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Chen J, Yang X, Huang Y, Zheng Z, Li T. The Development of Aldehyde Catalytic System. Chem Asian J 2023; 18:e202300731. [PMID: 37755436 DOI: 10.1002/asia.202300731] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 09/21/2023] [Accepted: 09/25/2023] [Indexed: 09/28/2023]
Abstract
Aldehyde catalysts have proven to be highly effective in facilitating and accelerating a wide range of challenging transformations in organic chemistry. This article is structured into three main sections, focusing on the utilization of aldehydes as organocatalysts, the aldehydes/transition metals catalytic systems, and photochemical initiators. Finally, we provide a concise summary of the advancements in this fascinating research field, offering our perspectives and insights.
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Affiliation(s)
- Jinli Chen
- National Key Laboratory of Green Pesticides, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University. Huaxi District, Guiyang, 550025, China
| | - Xiaoqun Yang
- National Key Laboratory of Green Pesticides, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University. Huaxi District, Guiyang, 550025, China
| | - Yixian Huang
- National Key Laboratory of Green Pesticides, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University. Huaxi District, Guiyang, 550025, China
| | - Zhiguo Zheng
- National Key Laboratory of Green Pesticides, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University. Huaxi District, Guiyang, 550025, China
| | - Tingting Li
- National Key Laboratory of Green Pesticides, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Guizhou University. Huaxi District, Guiyang, 550025, China
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2
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Yu H, Feng J, Zhong F, Wu Y. Chemical Modification for the "off-/on" Regulation of Enzyme Activity. Macromol Rapid Commun 2022; 43:e2200195. [PMID: 35482602 DOI: 10.1002/marc.202200195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 04/14/2022] [Indexed: 11/07/2022]
Abstract
Enzymes with excellent catalytic performance play important roles in living organisms. Advances in strategies for enzyme chemical modification have enabled powerful strategies for exploring and manipulating enzyme functions and activities. Based on the development of chemical enzyme modifications, incorporating external stimuli-responsive features-for example, responsivity to light, voltage, magnetic force, pH, temperature, redox activity, and small molecules-into a target enzyme to turn "on" and "off" its activity has attracted much attention. The ability to precisely control enzyme activity using different approaches would greatly expand the chemical biology toolbox for clarification and detection of signal transduction and in vivo enzyme function and significantly promote enzyme-based disease therapy. This review summarizes the methods available for chemical enzyme modification mainly for the off-/on control of enzyme activity and particularly highlights the recent progress regarding the applications of this strategy. This article is protected by copyright. All rights reserved.
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Affiliation(s)
- Huaibin Yu
- Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Ministry of Education Key Laboratory of Material Chemistry for Energy Conversion and Storage, Hubei Key Laboratory of Bioinorganic Chemistry & Materia Medica, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), 1037 Luoyu Road, Wuhan, 430074, China
| | - Jiayi Feng
- Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Ministry of Education Key Laboratory of Material Chemistry for Energy Conversion and Storage, Hubei Key Laboratory of Bioinorganic Chemistry & Materia Medica, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), 1037 Luoyu Road, Wuhan, 430074, China
| | - Fangrui Zhong
- Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Ministry of Education Key Laboratory of Material Chemistry for Energy Conversion and Storage, Hubei Key Laboratory of Bioinorganic Chemistry & Materia Medica, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), 1037 Luoyu Road, Wuhan, 430074, China
| | - Yuzhou Wu
- Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Ministry of Education Key Laboratory of Material Chemistry for Energy Conversion and Storage, Hubei Key Laboratory of Bioinorganic Chemistry & Materia Medica, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), 1037 Luoyu Road, Wuhan, 430074, China
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3
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Ni SF, Huang G, Chen Y, Wright JS, Li M, Dang L. Recent advances in γ-C(sp3)–H bond activation of amides, aliphatic amines, sulfanilamides and amino acids. Coord Chem Rev 2022. [DOI: 10.1016/j.ccr.2021.214255] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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4
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Giri P, Pagar AD, Patil MD, Yun H. Chemical modification of enzymes to improve biocatalytic performance. Biotechnol Adv 2021; 53:107868. [PMID: 34774927 DOI: 10.1016/j.biotechadv.2021.107868] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 11/02/2021] [Accepted: 11/05/2021] [Indexed: 12/23/2022]
Abstract
Improvement in intrinsic enzymatic features is in many instances a prerequisite for the scalable applicability of many industrially important biocatalysts. To this end, various strategies of chemical modification of enzymes are maturing and now considered as a distinct way to improve biocatalytic properties. Traditional chemical modification methods utilize reactivities of amine, carboxylic, thiol and other side chains originating from canonical amino acids. On the other hand, noncanonical amino acid- mediated 'click' (bioorthogoal) chemistry and dehydroalanine (Dha)-mediated modifications have emerged as an alternate and promising ways to modify enzymes for functional enhancement. This review discusses the applications of various chemical modification tools that have been directed towards the improvement of functional properties and/or stability of diverse array of biocatalysts.
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Affiliation(s)
- Pritam Giri
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Amol D Pagar
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Mahesh D Patil
- Department of Nanomaterials and Application Technology, Center of Innovative and Applied Bioprocessing (CIAB), Sector-81, PO Manauli, S.A.S. Nagar, Mohali 140306, Punjab, India
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
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Pagar AD, Patil MD, Flood DT, Yoo TH, Dawson PE, Yun H. Recent Advances in Biocatalysis with Chemical Modification and Expanded Amino Acid Alphabet. Chem Rev 2021; 121:6173-6245. [PMID: 33886302 DOI: 10.1021/acs.chemrev.0c01201] [Citation(s) in RCA: 53] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The two main strategies for enzyme engineering, directed evolution and rational design, have found widespread applications in improving the intrinsic activities of proteins. Although numerous advances have been achieved using these ground-breaking methods, the limited chemical diversity of the biopolymers, restricted to the 20 canonical amino acids, hampers creation of novel enzymes that Nature has never made thus far. To address this, much research has been devoted to expanding the protein sequence space via chemical modifications and/or incorporation of noncanonical amino acids (ncAAs). This review provides a balanced discussion and critical evaluation of the applications, recent advances, and technical breakthroughs in biocatalysis for three approaches: (i) chemical modification of cAAs, (ii) incorporation of ncAAs, and (iii) chemical modification of incorporated ncAAs. Furthermore, the applications of these approaches and the result on the functional properties and mechanistic study of the enzymes are extensively reviewed. We also discuss the design of artificial enzymes and directed evolution strategies for enzymes with ncAAs incorporated. Finally, we discuss the current challenges and future perspectives for biocatalysis using the expanded amino acid alphabet.
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Affiliation(s)
- Amol D Pagar
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
| | - Mahesh D Patil
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
| | - Dillon T Flood
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Tae Hyeon Yoo
- Department of Molecular Science and Technology, Ajou University, 206 World cup-ro, Yeongtong-gu, Suwon 16499, Korea
| | - Philip E Dawson
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
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Ferguson AL, Ranganathan R. 100th Anniversary of Macromolecular Science Viewpoint: Data-Driven Protein Design. ACS Macro Lett 2021; 10:327-340. [PMID: 35549066 DOI: 10.1021/acsmacrolett.0c00885] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The design of synthetic proteins with the desired function is a long-standing goal in biomolecular science, with broad applications in biochemical engineering, agriculture, medicine, and public health. Rational de novo design and experimental directed evolution have achieved remarkable successes but are challenged by the requirement to find functional "needles" in the vast "haystack" of protein sequence space. Data-driven models for fitness landscapes provide a predictive map between protein sequence and function and can prospectively identify functional candidates for experimental testing to greatly improve the efficiency of this search. This Viewpoint reviews the applications of machine learning and, in particular, deep learning as part of data-driven protein engineering platforms. We highlight recent successes, review promising computational methodologies, and provide an outlook on future challenges and opportunities. The article is written for a broad audience comprising both polymer and protein scientists and computer and data scientists interested in an up-to-date review of recent innovations and opportunities in this rapidly evolving field.
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Affiliation(s)
- Andrew L. Ferguson
- Pritzker School of Molecular Engineering, University of Chicago, Chicago, Illinois 60637, United States
| | - Rama Ranganathan
- Pritzker School of Molecular Engineering, University of Chicago, Chicago, Illinois 60637, United States
- Center for Physics of Evolving Systems, University of Chicago, Chicago, Illinois 60637, United States
- Biochemistry and Molecular Biology, University of Chicago, Chicago, Illinois 60637, United States
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Houston SD, Chalmers BA, Savage GP, Williams CM. Enantioselective synthesis of (R)-2-cubylglycine including unprecedented rhodium mediated C–H insertion of cubane. Org Biomol Chem 2019; 17:1067-1070. [DOI: 10.1039/c8ob02959h] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
An enantioselective synthesis of the non-proteinogenic amino acid (R)-2-cubylglycine and the first examples of cubane C–H insertion are reported.
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Affiliation(s)
- Sevan D. Houston
- School of Chemistry and Molecular Biosciences
- University of Queensland
- Brisbane
- Australia
| | - Benjamin A. Chalmers
- School of Chemistry and Molecular Biosciences
- University of Queensland
- Brisbane
- Australia
| | - G. Paul Savage
- CSIRO Manufacturing
- Ian Wark Laboratory
- Melbourne
- Australia
| | - Craig M. Williams
- School of Chemistry and Molecular Biosciences
- University of Queensland
- Brisbane
- Australia
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Affiliation(s)
- Teresa L. Mako
- Department of Chemistry, University of Rhode Island, 140 Flagg Road, Kingston, Rhode Island 02881, United States
| | - Joan M. Racicot
- Department of Chemistry, University of Rhode Island, 140 Flagg Road, Kingston, Rhode Island 02881, United States
| | - Mindy Levine
- Department of Chemistry, University of Rhode Island, 140 Flagg Road, Kingston, Rhode Island 02881, United States
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Just D, Hernandez-Guerra D, Kritsch S, Pohl R, Císařová I, Jones PG, Mackman R, Bahador G, Jahn U. Lithium Chloride Catalyzed Asymmetric Domino Aza-Michael Addition/[3 + 2] Cycloaddition Reactions for the Synthesis of Spiro- and Bicyclic α,β,γ-Triamino Acid Derivatives. European J Org Chem 2018. [DOI: 10.1002/ejoc.201800585] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- David Just
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences; Flemingovo nám. 2 166 10 Prague 6 Czech Republic
| | - Daniel Hernandez-Guerra
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences; Flemingovo nám. 2 166 10 Prague 6 Czech Republic
| | - Susanne Kritsch
- Fachbereich Chemie; Technische Universität Braunschweig; Hagenring 30 38106 Braunschweig Germany
| | - Radek Pohl
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences; Flemingovo nám. 2 166 10 Prague 6 Czech Republic
| | - Ivana Císařová
- Department of Inorganic Chemistry; Faculty of Science; Charles University; Hlavova 2030/8 128 43 Prague 2 Czech Republic
| | - Peter G. Jones
- Fachbereich Chemie; Technische Universität Braunschweig; Hagenring 30 38106 Braunschweig Germany
| | - Richard Mackman
- Gilead Sciences, Inc.; 333 Lakeside Drive 94404 Foster City CA USA
| | - Gina Bahador
- Gilead Sciences, Inc.; 333 Lakeside Drive 94404 Foster City CA USA
| | - Ullrich Jahn
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences; Flemingovo nám. 2 166 10 Prague 6 Czech Republic
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Lin H, Wang C, Bannister TD, Kamenecka TM. Site-Selective γ-C(sp3)−H and γ-C(sp2)−H Arylation of Free Amino Esters Promoted by a Catalytic Transient Directing Group. Chemistry 2018; 24:9535-9541. [DOI: 10.1002/chem.201802465] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2018] [Indexed: 01/06/2023]
Affiliation(s)
- Hua Lin
- Department of Molecular Medicine; The Scripps Research Institute; Jupiter Florida 33458 USA
| | - Chao Wang
- Department of Chemistry; The Scripps Research Institute; Jupiter Florida 33458 USA
| | - Thomas D. Bannister
- Department of Chemistry; The Scripps Research Institute; Jupiter Florida 33458 USA
| | - Theodore M. Kamenecka
- Department of Molecular Medicine; The Scripps Research Institute; Jupiter Florida 33458 USA
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11
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Cabral WF, Machado AH, Santos GM. Exogenous nucleosome-binding molecules: a potential new class of therapeutic drugs. Drug Discov Today 2016; 21:707-11. [DOI: 10.1016/j.drudis.2016.01.017] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2015] [Revised: 01/22/2016] [Accepted: 01/29/2016] [Indexed: 12/15/2022]
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12
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Weckenmann NM, Nachtsheim BJ. Enantioselective Synthesis ofD-α-(Uracil-5-yl)glycine Derivatives and Their Racemization-Free Incorporation into a Model Peptide. European J Org Chem 2015. [DOI: 10.1002/ejoc.201500914] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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13
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O'Connor M, Sun C, Lee D. Synthesis of Amathaspiramides by Aminocyanation of Enoates. Angew Chem Int Ed Engl 2015; 54:9963-6. [DOI: 10.1002/anie.201503982] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2015] [Indexed: 11/10/2022]
Affiliation(s)
- Matthew O'Connor
- Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago, IL (USA)
| | - Chunrui Sun
- Merck Discovery Chemistry, 2000 Galloping Hill Road, Kenilworth, NJ 07033 (USA)
| | - Daesung Lee
- Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago, IL (USA)
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14
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O'Connor M, Sun C, Lee D. Synthesis of Amathaspiramides by Aminocyanation of Enoates. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201503982] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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15
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Lim SI, Kwon I. Bioconjugation of therapeutic proteins and enzymes using the expanded set of genetically encoded amino acids. Crit Rev Biotechnol 2015; 36:803-15. [DOI: 10.3109/07388551.2015.1048504] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Sung In Lim
- Department of Chemical Engineering, University of Virginia, Charlottesville, VA, USA and
| | - Inchan Kwon
- Department of Chemical Engineering, University of Virginia, Charlottesville, VA, USA and
- School of Materials Science and Engineering, Gwangju Institute of Science and Technology (GIST), Gwangju, Republic of Korea
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Minten IJ, Abello N, Schooneveld-Bergmans MEF, van den Berg MA. Post-production modification of industrial enzymes. Appl Microbiol Biotechnol 2014; 98:6215-31. [PMID: 24903809 DOI: 10.1007/s00253-014-5799-z] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2014] [Revised: 04/23/2014] [Accepted: 04/27/2014] [Indexed: 12/24/2022]
Abstract
Industry has an increasing interest in the use of enzymes as environmentally friendly, highly efficient, and specific bio-catalysts. Enzymes have primarily evolved to function in aqueous environments at ambient temperature and pressure. These conditions however do not always correspond with industrial processes or applications, and only a small portion of all known enzymes are therefore suitable for industrial use. Protein engineering can sometimes be applied to convey more desirable properties to enzymes, such as increased stability, but is limited to the 20 naturally occurring amino acids or homologs thereof. Using post-production modification, which has the potential to combine desirable properties from the enzyme and the conjugated compounds, enzymes can be modified with both natural and synthetic molecules. This offers access to a myriad of possibilities for tuning the properties of enzymes. At this moment, however, the effects of post-production modification cannot yet be reliably predicted. The increasing number of applications will improve this so that the potential of this technology can be fully exploited. This review will focus on post-production modification of enzymes and its use and opportunities in industry.
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Affiliation(s)
- Inge J Minten
- DSM Biotechnology Center, Alexander Fleminglaan 1, 2613 AX, Delft, The Netherlands,
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Kapras V, Pohl R, Císařová I, Jahn U. Asymmetric Domino Aza-Michael Addition/[3 + 2] Cycloaddition Reactions as a Versatile Approach to α,β,γ-Triamino Acid Derivatives. Org Lett 2014; 16:1088-91. [DOI: 10.1021/ol403660w] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Vojtěch Kapras
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10, Prague 6, Czech Republic
| | - Radek Pohl
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10, Prague 6, Czech Republic
| | - Ivana Císařová
- Department
of Inorganic Chemistry, Faculty of Science, Charles University, Hlavova 2030/8, 128 43, Prague 2, Czech Republic
| | - Ullrich Jahn
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10, Prague 6, Czech Republic
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Adsorption of polyethylene-glycolated bovine serum albumin on macroporous and polymer-grafted anion exchangers. J Chromatogr A 2014; 1326:29-38. [DOI: 10.1016/j.chroma.2013.12.007] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2013] [Revised: 11/27/2013] [Accepted: 12/04/2013] [Indexed: 11/24/2022]
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