1
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Qiao J, Sheng Y, Wang M, Li A, Li X, Huang H. Evolving Robust and Interpretable Enzymes for the Bioethanol Industry. Angew Chem Int Ed Engl 2023; 62:e202300320. [PMID: 36701239 DOI: 10.1002/anie.202300320] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2023] [Revised: 01/19/2023] [Accepted: 01/26/2023] [Indexed: 01/27/2023]
Abstract
Obtaining a robust and applicable enzyme for bioethanol production is a dream for biorefinery engineers. Herein, we describe a general method to evolve an all-round and interpretable enzyme that can be directly employed in the bioethanol industry. By integrating the transferable protein evolution strategy InSiReP 2.0 (In Silico guided Recombination Process), enzymatic characterization for actual production, and computational molecular understanding, the model cellulase PvCel5A (endoglucanase II Cel5A from Penicillium verruculosum) was successfully evolved to overcome the remaining challenges of low ethanol and temperature tolerance, which primarily limited biomass transformation and bioethanol yield. Remarkably, application of the PvCel5A variants in both first- and second-generation bioethanol production processes (i. Conventional corn ethanol fermentation combined with the in situ pretreatment process; ii. cellulosic ethanol fermentation process) resulted in a 5.7-10.1 % increase in the ethanol yield, which was unlikely to be achieved by other optimization techniques.
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Affiliation(s)
- Jie Qiao
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 2 Xuelin Road, Nanjing, 210097, China
| | - Yijie Sheng
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 2 Xuelin Road, Nanjing, 210097, China
| | - Minghui Wang
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 2 Xuelin Road, Nanjing, 210097, China
| | - Anni Li
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 2 Xuelin Road, Nanjing, 210097, China
| | - Xiujuan Li
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 2 Xuelin Road, Nanjing, 210097, China
| | - He Huang
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 2 Xuelin Road, Nanjing, 210097, China.,School of Pharmaceutical Science, Nanjing Tech University, Nanjing, 211816, China
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2
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Charlton SN, Hayes MA. Oxygenating Biocatalysts for Hydroxyl Functionalisation in Drug Discovery and Development. ChemMedChem 2022; 17:e202200115. [PMID: 35385205 PMCID: PMC9323455 DOI: 10.1002/cmdc.202200115] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Revised: 04/05/2022] [Indexed: 11/12/2022]
Abstract
C-H oxyfunctionalisation remains a distinct challenge for synthetic organic chemists. Oxygenases and peroxygenases (grouped here as "oxygenating biocatalysts") catalyse the oxidation of a substrate with molecular oxygen or hydrogen peroxide as oxidant. The application of oxygenating biocatalysts in organic synthesis has dramatically increased over the last decade, producing complex compounds with potential uses in the pharmaceutical industry. This review will focus on hydroxyl functionalisation using oxygenating biocatalysts as a tool for drug discovery and development. Established oxygenating biocatalysts, such as cytochrome P450s and flavin-dependent monooxygenases, have widely been adopted for this purpose, but can suffer from low activity, instability or limited substrate scope. Therefore, emerging oxygenating biocatalysts which offer an alternative will also be covered, as well as considering the ways in which these hydroxylation biotransformations can be applied in drug discovery and development, such as late-stage functionalisation (LSF) and in biocatalytic cascades.
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Affiliation(s)
- Sacha N. Charlton
- School of ChemistryUniversity of Bristol, Cantock's CloseBristolBS8 1TSUK
| | - Martin A. Hayes
- Compound Synthesis and ManagementDiscovery SciencesBiopharmaceuticals R&DAstraZenecaGothenburgSweden
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3
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Hu H, Wang Q, Wang D, Ao Y. Modification of the Enantioselectivity of Biocatalytic
meso
‐Desymmetrization for Synthesis of Both Enantiomers of
cis
‐1,2‐Disubstituted Cyclohexane by Amidase Engineering. Adv Synth Catal 2021. [DOI: 10.1002/adsc.202100597] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Hui‐Juan Hu
- Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Molecular Recognition and Function, Institute of Chemistry Chinese Academy of Sciences Beijing 100190 People's Republic of China
- State Key Laboratory of NBC Protection for Civilian Beijing 102205 People's Republic of China
| | - Qi‐Qiang Wang
- Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Molecular Recognition and Function, Institute of Chemistry Chinese Academy of Sciences Beijing 100190 People's Republic of China
- University of Chinese Academy of Sciences Beijing 100049 People's Republic of China
| | - De‐Xian Wang
- Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Molecular Recognition and Function, Institute of Chemistry Chinese Academy of Sciences Beijing 100190 People's Republic of China
- University of Chinese Academy of Sciences Beijing 100049 People's Republic of China
| | - Yu‐Fei Ao
- Beijing National Laboratory for Molecular Sciences, CAS Key Laboratory of Molecular Recognition and Function, Institute of Chemistry Chinese Academy of Sciences Beijing 100190 People's Republic of China
- University of Chinese Academy of Sciences Beijing 100049 People's Republic of China
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4
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Li D, Han T, Xue J, Xu W, Xu J, Wu Q. Engineering Fatty Acid Photodecarboxylase to Enable Highly Selective Decarboxylation of
trans
Fatty Acids. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202107694] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Danyang Li
- Center of Chemistry for Frontier Technologies Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Tao Han
- Center of Chemistry for Frontier Technologies Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Jiadan Xue
- Department of Chemistry Zhejiang Sci-Tech University Hangzhou 310018 China
| | - Weihua Xu
- Center of Chemistry for Frontier Technologies Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Jian Xu
- Center of Chemistry for Frontier Technologies Department of Chemistry Zhejiang University Hangzhou 310027 China
- College of Biotechnology and Bioengineering Zhejiang University of Technology Hangzhou 310014 China
| | - Qi Wu
- Center of Chemistry for Frontier Technologies Department of Chemistry Zhejiang University Hangzhou 310027 China
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5
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Li D, Han T, Xue J, Xu W, Xu J, Wu Q. Engineering Fatty Acid Photodecarboxylase to Enable Highly Selective Decarboxylation of trans Fatty Acids. Angew Chem Int Ed Engl 2021; 60:20695-20699. [PMID: 34288332 DOI: 10.1002/anie.202107694] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Revised: 07/09/2021] [Indexed: 11/08/2022]
Abstract
Due to the high risk of heart disease caused by the intake of trans fatty acids, a method to eliminate trans fatty acids from foods has become a critical issue. Herein, we engineered fatty acid photo-decarboxylase from Chlorella variabilis (CvFAP) to selectively catalyze the decarboxylation of trans fatty acids to yield readily-removed hydrocarbons and carbon dioxide, while cis fatty acids remained unchanged. An efficient protein engineering based on FRISM strategy was implemented to intensify the electronic interaction between the residues and the double bond of the substrate that stabilized the binding of elaidic acid in the channel. For the model compounds, oleic acid and elaidic acid, the best mutant, V453E, showed a one-thousand-fold improvement in the trans-over-cis (ToC) selectivity compared with wild type (WT). As the first report of the direct biocatalytic decarboxylation resolution of trans/cis fatty acids, this work offers a safe, facile, and eco-friendly process to eliminate trans fatty acids from edible oils.
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Affiliation(s)
- Danyang Li
- Center of Chemistry for Frontier Technologies, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Tao Han
- Center of Chemistry for Frontier Technologies, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Jiadan Xue
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310018, China
| | - Weihua Xu
- Center of Chemistry for Frontier Technologies, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Jian Xu
- Center of Chemistry for Frontier Technologies, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China.,College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Qi Wu
- Center of Chemistry for Frontier Technologies, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
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6
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Cui H, Eltoukhy L, Zhang L, Markel U, Jaeger K, Davari MD, Schwaneberg U. Less Unfavorable Salt Bridges on the Enzyme Surface Result in More Organic Cosolvent Resistance. Angew Chem Int Ed Engl 2021; 60:11448-11456. [PMID: 33687787 PMCID: PMC8252522 DOI: 10.1002/anie.202101642] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Indexed: 11/06/2022]
Abstract
Biocatalysis for the synthesis of fine chemicals is highly attractive but usually requires organic (co-)solvents (OSs). However, native enzymes often have low activity and resistance in OSs and at elevated temperatures. Herein, we report a smart salt bridge design strategy for simultaneously improving OS resistance and thermostability of the model enzyme, Bacillus subtilits Lipase A (BSLA). We combined comprehensive experimental studies of 3450 BSLA variants and molecular dynamics simulations of 36 systems. Iterative recombination of four beneficial substitutions yielded superior resistant variants with up to 7.6-fold (D64K/D144K) improved resistance toward three OSs while exhibiting significant thermostability (thermal resistance up to 137-fold, and half-life up to 3.3-fold). Molecular dynamics simulations revealed that locally refined flexibility and strengthened hydration jointly govern the highly increased resistance in OSs and at 50-100 °C. The salt bridge redesign provides protein engineers with a powerful and likely general approach to design OSs- and/or thermal-resistant lipases and other α/β-hydrolases.
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Affiliation(s)
- Haiyang Cui
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
- DWI Leibniz-Institute for Interactive MaterialsForckenbeckstrasse 5052074AachenGermany
| | - Lobna Eltoukhy
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
| | - Lingling Zhang
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
- Tianjin Institute of Industrial BiotechnologyChinese Academy of SciencesWest 7th Avenue 32, Tianjin Airport Economic Area300308TianjinChina
| | - Ulrich Markel
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
| | - Karl‐Erich Jaeger
- Institute of Molecular Enzyme TechnologyHeinrich Heine University DüsseldorfWilhelm Johnen Strasse52426JülichGermany
- Institute of Bio-and Geosciences IBG 1: BiotechnologyForschungszentrum Jülich GmbHWilhelm Johnen Strasse52426JülichGermany
| | - Mehdi D. Davari
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
| | - Ulrich Schwaneberg
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
- DWI Leibniz-Institute for Interactive MaterialsForckenbeckstrasse 5052074AachenGermany
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7
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Cui H, Eltoukhy L, Zhang L, Markel U, Jaeger K, Davari MD, Schwaneberg U. Less Unfavorable Salt Bridges on the Enzyme Surface Result in More Organic Cosolvent Resistance. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202101642] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Haiyang Cui
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
- DWI Leibniz-Institute for Interactive Materials Forckenbeckstrasse 50 52074 Aachen Germany
| | - Lobna Eltoukhy
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
| | - Lingling Zhang
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
- Tianjin Institute of Industrial Biotechnology Chinese Academy of Sciences West 7th Avenue 32, Tianjin Airport Economic Area 300308 Tianjin China
| | - Ulrich Markel
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
| | - Karl‐Erich Jaeger
- Institute of Molecular Enzyme Technology Heinrich Heine University Düsseldorf Wilhelm Johnen Strasse 52426 Jülich Germany
- Institute of Bio-and Geosciences IBG 1: Biotechnology Forschungszentrum Jülich GmbH Wilhelm Johnen Strasse 52426 Jülich Germany
| | - Mehdi D. Davari
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
| | - Ulrich Schwaneberg
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
- DWI Leibniz-Institute for Interactive Materials Forckenbeckstrasse 50 52074 Aachen Germany
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8
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Cui H, Jaeger KE, Davari MD, Schwaneberg U. CompassR Yields Highly Organic-Solvent-Tolerant Enzymes through Recombination of Compatible Substitutions. Chemistry 2021; 27:2789-2797. [PMID: 33186477 DOI: 10.1002/chem.202004471] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Revised: 11/12/2020] [Indexed: 01/28/2023]
Abstract
The CompassR (computer-assisted recombination) rule enables, among beneficial substitutions, the identification of those that can be recombined in directed evolution. Herein, a recombination strategy is systematically investigated to minimize experimental efforts and maximize possible improvements. In total, 15 beneficial substitutions from Bacillus subtilis lipase A (BSLA), which improves resistance to the organic cosolvent 1,4-dioxane (DOX), were studied to compare two recombination strategies, the two-gene recombination process (2GenReP) and the in silico guided recombination process (InSiReP), employing CompassR. Remarkably, both strategies yielded a highly DOX-resistant variant, M4 (I12R/Y49R/E65H/N98R/K122E/L124K), with up to 14.6-fold improvement after screening of about 270 clones. M4 has a remarkably enhanced resistance in 60 % (v/v) acetone (6.0-fold), 30 % (v/v) ethanol (2.1-fold), and 60 % (v/v) methanol (2.4-fold) compared with wild-type BSLA. Molecular dynamics simulations revealed that attracting water molecules by charged surface substitutions is the main driver for increasing the DOX resistance of BSLA M4. Both strategies and obtained molecular knowledge can likely be used to improve the properties of other enzymes with a similar α/β-hydrolase fold.
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Affiliation(s)
- Haiyang Cui
- Institute of Biotechnology, RWTH Aachen University, Worringer Weg 3, 52074, Aachen, Germany
| | - Karl-Erich Jaeger
- Institute of Molecular Enzyme Technology, Heinrich Heine University Düsseldorf, Wilhelm Johnen Strasse, 52426, Jülich, Germany.,Institute of Bio-and Geosciences IBG 1: Biotechnology, Forschungszentrum Jülich GmbH, Wilhelm Johnen Strasse, 52426, Jülich, Germany
| | - Mehdi D Davari
- Institute of Biotechnology, RWTH Aachen University, Worringer Weg 3, 52074, Aachen, Germany
| | - Ulrich Schwaneberg
- Institute of Biotechnology, RWTH Aachen University, Worringer Weg 3, 52074, Aachen, Germany.,DWI Leibniz-Institute for Interactive Materials, Forckenbeckstrasse 50, 52074, Aachen, Germany
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9
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Wu S, Snajdrova R, Moore JC, Baldenius K, Bornscheuer UT. Biocatalysis: Enzymatic Synthesis for Industrial Applications. Angew Chem Int Ed Engl 2021; 60:88-119. [PMID: 32558088 PMCID: PMC7818486 DOI: 10.1002/anie.202006648] [Citation(s) in RCA: 540] [Impact Index Per Article: 180.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Indexed: 12/12/2022]
Abstract
Biocatalysis has found numerous applications in various fields as an alternative to chemical catalysis. The use of enzymes in organic synthesis, especially to make chiral compounds for pharmaceuticals as well for the flavors and fragrance industry, are the most prominent examples. In addition, biocatalysts are used on a large scale to make specialty and even bulk chemicals. This review intends to give illustrative examples in this field with a special focus on scalable chemical production using enzymes. It also discusses the opportunities and limitations of enzymatic syntheses using distinct examples and provides an outlook on emerging enzyme classes.
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Affiliation(s)
- Shuke Wu
- Institute of BiochemistryDept. of Biotechnology & Enzyme CatalysisGreifswald UniversityFelix-Hausdorff-Strasse 417487GreifswaldGermany
| | - Radka Snajdrova
- Novartis Institutes for BioMedical ResearchGlobal Discovery Chemistry4056BaselSwitzerland
| | - Jeffrey C. Moore
- Process Research and DevelopmentMerck & Co., Inc.126 E. Lincoln AveRahwayNJ07065USA
| | - Kai Baldenius
- Baldenius Biotech ConsultingHafenstr. 3168159MannheimGermany
| | - Uwe T. Bornscheuer
- Institute of BiochemistryDept. of Biotechnology & Enzyme CatalysisGreifswald UniversityFelix-Hausdorff-Strasse 417487GreifswaldGermany
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10
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Wu S, Snajdrova R, Moore JC, Baldenius K, Bornscheuer UT. Biokatalyse: Enzymatische Synthese für industrielle Anwendungen. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202006648] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Shuke Wu
- Institut für Biochemie Abt. Biotechnologie & Enzymkatalyse Universität Greifswald Felix-Hausdorff-Straße 4 17487 Greifswald Deutschland
| | - Radka Snajdrova
- Novartis Institutes for BioMedical Research Global Discovery Chemistry 4056 Basel Schweiz
| | - Jeffrey C. Moore
- Process Research and Development Merck & Co., Inc. 126 E. Lincoln Ave Rahway NJ 07065 USA
| | - Kai Baldenius
- Baldenius Biotech Consulting Hafenstraße 31 68159 Mannheim Deutschland
| | - Uwe T. Bornscheuer
- Institut für Biochemie Abt. Biotechnologie & Enzymkatalyse Universität Greifswald Felix-Hausdorff-Straße 4 17487 Greifswald Deutschland
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11
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Cui H, Cao H, Cai H, Jaeger K, Davari MD, Schwaneberg U. Computer-Assisted Recombination (CompassR) Teaches us How to Recombine Beneficial Substitutions from Directed Evolution Campaigns. Chemistry 2020; 26:643-649. [PMID: 31553080 PMCID: PMC7003928 DOI: 10.1002/chem.201903994] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2019] [Indexed: 01/09/2023]
Abstract
A main remaining challenge in protein engineering is how to recombine beneficial substitutions. Systematic recombination studies show that poorly performing variants are usually obtained after recombination of 3 to 4 beneficial substitutions. This limits researchers in exploiting nature's potential in generating better enzymes. The Computer-assisted Recombination (CompassR) strategy provides a selection guide for beneficial substitutions that can be recombined to gradually improve enzyme performance by analysis of the relative free energy of folding (ΔΔGfold ). The performance of CompassR was evaluated by analysis of 84 recombinants located on 13 positions of Bacillus subtilis lipase A. The finally obtained variant F17S/V54K/D64N/D91E had a 2.7-fold improved specific activity in 18.3 % (v/v) 1-butyl-3-methylimidazolium chloride ([BMIM][Cl]). In essence, the deducted CompassR rule allows recombination of beneficial substitutions in an iterative manner and empowers researchers to generate better enzymes in a time-efficient manner.
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Affiliation(s)
- Haiyang Cui
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
| | - Hao Cao
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
- Beijing Bioprocess Key Laboratory and College of Life Science and TechnologyBeijing University of Chemical TechnologyBeijing100029P. R. China
| | - Haiying Cai
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
| | - Karl‐Erich Jaeger
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
- Institute of Molecular Enzyme TechnologyHeinrich Heine University Düsseldorf and Research Center Jülich, Wilhelm Johnen Strasse52426JülichGermany
| | - Mehdi D. Davari
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
| | - Ulrich Schwaneberg
- Institute of BiotechnologyRWTH Aachen UniversityWorringer Weg 352074AachenGermany
- DWI Leibniz-Institute for Interactive MaterialsForckenbeckstrasse 5052074AachenGermany
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12
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Xu J, Peng Y, Wang Z, Hu Y, Fan J, Zheng H, Lin X, Wu Q. Exploiting Cofactor Versatility to Convert a FAD‐Dependent Baeyer–Villiger Monooxygenase into a Ketoreductase. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201907606] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Jian Xu
- Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Yongzhen Peng
- Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Zhiguo Wang
- Institute of Aging Research School of Medicine Hangzhou Normal University Hangzhou 311121 China
| | - Yujing Hu
- Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Jiajie Fan
- Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - He Zheng
- Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Xianfu Lin
- Department of Chemistry Zhejiang University Hangzhou 310027 China
| | - Qi Wu
- Department of Chemistry Zhejiang University Hangzhou 310027 China
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13
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Xu J, Peng Y, Wang Z, Hu Y, Fan J, Zheng H, Lin X, Wu Q. Exploiting Cofactor Versatility to Convert a FAD-Dependent Baeyer-Villiger Monooxygenase into a Ketoreductase. Angew Chem Int Ed Engl 2019; 58:14499-14503. [PMID: 31423719 DOI: 10.1002/anie.201907606] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2019] [Revised: 07/24/2019] [Indexed: 12/21/2022]
Abstract
Cyclohexanone monooxygenases (CHMOs) show very high catalytic specificity for natural Baeyer-Villiger (BV) reactions and promiscuous reduction reactions have not been reported to date. Wild-type CHMO from Acinetobacter sp. NCIMB 9871 was found to possess an innate, promiscuous ability to reduce an aromatic α-keto ester, but with poor yield and stereoselectivity. Structure-guided, site-directed mutagenesis drastically improved the catalytic carbonyl-reduction activity (yield up to 99 %) and stereoselectivity (ee up to 99 %), thereby converting this CHMO into a ketoreductase, which can reduce a range of differently substituted aromatic α-keto esters. The improved, promiscuous reduction activity of the mutant enzyme in comparison to the wild-type enzyme results from a decrease in the distance between the carbonyl moiety of the substrate and the hydrogen atom on N5 of the reduced flavin adenine dinucleotide (FAD) cofactor, as confirmed using docking and molecular dynamics simulations.
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Affiliation(s)
- Jian Xu
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Yongzhen Peng
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Zhiguo Wang
- Institute of Aging Research, School of Medicine, Hangzhou Normal University, Hangzhou, 311121, China
| | - Yujing Hu
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Jiajie Fan
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - He Zheng
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Xianfu Lin
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Qi Wu
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
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14
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Bornscheuer U. Maßgeschneiderte Proteine. CHEM UNSERER ZEIT 2019. [DOI: 10.1002/ciuz.201900017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Uwe Bornscheuer
- Institut für BiochemieAbt. Biotechnologie & EnzymkatalyseUniversität Greifswald Felix‐Hausdorff‐Str. 4 17489 Greifswald
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15
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Xu J, Hu Y, Fan J, Arkin M, Li D, Peng Y, Xu W, Lin X, Wu Q. Light‐Driven Kinetic Resolution of α‐Functionalized Carboxylic Acids Enabled by an Engineered Fatty Acid Photodecarboxylase. Angew Chem Int Ed Engl 2019; 58:8474-8478. [DOI: 10.1002/anie.201903165] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2019] [Revised: 04/10/2019] [Indexed: 12/14/2022]
Affiliation(s)
- Jian Xu
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Yujing Hu
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Jiajie Fan
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Mamatjan Arkin
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Danyang Li
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Yongzhen Peng
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Weihua Xu
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Xianfu Lin
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Qi Wu
- Department of ChemistryZhejiang University Hangzhou 310027 China
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16
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Land H, Campillo‐Brocal JC, Svedendahl Humble M, Berglund P. B-factor Guided Proline Substitutions in Chromobacterium violaceum Amine Transaminase: Evaluation of the Proline Rule as a Method for Enzyme Stabilization. Chembiochem 2019; 20:1297-1304. [PMID: 30637901 PMCID: PMC6593452 DOI: 10.1002/cbic.201800749] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Indexed: 12/02/2022]
Abstract
Biocatalysis is attracting interest in the chemical industry as a sustainable alternative in large-scale chemical transformations. However, low operational stability of naturally evolved enzymes is a challenge and major efforts are required to engineer protein stability, usually by directed evolution. The development of methods for protein stabilization based on rational design is of great interest, as it would minimize the efforts needed to generate stable enzymes. Here we present a rational design strategy based on proline substitutions in flexible areas of the protein identified by analyzing B-factors. Several proline substitutions in the amine transaminase from Chromobacterium violaceum were shown to have a positive impact on stability with increased half-life at 60 °C by a factor of 2.7 (variant K69P/D218P/K304P/R432P) as well as increased melting temperature by 8.3 °C (variant K167P). Finally, the presented method utilizing B-factor analysis in combination with the proline rule was deemed successful at increasing the stability of this enzyme.
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Affiliation(s)
- Henrik Land
- KTH Royal Institute of TechnologySchool of Engineering Sciences in ChemistryBiotechnology and Health (CBH)Department of Industrial BiotechnologyAlbaNova University Center106 91StockholmSweden
- Uppsala UniversityDepartment of Chemistry–Ångström LaboratoryMolecular BiomimeticsBox 523751 20UppsalaSweden
| | - Jonatan C. Campillo‐Brocal
- KTH Royal Institute of TechnologySchool of Engineering Sciences in ChemistryBiotechnology and Health (CBH)Department of Industrial BiotechnologyAlbaNova University Center106 91StockholmSweden
| | | | - Per Berglund
- KTH Royal Institute of TechnologySchool of Engineering Sciences in ChemistryBiotechnology and Health (CBH)Department of Industrial BiotechnologyAlbaNova University Center106 91StockholmSweden
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17
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Xu J, Hu Y, Fan J, Arkin M, Li D, Peng Y, Xu W, Lin X, Wu Q. Light‐Driven Kinetic Resolution of α‐Functionalized Carboxylic Acids Enabled by an Engineered Fatty Acid Photodecarboxylase. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201903165] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Jian Xu
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Yujing Hu
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Jiajie Fan
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Mamatjan Arkin
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Danyang Li
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Yongzhen Peng
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Weihua Xu
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Xianfu Lin
- Department of ChemistryZhejiang University Hangzhou 310027 China
| | - Qi Wu
- Department of ChemistryZhejiang University Hangzhou 310027 China
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18
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Markel U, Sauer DF, Schiffels J, Okuda J, Schwaneberg U. Auf dem Weg zur Evolution artifizieller Metalloenzyme – aus einem Protein‐Engineering‐Blickwinkel. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201811042] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Ulrich Markel
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
| | - Daniel F. Sauer
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
| | - Johannes Schiffels
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
| | - Jun Okuda
- Institut für Anorganische Chemie RWTH Aachen Landoltweg 1 52056 Aachen Deutschland
| | - Ulrich Schwaneberg
- DWI Leibniz-Institut für Interaktive Materialien Forckenbeckstraße 50 52074 Aachen Deutschland
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
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