c6cy00786d] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A novel (−)-γ-lactamase with high catalytic efficiency, strong substrate tolerance and environmental friendliness was identified for green access to chiral Vince lactam.
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Affiliation(s)
- Jin-Gang Yin
- State Key Laboratory of Bioreactor Engineering
- Shanghai Collaborative Innovation Center for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- PR China
| | - Yi Gong
- State Key Laboratory of Bioreactor Engineering
- Shanghai Collaborative Innovation Center for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- PR China
| | - Xiao-Yan Zhang
- State Key Laboratory of Bioreactor Engineering
- Shanghai Collaborative Innovation Center for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- PR China
| | - Gao-Wei Zheng
- State Key Laboratory of Bioreactor Engineering
- Shanghai Collaborative Innovation Center for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- PR China
| | - Jian-He Xu
- State Key Laboratory of Bioreactor Engineering
- Shanghai Collaborative Innovation Center for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- PR China
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24
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25
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Xue YP, Shi CC, Xu Z, Jiao B, Liu ZQ, Huang JF, Zheng YG, Shen YC. Design of Nitrilases with Superior Activity and Enantioselectivity towards Sterically Hindered Nitrile by Protein Engineering. Adv Synth Catal 2015. [DOI: 10.1002/adsc.201500039] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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26
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Chen Q, Luan ZJ, Cheng X, Xu JH. Molecular Dynamics Investigation of the Substrate Binding Mechanism in Carboxylesterase. Biochemistry 2015; 54:1841-8. [DOI: 10.1021/bi5015612] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Qi Chen
- State
Key Laboratory of Bioreactor Engineering, East China University of Science, Technology, Shanghai 200237, China
| | - Zheng-Jiao Luan
- State
Key Laboratory of Bioreactor Engineering, East China University of Science, Technology, Shanghai 200237, China
| | - Xiaolin Cheng
- UT/ORNL Center for Molecular Biophysics, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
- Department
of Biochemistry and Cellular and Molecular Biology, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Jian-He Xu
- State
Key Laboratory of Bioreactor Engineering, East China University of Science, Technology, Shanghai 200237, China
- Shanghai
Collaborative Innovation Center for Biomanufacturing, East China University of Science and Technology, Shanghai 200237, China
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27
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Zhang ZJ, Yu HL, Imanaka T, Xu JH. Efficient production of (R)-(−)-mandelic acid by isopropanol-permeabilized recombinant E. coli cells expressing Alcaligenes sp. nitrilase. Biochem Eng J 2015. [DOI: 10.1016/j.bej.2014.12.009] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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28
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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: 55] [Impact Index Per Article: 6.1] [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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29
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Jiao XC, Pan J, Xu GC, Kong XD, Chen Q, Zhang ZJ, Xu JH. Efficient synthesis of a statin precursor in high space-time yield by a new aldehyde-tolerant aldolase identified from Lactobacillus brevis. Catal Sci Technol 2015. [DOI: 10.1039/c5cy00537j] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A novel 2-deoxyribose-5-phosphate aldolase (LbDERA) was identified from Lactobacillus brevis, with high activity, excellent thermostability and high tolerance against aldehyde substrates.
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Affiliation(s)
- Xue-Cheng Jiao
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
| | - Jiang Pan
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
| | - Guo-Chao Xu
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
| | - Xu-Dong Kong
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
| | - Qi Chen
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
| | - Zhi-Jun Zhang
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
| | - Jian-He Xu
- State Key Laboratory of Bioreactor Engineering and Shanghai Collaborative Innovation Centre for Biomanufacturing
- East China University of Science and Technology
- Shanghai 200237
- China
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30
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Dou S, Kong XD, Ma BD, Chen Q, Zhang J, Zhou J, Xu JH. Crystal structures of Pseudomonas putida esterase reveal the functional role of residues 187 and 287 in substrate binding and chiral recognition. Biochem Biophys Res Commun 2014; 446:1145-50. [PMID: 24680822 DOI: 10.1016/j.bbrc.2014.03.072] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2014] [Accepted: 03/17/2014] [Indexed: 10/25/2022]
Abstract
A recombinant carboxylesterase (rPPE) from Pseudomonas putida ECU1011 was previously cloned and engineered to give a potential application for resolving chiral α-hydroxy acids including mandelic acids and derivatives. Two variants rPPEW187H and rPPED287A showed a ∼100-fold increase in activity towards rac-2-acetoxy-2-(2'-chlorophenyl) acetate (rac-AcO-CPA), but rPPED287A had a significant decrease in enantioselectivity (E=8.7) compared to rPPEW187H and the wild-type rPPE (rPPEWT) (E>200). Here we report the crystal structures of rPPEWT and rPPEW187H, both by themselves and in complex with the substrate, to elucidate the structural basis of this phenomenon. An inactive mutation of nucleophile residue S159A was introduced to obtain the structure of rPPES159A/W187H complexed with (S)-AcO-CPA. The structural analysis reveals that the side chain of residue Asp287 in rPPEWT would have a potential steric conflict with (S)-AcO-CPA when the substrate binds at the active site of the enzyme. However, the mutation W187H could facilitate the relocation of Asp287, while D287A directly eliminates the hindrance of Asp287, both of which offer sufficient space for the binding and hydrolysis of substrate. Moreover, Asp287 generates one site of the "three-point attachment model" as a hydrogen-bond donor that determines the excellent enantioselectivity of rPPE in chiral recognition, and D287A would obviously destroy the hydrogen bond and result in the low enantioselectivity of rPPED287A.
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Affiliation(s)
- Shuai Dou
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China; Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
| | - Xu-Dong Kong
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China; Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
| | - Bao-Di Ma
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Qi Chen
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Jie Zhang
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Jiahai Zhou
- Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China; Key Laboratory of Combinatorial Biosynthesis and Drug Discovery, Wuhan University, Wuhan 430071, China.
| | - Jian-He Xu
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China.
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31
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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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