1
|
Meziadi A, Bloquert V, Greschner AA, de Haan HW, Gauthier MA. Harnessing Water Competition to Drive Enzyme Crosstalk. Biomacromolecules 2024; 25:6072-6081. [PMID: 39150387 DOI: 10.1021/acs.biomac.4c00727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/17/2024]
Abstract
In nature, enzymatic pathways often involve compartmentalization effects that can modify the intrinsic activity and specificity of the different enzymes involved. Consequently, extensive research has focused on replicating and studying the compartmentalization effects on individual enzymes and on multistep enzyme "cascade" reactions. This study explores the influence of compartmentalization achieved using molecular crowding on the glucose oxidase/horseradish peroxidase (GOx/HRP) cascade reaction. The crowder tested is methoxy poly(ethylene glycol) (mPEG) that can, depending on conditions, promote GOx and HRP coassociation at the nanoscale and extend their contact time. Low-molecular-weight mPEG (0.35 kDa), but not mPEG of higher molecular weights (5 or 20 kDa), significantly enhanced the cascade reaction where up to a 20-fold increase in the rate of the cascade reaction was observed under some conditions. The combined analyses emphasize the particularity of low-molecular-weight mPEG and point toward mPEG-induced coassociation of HRP and GOx, producing nearest crowded neighbor effects of HRP on GOx, and vice versa. These altered the nanoscale environments of these enzymes, which influenced substrate affinity. Using mPEG to promote protein coassociation is simple and does not chemically modify the proteins studied. This approach could be of interest for more broadly characterizing nearest crowded neighbor effects (i.e., protein-protein interactions) for multiprotein systems (i.e., more than just two), thus making it an interesting tool for studying very complex systems, such as those found in nature.
Collapse
Affiliation(s)
- Ahlem Meziadi
- Institut National de la Recherche Scientifique (INRS), EMT Research Center, Varennes, Quebec J3X 1P7, Canada
| | - Victoria Bloquert
- Institut National de la Recherche Scientifique (INRS), EMT Research Center, Varennes, Quebec J3X 1P7, Canada
| | - Andrea A Greschner
- Institut National de la Recherche Scientifique (INRS), EMT Research Center, Varennes, Quebec J3X 1P7, Canada
| | - Hendrick W de Haan
- Faculty of Science, University of Ontario Institute of Technology, Oshawa, Ontario L1H 7K4, Canada
| | - Marc A Gauthier
- Institut National de la Recherche Scientifique (INRS), EMT Research Center, Varennes, Quebec J3X 1P7, Canada
| |
Collapse
|
2
|
Li Y, Yin D, Lee SY, Lv Y. Engineered polymer nanoparticles as artificial chaperones facilitating the selective refolding of denatured enzymes. Proc Natl Acad Sci U S A 2024; 121:e2403049121. [PMID: 38691587 PMCID: PMC11087784 DOI: 10.1073/pnas.2403049121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2024] [Accepted: 03/28/2024] [Indexed: 05/03/2024] Open
Abstract
Molecular chaperones assist in protein refolding by selectively binding to proteins in their nonnative states. Despite progress in creating artificial chaperones, these designs often have a limited range of substrates they can work with. In this paper, we present molecularly imprinted flexible polymer nanoparticles (nanoMIPs) designed as customizable biomimetic chaperones. We used model proteins such as cytochrome c, laccase, and lipase to screen polymeric monomers and identify the most effective formulations, offering tunable charge and hydrophobic properties. Utilizing a dispersed phase imprinting approach, we employed magnetic beads modified with destabilized whole-protein as solid-phase templates. This process involves medium exchange facilitated by magnetic pulldowns, resulting in the synthesis of nanoMIPs featuring imprinted sites that effectively mimic chaperone cavities. These nanoMIPs were able to selectively refold denatured enzymes, achieving up to 86.7% recovery of their activity, significantly outperforming control samples. Mechanistic studies confirmed that nanoMIPs preferentially bind denatured rather than native enzymes, mimicking natural chaperone interactions. Multifaceted analyses support the functionality of nanoMIPs, which emulate the protective roles of chaperones by selectively engaging with denatured proteins to inhibit aggregation and facilitate refolding. This approach shows promise for widespread use in protein recovery within biocatalysis and biomedicine.
Collapse
Affiliation(s)
- Yan Li
- State Key Laboratory of Organic-Inorganic Composites, National Energy Research and Development Center for Biorefinery, International Joint Bioenergy Laboratory of Ministry of Education, Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing100029, China
- Metabolic and Biomolecular Engineering National Research Laboratory and Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, Department of Chemical and Biomolecular Engineering (BK21 four), Korea Advanced Institute of Science and Technology, Daejeon34141, Republic of Korea
| | - Deping Yin
- State Key Laboratory of Organic-Inorganic Composites, National Energy Research and Development Center for Biorefinery, International Joint Bioenergy Laboratory of Ministry of Education, Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing100029, China
| | - Sang Yup Lee
- Metabolic and Biomolecular Engineering National Research Laboratory and Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, Department of Chemical and Biomolecular Engineering (BK21 four), Korea Advanced Institute of Science and Technology, Daejeon34141, Republic of Korea
- KAIST Institute for the BioCentury, KAIST Institute for AI, BioProcess Engineering Research Center, BioInformatics Research Center, and Graduate School of Engineering Biology, Korea Advanced Institute of Science and Technology, Daejeon34141, Republic of Korea
| | - Yongqin Lv
- State Key Laboratory of Organic-Inorganic Composites, National Energy Research and Development Center for Biorefinery, International Joint Bioenergy Laboratory of Ministry of Education, Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing100029, China
| |
Collapse
|
3
|
Ghosh S, Baltussen MG, Ivanov NM, Haije R, Jakštaitė M, Zhou T, Huck WTS. Exploring Emergent Properties in Enzymatic Reaction Networks: Design and Control of Dynamic Functional Systems. Chem Rev 2024; 124:2553-2582. [PMID: 38476077 PMCID: PMC10941194 DOI: 10.1021/acs.chemrev.3c00681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Revised: 02/13/2024] [Accepted: 02/20/2024] [Indexed: 03/14/2024]
Abstract
The intricate and complex features of enzymatic reaction networks (ERNs) play a key role in the emergence and sustenance of life. Constructing such networks in vitro enables stepwise build up in complexity and introduces the opportunity to control enzymatic activity using physicochemical stimuli. Rational design and modulation of network motifs enable the engineering of artificial systems with emergent functionalities. Such functional systems are useful for a variety of reasons such as creating new-to-nature dynamic materials, producing value-added chemicals, constructing metabolic modules for synthetic cells, and even enabling molecular computation. In this review, we offer insights into the chemical characteristics of ERNs while also delving into their potential applications and associated challenges.
Collapse
Affiliation(s)
- Souvik Ghosh
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| | - Mathieu G. Baltussen
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| | - Nikita M. Ivanov
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| | - Rianne Haije
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| | - Miglė Jakštaitė
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| | - Tao Zhou
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| | - Wilhelm T. S. Huck
- Institute for Molecules and
Materials, Radboud University, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands
| |
Collapse
|
4
|
Kassem R, Cousin A, Clesse D, Poignavent V, Trolet A, Ritzenthaler C, Michon T, Chovin A, Demaille C. Nanobody-guided redox and enzymatic functionalization of icosahedral virus particles for enhanced bioelectrocatalysis. Bioelectrochemistry 2024; 155:108570. [PMID: 37769510 DOI: 10.1016/j.bioelechem.2023.108570] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Revised: 09/07/2023] [Accepted: 09/11/2023] [Indexed: 10/03/2023]
Abstract
Icosahedral, 30 nm diameter, grapevine fanleaf virus (GFLV) virus particles are adsorbed onto electrodes and used as nanoscaffolds for the assembly of an integrated glucose oxidizing system, comprising the enzyme pyrroloquinoline quinone-glucose dehydrogenase (PQQ-GDH) and ferrocenylated polyethylene glycol chains (Fc-PEG) as a redox co-substrate. Two different GFLV-specific nanobodies, either fused to the enzyme, or chemically conjugated to Fc-PEG, are used for the regio-selective immunodecoration of the viral particles. A comprehensive kinetic characterization of the enzymatic function of the particles, initially decorated with the enzyme alone shows that simple immobilization on the GFLV capsid has no effect on the kinetic scheme of the enzyme, nor on its catalytic activity. However, we find that co-immobilization of the enzyme and the Fc-PEG co-substrate on GFLV does induce enzymatic enhancement, by promoting cooperativity between the two subunits of the homodimeric enzyme, via "synchronization" of their redox state. A decrease in inhibition of the enzyme by its substrate (glucose) is also observed.
Collapse
Affiliation(s)
- Racha Kassem
- Université Paris Cité, CNRS, Laboratoire d'Electrochimie Moléculaire, F-75013 Paris, France
| | - Anne Cousin
- Institut de Biologie Moléculaire des Plantes, UPR2357 du Centre National de la Recherche Scientifique, Université de Strasbourg, F-67084 Strasbourg, France
| | - Daniel Clesse
- Institut de Biologie Moléculaire des Plantes, UPR2357 du Centre National de la Recherche Scientifique, Université de Strasbourg, F-67084 Strasbourg, France
| | - Vianney Poignavent
- Institut de Biologie Moléculaire des Plantes, UPR2357 du Centre National de la Recherche Scientifique, Université de Strasbourg, F-67084 Strasbourg, France
| | - Adrien Trolet
- Institut de Biologie Moléculaire des Plantes, UPR2357 du Centre National de la Recherche Scientifique, Université de Strasbourg, F-67084 Strasbourg, France
| | - Christophe Ritzenthaler
- Institut de Biologie Moléculaire des Plantes, UPR2357 du Centre National de la Recherche Scientifique, Université de Strasbourg, F-67084 Strasbourg, France.
| | - Thierry Michon
- Université de Bordeaux, Biologie du Fruit et Pathologie, INRA UMR 1332, F-33140 Villenave d'Ornon, France.
| | - Arnaud Chovin
- Université Paris Cité, CNRS, Laboratoire d'Electrochimie Moléculaire, F-75013 Paris, France.
| | - Christophe Demaille
- Université Paris Cité, CNRS, Laboratoire d'Electrochimie Moléculaire, F-75013 Paris, France.
| |
Collapse
|
5
|
Chu GB, Li WY, Han XX, Sun HH, Han Y, Zhi GY, Zhang DH. Co-Immobilization of GOD & HRP on Y-Shaped DNA Scaffold and the Regulation of Inter-Enzyme Distance. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2023:e2301413. [PMID: 36929203 DOI: 10.1002/smll.202301413] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Indexed: 06/18/2023]
Abstract
In multienzymes cascade reaction, the inter-enzyme spacing is supposed to be a factor affecting the cascade activity. Here, a simple and efficient Y-shaped DNA scaffold is assembled using two partially complementary DNA single strands on magnetic microspheres, which is used to coimmobilize glucose oxidase (GOD) and horseradish peroxidase (HRP). As a result, on poly(vinyl acetate) magnetic microspheres (PVAC), GOD/HRP-DNA@PVAC multienzyme system is obtained, which can locate GOD and HRP accurately and control the inter-enzyme distance precisely. The distance between GOD and HRP is regulated by changing the length of DNA strand. It showed that the cascade activity is significantly distance-dependent. Moreover, the inter-enzyme spacing is not the closer the better, and too short distance would generate steric hindrance between enzymes. The cascade activity reached the maximum value of 967 U mg-1 at 13.6 nm, which is 3.5 times higher than that of free enzymes. This is ascribed to the formation of substrate channeling.
Collapse
Affiliation(s)
- Guan-Bo Chu
- College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
| | - Wen-Yu Li
- College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
| | - Xiao-Xia Han
- College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
| | - Hui-Huang Sun
- College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
| | - Yu Han
- College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
| | - Gao-Ying Zhi
- Department of Computer Teaching, Hebei University, Baoding, 071002, P. R. China
| | - Dong-Hao Zhang
- College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
- Key Laboratory of Pharmaceutical Quality Control of Hebei Province, College of Pharmaceutical Science, Hebei University, Baoding, 071002, P. R. China
- Institute of Life Science and Green Development, Hebei University, Baoding, 071002, P. R. China
| |
Collapse
|
6
|
Li SF, Cheng F, Wang YJ, Zheng YG. Strategies for tailoring pH performances of glycoside hydrolases. Crit Rev Biotechnol 2023; 43:121-141. [PMID: 34865578 DOI: 10.1080/07388551.2021.2004084] [Citation(s) in RCA: 17] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Glycoside hydrolases (GHs) exhibit high activity and stability under harsh conditions, such as high temperatures and extreme pHs, given their wide use in industrial biotechnology. However, strategies for improving the acidophilic and alkalophilic adaptations of GHs are poorly summarized due to the complexity of the mechanisms of these adaptations. This review not only highlights the adaptation mechanisms of acidophilic and alkalophilic GHs under extreme pH conditions, but also summarizes the recent advances in engineering the pH performances of GHs with a focus on four strategies of protein engineering, enzyme immobilization, chemical modification, and medium engineering (additives). The examples described here summarize the methods used in modulating the pH performances of GHs and indicate that methods integrated in different protein engineering techniques or methods are efficient to generate industrial biocatalysts with the desired pH performance and other adapted enzyme properties.
Collapse
Affiliation(s)
- Shu-Fang Li
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, P. R. China.,Engineering Research Center of Bioconversion and Biopurification of the Ministry of Education, Zhejiang University of Technology, Hangzhou, Zhejiang, P. R. China.,The National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, P. R. China
| | - Feng Cheng
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, P. R. China.,Engineering Research Center of Bioconversion and Biopurification of the Ministry of Education, Zhejiang University of Technology, Hangzhou, Zhejiang, P. R. China.,The National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, P. R. China
| | - Ya-Jun Wang
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, P. R. China.,Engineering Research Center of Bioconversion and Biopurification of the Ministry of Education, Zhejiang University of Technology, Hangzhou, Zhejiang, P. R. China.,The National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, P. R. China
| | - Yu-Guo Zheng
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, P. R. China.,Engineering Research Center of Bioconversion and Biopurification of the Ministry of Education, Zhejiang University of Technology, Hangzhou, Zhejiang, P. R. China.,The National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, P. R. China
| |
Collapse
|
7
|
Popkov A, Su Z, Sigurdardóttir SB, Luo J, Malankowska M, Pinelo M. Engineering polyelectrolyte multilayer coatings as a strategy to optimize enzyme immobilization on a membrane support. Biochem Eng J 2023. [DOI: 10.1016/j.bej.2023.108838] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/11/2023]
|
8
|
Wang L, Lan H, Guan W, Han J, Liu Y, Wang Y, Mao Y, Wang Y. One-step Purification of Target Enzymes Using Interaction- and Structure-Based Design of Aptamer-Affinity Responsive Polymers: Selective Immobilization and Enhanced Stability. Sep Purif Technol 2022. [DOI: 10.1016/j.seppur.2022.122758] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
|
9
|
Zhou X, Zhou W, Zhuang W, Zhu C, Ying H, Zhang H. Enhanced production of cytidine 5'-monophosphate using biocatalysis of di-enzymes immobilized on amino-functionalized sepharose. Chin J Chem Eng 2022. [DOI: 10.1016/j.cjche.2022.11.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
|
10
|
Wang X, Han J, Pang S, Li J, Zhao J, Qin C, Yao S, Liu Y, Liang C. Structural enrichment and identification of lignin-carbohydrate complex in alkaline stabilized system. Carbohydr Polym 2022; 296:119873. [DOI: 10.1016/j.carbpol.2022.119873] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2022] [Revised: 07/11/2022] [Accepted: 07/12/2022] [Indexed: 11/26/2022]
|
11
|
Hong X, Cholko T, Chang CEA, Wheeldon I. Multiscale simulation-guided design of enzyme bioconjugates with enhanced catalysis. CHEM CATALYSIS 2022; 2:2691-2703. [PMID: 36569428 PMCID: PMC9784400 DOI: 10.1016/j.checat.2022.09.018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Biopolymer-scaffold modification is widely used to enhance enzyme catalysis. A central challenge is predicting the effects of scaffold position on enzyme properties. Here, we use a computational-experimental approach to develop a model for the effects of DNA scaffold position on enzyme kinetics. Using phosphotriesterase modified with a 20bp dsDNA, we demonstrate that conjugation position is as important as the scaffold's chemistry and structure. Multiscale simulations predict the effective substrate concentration increases close to the scaffold, which has μM-strength binding to the substrate. Kinetic analysis shows that the effective concentration that the scaffold provides is best utilized when positioned next to, but not blocking, the active site. At ~5Å distance between scaffold and active site a 7-fold increase in k cat /K M was achieved. A model that accounts for the substrate concentration as well PTE-DNA geometry accurately captures the kinetic enhancements, enabling prediction of the effect across a range of DNA positions.
Collapse
Affiliation(s)
- Xiao Hong
- Department of Biochemistry, University of California-Riverside, Riverside, CA, 92521
| | - Timothy Cholko
- Department of Chemistry, University of California-Riverside, Riverside, CA, 92521
| | - Chia-en A. Chang
- Department of Chemistry, University of California-Riverside, Riverside, CA, 92521
| | - Ian Wheeldon
- Department of Chemical and Environmental Engineering, University of California-Riverside, Riverside, CA, 92521
- Center for Industrial Biotechnology, University of California-Riverside, Riverside, CA, 92521
| |
Collapse
|
12
|
Hirschi S, Ward TR, Meier WP, Müller DJ, Fotiadis D. Synthetic Biology: Bottom-Up Assembly of Molecular Systems. Chem Rev 2022; 122:16294-16328. [PMID: 36179355 DOI: 10.1021/acs.chemrev.2c00339] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The bottom-up assembly of biological and chemical components opens exciting opportunities to engineer artificial vesicular systems for applications with previously unmet requirements. The modular combination of scaffolds and functional building blocks enables the engineering of complex systems with biomimetic or new-to-nature functionalities. Inspired by the compartmentalized organization of cells and organelles, lipid or polymer vesicles are widely used as model membrane systems to investigate the translocation of solutes and the transduction of signals by membrane proteins. The bottom-up assembly and functionalization of such artificial compartments enables full control over their composition and can thus provide specifically optimized environments for synthetic biological processes. This review aims to inspire future endeavors by providing a diverse toolbox of molecular modules, engineering methodologies, and different approaches to assemble artificial vesicular systems. Important technical and practical aspects are addressed and selected applications are presented, highlighting particular achievements and limitations of the bottom-up approach. Complementing the cutting-edge technological achievements, fundamental aspects are also discussed to cater to the inherently diverse background of the target audience, which results from the interdisciplinary nature of synthetic biology. The engineering of proteins as functional modules and the use of lipids and block copolymers as scaffold modules for the assembly of functionalized vesicular systems are explored in detail. Particular emphasis is placed on ensuring the controlled assembly of these components into increasingly complex vesicular systems. Finally, all descriptions are presented in the greater context of engineering valuable synthetic biological systems for applications in biocatalysis, biosensing, bioremediation, or targeted drug delivery.
Collapse
Affiliation(s)
- Stephan Hirschi
- Institute of Biochemistry and Molecular Medicine, University of Bern, Bühlstrasse 28, 3012 Bern, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Thomas R Ward
- Department of Chemistry, University of Basel, St. Johanns-Ring 19, 4056 Basel, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Wolfgang P Meier
- Department of Chemistry, University of Basel, St. Johanns-Ring 19, 4056 Basel, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Daniel J Müller
- Department of Biosystems Science and Engineering, ETH Zürich, Mattenstrasse 26, 4058 Basel, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Dimitrios Fotiadis
- Institute of Biochemistry and Molecular Medicine, University of Bern, Bühlstrasse 28, 3012 Bern, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| |
Collapse
|
13
|
Gao D, Song W, Wu J, Guo L, Gao C, Liu J, Chen X, Liu L. Efficient Production of L‐Homophenylalanine by Enzymatic‐Chemical Cascade Catalysis. Angew Chem Int Ed Engl 2022; 61:e202207077. [DOI: 10.1002/anie.202207077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Indexed: 11/06/2022]
Affiliation(s)
- Dengke Gao
- State Key Laboratory of Food Science and Technology Jiangnan University Wuxi 214122 China
| | - Wei Song
- School of Life Sciences and Health Engineering Jiangnan University Wuxi 214122 China
| | - Jing Wu
- School of Life Sciences and Health Engineering Jiangnan University Wuxi 214122 China
| | - Liang Guo
- State Key Laboratory of Food Science and Technology Jiangnan University Wuxi 214122 China
| | - Cong Gao
- State Key Laboratory of Food Science and Technology Jiangnan University Wuxi 214122 China
| | - Jia Liu
- State Key Laboratory of Food Science and Technology Jiangnan University Wuxi 214122 China
| | - Xiulai Chen
- State Key Laboratory of Food Science and Technology Jiangnan University Wuxi 214122 China
| | - Liming Liu
- State Key Laboratory of Food Science and Technology Jiangnan University Wuxi 214122 China
| |
Collapse
|
14
|
Redesigning Robust Biocatalysts by Engineering Enzyme Microenvironment and Enzyme Immobilization. Catal Letters 2022. [DOI: 10.1007/s10562-022-04137-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
|
15
|
Xiong Y, Tsitkov S, Hess H, Gang O, Zhang Y. Microscale Colocalization of Cascade Enzymes Yields Activity Enhancement. ACS NANO 2022; 16:10383-10391. [PMID: 35549238 DOI: 10.1021/acsnano.2c00475] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Colocalization of cascade enzymes is broadly discussed as a phenomenon that can boost the cascade reaction throughput, although a direct experimental verification is often challenging. This is mainly due to difficulties in establishing proper size regimes and in the analytical quantification of colocalization effect with adequate experimental systems and simulations. In this study, by taking advantage of reversible DNA-directed colocalization of enzymes on microspheres, we established a cascade system that can be used to directly evaluate the colocalization effect with exactly the same experimental settings except for the state of enzyme dispersion. In the regime of highly dilute microspheres of particular sizes, the colocalized cascade shows enhanced activity compared with the freely diffusing cascade, as evidenced by a shortened lag phase in the time-course production. Reaction-diffusion modeling reveals that the enhancement can be ascribed to the initial accumulation of intermediate substrate around the colocalized enzymes and is found to be carrier-size-dependent. This work demonstrates the dependence of the colocalization effect of enzyme cascades on an interplay of nano- and microscales, lending theoretical support to the rational design of highly efficient multienzyme catalysts.
Collapse
Affiliation(s)
- Yan Xiong
- Department of Chemical Engineering, Columbia University, New York, New York 10027, United States
| | - Stanislav Tsitkov
- Department of Biomedical Engineering, Columbia University, New York, New York 10027, United States
| | - Henry Hess
- Department of Biomedical Engineering, Columbia University, New York, New York 10027, United States
| | - Oleg Gang
- Department of Chemical Engineering, Columbia University, New York, New York 10027, United States
- Department of Applied Physics and Applied Mathematics, Columbia University, New York, New York 10027, United States
- Center for Functional Nanomaterials, Brookhaven National Laboratory, Upton, New York 11973, United States
| | - Yifei Zhang
- State Key Laboratory of Chemical Resource Engineering, Beijing University of Chemical Technology, Beijing 100029, China
- Beijing Advanced Innovation Center for Soft Matter Science and Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| |
Collapse
|
16
|
Efficient Production of L‐homophenylalanine by Enzymatic–Chemical Cascade Catalysis. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202207077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
|
17
|
Li W, Bilal M, Singh AK, Sher F, Ashraf SS, Franco M, Américo-Pinheiro JHP, Iqbal HMN. Broadening the Scope of Biocatalysis Engineering by Tailoring Enzyme Microenvironment: A Review. Catal Letters 2022. [DOI: 10.1007/s10562-022-04065-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
18
|
Luan P, Li Y, Huang C, Dong L, Ma T, Liu J, Gao J, Liu Y, Jiang Y. Design of De Novo Three-Enzyme Nanoreactors for Stereodivergent Synthesis of α-Substituted Cyclohexanols. ACS Catal 2022. [DOI: 10.1021/acscatal.2c02136] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Pengqian Luan
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Yongxing Li
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Chen Huang
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Lele Dong
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Teng Ma
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Jianqiao Liu
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Jing Gao
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Yunting Liu
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
| | - Yanjun Jiang
- School of Chemical Engineering and Technology, Hebei University of Technology, Tianjin 300130, China
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430062, China
| |
Collapse
|
19
|
Zhou W, Zhou X, Rao Y, Lin R, Ge L, Yang P, Zhang H, Zhu C, Ying H, Zhuang W. Stabilizing bienzymatic cascade catalysis via immobilization in ZIF-8/GO composites obtained by GO assisted co-growth. Colloids Surf B Biointerfaces 2022; 217:112585. [PMID: 35667201 DOI: 10.1016/j.colsurfb.2022.112585] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2022] [Revised: 05/13/2022] [Accepted: 05/16/2022] [Indexed: 10/18/2022]
Abstract
Enzyme catalysis has clear advantages in the process of oxidizing glucose to produce gluconic acid. In the enzyme cascade, the improvement of the cascade efficiency is desired but challenging. Graphene oxide (GO) and ZIF-8 composites as enzyme support offer the promising opportunity that not only the cascade efficiency can be improved by control the distance between two enzymes, but also the stability can be improved. Here, a new strategy of GO assisted co-growth of ZIF-8 and enzyme was carried in a one-pot synthesis. Glucose oxidase&catalase immobilized in the ZIF-8/GO composites can obtain 98% residual activity after 15 days of storage with almost no enzyme shedding. The residual activity is still higher than 75% after 5 repeated uses. The presented method of controllable growth of metal organic frameworks on 2D nanosheet can also be extended for renewable energy devices, gas storage and separation of small molecules.
Collapse
Affiliation(s)
- Wenfeng Zhou
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, National Engineering Technique Research Center for Biotechnology, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China
| | - Xiaohong Zhou
- School of Chemistry and Molecular Engineering, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China
| | - Yuan Rao
- School of Chemical Engineering, Zhengzhou University, Zhengzhou 450001, China
| | - Rijia Lin
- School of Chemical Engineering, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Lei Ge
- School of Chemical Engineering, The University of Queensland, St Lucia, QLD 4072, Australia; Centre for Future Materials, University of Southern Queensland, Springfield Central, QLD 4300, Australia
| | - Pengpeng Yang
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, National Engineering Technique Research Center for Biotechnology, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China
| | - Hongman Zhang
- School of Chemistry and Molecular Engineering, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China
| | - Chenjie Zhu
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, National Engineering Technique Research Center for Biotechnology, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China; Synergetic Innovation Center for Advanced Materials, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China
| | - Hanjie Ying
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, National Engineering Technique Research Center for Biotechnology, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China; Synergetic Innovation Center for Advanced Materials, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China
| | - Wei Zhuang
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, National Engineering Technique Research Center for Biotechnology, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China; Synergetic Innovation Center for Advanced Materials, Nanjing Tech University, No. 30, Puzhu South Road, Nanjing 211816, China.
| |
Collapse
|
20
|
Louisia S, Kim D, Li Y, Gao M, Yu S, Roh I, Yang P. The presence and role of the intermediary CO reservoir in heterogeneous electroreduction of CO 2. Proc Natl Acad Sci U S A 2022; 119:e2201922119. [PMID: 35486696 PMCID: PMC9171356 DOI: 10.1073/pnas.2201922119] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Accepted: 03/30/2022] [Indexed: 01/03/2023] Open
Abstract
SignificanceThe electroconversion of CO2 to value-added products is a promising path to sustainable fuels and chemicals. However, the microenvironment that is created during CO2 electroreduction near the surface of heterogeneous Cu electrocatalysts remains unknown. Its understanding can lead to the development of ways to improve activity and selectivity toward multicarbon products. This work introduces a method called on-stream substitution of reactant isotope that provides quantitative information of the CO intermediate species present on Cu surfaces during electrolysis. An intermediary CO reservoir that contains more CO molecules than typically expected in a surface adsorbed configuration was identified. Its size was shown to be a factor closely associated with the formation of multicarbon products.
Collapse
Affiliation(s)
- Sheena Louisia
- Department of Chemistry, University of California, Berkeley, CA 94720
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
| | - Dohyung Kim
- Department of Chemistry, University of California, Berkeley, CA 94720
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
- Department of Materials Science and Engineering, University of California, Berkeley, CA 94720
| | - Yifan Li
- Department of Chemistry, University of California, Berkeley, CA 94720
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
| | - Mengyu Gao
- Department of Materials Science and Engineering, University of California, Berkeley, CA 94720
| | - Sunmoon Yu
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
- Department of Materials Science and Engineering, University of California, Berkeley, CA 94720
| | - Inwhan Roh
- Department of Chemistry, University of California, Berkeley, CA 94720
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
| | - Peidong Yang
- Department of Chemistry, University of California, Berkeley, CA 94720
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
- Department of Materials Science and Engineering, University of California, Berkeley, CA 94720
- Kavli Energy NanoScience Institute, Berkeley, CA 94720
| |
Collapse
|
21
|
Chu X, Shi Q. Versatile magnetic nanoparticles for spatially organized assemblies of enzyme cascades: a comprehensive investigation of catalytic performance. CHINESE J CHEM 2022. [DOI: 10.1002/cjoc.202200018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Xinshuang Chu
- Department of Biochemical Engineering School of Chemical Engineering and Technology, Tianjin University Tianjin 300350 China
| | - Qinghong Shi
- Department of Biochemical Engineering School of Chemical Engineering and Technology, Tianjin University Tianjin 300350 China
- Key Laboratory of Systems Bioengineering and Frontiers Science Center for Synthetic Biology (Ministry of Education), Tianjin University Tianjin 300350 China
| |
Collapse
|
22
|
Ni J, Wan Y, Cai Y, Ding P, Cohen Stuart MA, Wang J. Synthesis of Anionic Nanogels for Selective and Efficient Enzyme Encapsulation. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:3234-3243. [PMID: 35212549 DOI: 10.1021/acs.langmuir.1c03325] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Polyelectrolyte nanogels containing cross-linked ionic polymer networks feature both soft environment and intrinsic charges which are of great potential for enzyme encapsulation. In this work, well-defined poly(acrylic acid) (PAA) nanogels have been synthesized based on a facile strategy, namely, electrostatic assembly directed polymerization (EADP). Specifically, AA monomers are polymerized together with a cross-linker in the presence of a cationic-neutral diblock copolymer as the template. Effects of control factors including pH, salt concentration, and cross-linking degree have been investigated systematically, based on which the optimal preparation of PAA nanogels has been established. The obtained nanogel features not only compatible pocket for safely loading enzymes without disturbing their structures, but also abundant negative charges which enable selective and efficient encapsulation of cationic enzymes. The loading capacities of PAA nanogels for cytochrome (cyt c) and lysozyme are 100 and 125 μg/mg (enzyme/nanogel), respectively. More notably, the PAA network seems to modulate a favorable microenvironment for cyt c and induces 2-fold enhanced activity for the encapsulated enzymes, as indicated by the steady-state kinetic assay. Our study reveals the control factors of EADP for optimal synthesis of anionic nanogels and validates their distinctive advances with respect to efficient loading and activation of cationic enzymes.
Collapse
Affiliation(s)
- Jiaying Ni
- Shanghai Key Laboratory of Multiphase Materials Chemical Engineering, East China University of Science and Technology, Shanghai 200237, People's Republic of China
| | - Yuting Wan
- Shanghai Key Laboratory of Multiphase Materials Chemical Engineering, East China University of Science and Technology, Shanghai 200237, People's Republic of China
| | - Ying Cai
- Shanghai Key Laboratory of Multiphase Materials Chemical Engineering, East China University of Science and Technology, Shanghai 200237, People's Republic of China
| | - Peng Ding
- Shanghai Key Laboratory of Multiphase Materials Chemical Engineering, East China University of Science and Technology, Shanghai 200237, People's Republic of China
| | - Martien A Cohen Stuart
- Shanghai Key Laboratory of Multiphase Materials Chemical Engineering, East China University of Science and Technology, Shanghai 200237, People's Republic of China
| | - Junyou Wang
- Shanghai Key Laboratory of Multiphase Materials Chemical Engineering, East China University of Science and Technology, Shanghai 200237, People's Republic of China
| |
Collapse
|
23
|
Paiva TO, Schneider A, Bataille L, Chovin A, Anne A, Michon T, Wege C, Demaille C. Enzymatic activity of individual bioelectrocatalytic viral nanoparticles: dependence of catalysis on the viral scaffold and its length. NANOSCALE 2022; 14:875-889. [PMID: 34985473 DOI: 10.1039/d1nr07445h] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The enzymatic activity of tobacco mosaic virus (TMV) nanorod particles decorated with an integrated electro-catalytic system, comprising the quinoprotein glucose-dehydrogenase (PQQ-GDH) enzyme and ferrocenylated PEG chains as redox mediators, is probed at the individual virion scale by atomic force microscopy-scanning electrochemical atomic force microscopy (AFM-SECM). A marked dependence of the catalytic activity on the particle length is observed. This finding can be explained by electron propagation along the viral backbone, resulting from electron exchange between ferrocene moieties, coupled with enzymatic catalysis. Thus, the use of a simple 1D diffusion/reaction model allows the determination of the kinetic parameters of the virus-supported enzyme. Comparative analysis of the catalytic behavior of the Fc-PEG/PQQ-GDH system assembled on two differing viral scaffolds, TMV (this work) and bacteriophage-fd (previous work), reveals two distinct kinetic effects of scaffolding: An enhancement of catalysis that does not depend on the virus type and a modulation of substrate inhibition that depends on the virus type. AFM-SECM detection of the enzymatic activity of a few tens of PQQ-GDH molecules, decorating a 40 nm-long viral domain, is also demonstrated, a record in terms of the lowest number of enzyme molecules interrogated by an electrochemical imaging technique.
Collapse
Affiliation(s)
- Telmo O Paiva
- Université de Paris, Laboratoire d'Electrochimie Moléculaire, CNRS UMR 7591, F-75013 Paris, France.
| | - Angela Schneider
- University of Stuttgart, Institute of Biomaterials and Biomolecular Systems, Research Unit Molecular and Synthetic Plant Virology, 70569 Stuttgart, Germany.
| | - Laure Bataille
- Université de Bordeaux, Biologie du Fruit et Pathologie, INRA UMR 1332, F-33140 Villenave d'Ornon, France.
| | - Arnaud Chovin
- Université de Paris, Laboratoire d'Electrochimie Moléculaire, CNRS UMR 7591, F-75013 Paris, France.
| | - Agnès Anne
- Université de Paris, Laboratoire d'Electrochimie Moléculaire, CNRS UMR 7591, F-75013 Paris, France.
| | - Thierry Michon
- Université de Bordeaux, Biologie du Fruit et Pathologie, INRA UMR 1332, F-33140 Villenave d'Ornon, France.
| | - Christina Wege
- University of Stuttgart, Institute of Biomaterials and Biomolecular Systems, Research Unit Molecular and Synthetic Plant Virology, 70569 Stuttgart, Germany.
| | - Christophe Demaille
- Université de Paris, Laboratoire d'Electrochimie Moléculaire, CNRS UMR 7591, F-75013 Paris, France.
| |
Collapse
|
24
|
Li D, Xiong Q, Liang L, Duan H. Multienzyme nanoassemblies: from rational design to biomedical applications. Biomater Sci 2021; 9:7323-7342. [PMID: 34647942 DOI: 10.1039/d1bm01106e] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Multienzyme nanoassemblies (MENAs) that combine the functions of several enzymes into one entity have attracted widespread research interest due to their improved enzymatic performance and great potential for multiple applications. Considerable progress has been made to design and fabricate MENAs in recent years. This review begins with an introduction of the up-to-date strategies in designing MENAs, mainly including substrate channeling, compartmentalization and control of enzyme stoichiometry. The desirable properties that endow MENAs with important applications are also discussed in detail. Then, the recent advances in utilizing MENAs in the biomedical field are reviewed, with a particular focus on biosensing, tumor therapy, antioxidant and drug delivery. Finally, the challenges and perspectives for development of versatile MENAs are summarized.
Collapse
Affiliation(s)
- Di Li
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu 214122, China. .,School of Chemical and Biomedical Engineering, Nanyang Technological University, 70 Nanyang Drive, Singapore 637457, Singapore. .,School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu 214122, China
| | - Qirong Xiong
- School of Chemical and Biomedical Engineering, Nanyang Technological University, 70 Nanyang Drive, Singapore 637457, Singapore.
| | - Li Liang
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu 214122, China. .,School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu 214122, China
| | - Hongwei Duan
- School of Chemical and Biomedical Engineering, Nanyang Technological University, 70 Nanyang Drive, Singapore 637457, Singapore.
| |
Collapse
|
25
|
Cen YK, Gong H, Xue YP, Zheng YG. Biosynthesis of l-phosphinothricin with enzymes from chromosomal integrated expression in E. coli. 3 Biotech 2021; 11:477. [PMID: 34777934 DOI: 10.1007/s13205-021-03037-7] [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: 05/24/2021] [Accepted: 10/18/2021] [Indexed: 11/25/2022] Open
Abstract
Phosphinothricin (PPT) is one of the most prevalently using herbicides. The commercial phosphinothricin products are generally in the form of a racemic mixture, of which only the l-phosphinothricin (L-PPT) gives herbicidal function. Synthesis of optically pure L-PPT by deracemization of D/L-PPT is a promising way to cut down the environmental burden and manufacturing cost. To convert D/L-PPT to L-PPT, we expressed the catalytic enzymes by genomic integration in E. coli. The whole production was implemented in two steps in one pot using four catalytic enzymes, namely d-amino acid oxidase, catalase, glutamate dehydrogenase, and glucose dehydrogenase. Finally, after a series of process optimization, the results showed that with our system the overall L-PPT yield reached 86%. Our study demonstrated a new strategy for L-PPT synthesis, based on enzymes from chromosomal integrated expression, which does not depend on antibiotic selection, and shows a high potential for future industrial application.
Collapse
Affiliation(s)
- Yu-Ke Cen
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, 310014 China
- Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou, 310014 China
- National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, 310014 People's Republic of China
| | - Huo Gong
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, 310014 China
- Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou, 310014 China
- National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, 310014 People's Republic of China
| | - Ya-Ping Xue
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, 310014 China
- Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou, 310014 China
- National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, 310014 People's Republic of China
| | - Yu-Guo Zheng
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou, 310014 China
- Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou, 310014 China
- National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou, 310014 People's Republic of China
| |
Collapse
|
26
|
Modulating the biofunctionality of enzyme-MOF nanobiocatalyst through structure-switching aptamer for continuous degradation of BPA. Colloids Surf B Biointerfaces 2021; 208:112099. [PMID: 34536675 DOI: 10.1016/j.colsurfb.2021.112099] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2021] [Revised: 08/31/2021] [Accepted: 09/04/2021] [Indexed: 11/22/2022]
Abstract
Encapsulating enzyme within MOF (enzyme-MOF) gives rise to new opportunity to improve the fragility of enzyme, but practical application of enzyme-MOF composite is far from being realized. The development of a novel enzyme-MOF composite system should simultaneously guarantee the enhanced activity and controllably complete recycling, and only in this way can we efficiently and economically utilize the enzyme-MOF composite. Herein, we addressed all these fundamental limitations of current enzyme-MOF composite by establishing aptamer-functionalized enzyme-MOF composite (HRP-ZIF-8@P1). HRP-ZIF-8@P1 relied on automatic structure switch of aptamer-target binding and aptamer-cDNA (complementary DNA) hybridization, achieving effectiveness in self-enriching substrate around HRP-ZIF-8@P1 to boost enzymatic activity first, subsequently hybridizing spontaneously with magnetically controllable cDNA sequence (Fe3O4@P3) to completely recover the HRP-ZIF-8@P1, where preferentially capturing substrate could further induce the release of the hybridized HRP-ZIF-8@P1 for automatically starting the cyclic enzyme catalysis. A 5.6-fold enhancement in the catalytic efficiency for BPA degradation was endowed, and 94.7% catalytic activity was retained for 8 consecutive degradations of BPA, both of which were even more significant than HRP-ZIF-8. Additionally, remarkable stability of HRP-ZIF-8@P1 was afforded by dual-layer protection of ZIF-8 and P1 in denaturing conditions. Taking the possibility of discovering an aptamer for any target into account, the aptamer-functionalized enzyme-MOF composites provide a generic and simple guide for simultaneously boosting enzymatic activity and controllably full recycling the enzyme-MOF systems, accelerating their commercial utilizations.
Collapse
|
27
|
Abdallah W, Hong X, Banta S, Wheeldon I. Microenvironmental effects can masquerade as substrate channelling in cascade biocatalysis. Curr Opin Biotechnol 2021; 73:233-239. [PMID: 34521036 DOI: 10.1016/j.copbio.2021.08.014] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Revised: 08/16/2021] [Accepted: 08/17/2021] [Indexed: 12/15/2022]
Abstract
Natural cascades frequently use spatial organization to introduce beneficial substrate channeling mechanisms, a strategy that has been widely mimicked in many engineered multienzyme cascades with enhanced catalysis. Enabled by new molecular scaffolds it is now possible to test the effects of spatial organization on cascade kinetics; however, these scaffolds can also alter the microenvironment experienced by the assembled enzymes. We know from decades of enzyme immobilization research that the microenvironment affects enzymatic activity, thus complicating kinetic analysis. Here, we review these effects and discuss examples that exploit the microenvironment to improve single enzyme and cascade catalysis. In doing so, we highlight the challenges in ascribing kinetic enhancements directly to substrate channeling without first determining the effects of the microenvironment.
Collapse
Affiliation(s)
- Walaa Abdallah
- Chemical Engineering, Manhattan College, Bronx, 10463 NY, USA.
| | - Xiao Hong
- Biochemistry, University of California-Riverside, Riverside, 92521 CA, USA
| | - Scott Banta
- Chemical Engineering, Columbia University, NY, 10027 NY, USA
| | - Ian Wheeldon
- Chemical and Environmental Engineering, University of California-Riverside, Riverside, 92521 CA, USA.
| |
Collapse
|
28
|
Zhou X, Wan N, Li Y, Ma R, Cui B, Han W, Chen Y. Stereoselective Synthesis of Enantiopure Oxazolidinones via Biocatalytic Asymmetric Aminohydroxylation of Alkenes. Adv Synth Catal 2021. [DOI: 10.1002/adsc.202100468] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Xiao‐Ying Zhou
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| | - Nan‐Wei Wan
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| | - Ying‐Na Li
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| | - Ran Ma
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| | - Bao‐Dong Cui
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| | - Wen‐Yong Han
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| | - Yong‐Zheng Chen
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou Province Generic Drug Research Center of Guizhou Province Green Pharmaceuticals Engineering Research Center of Guizhou Province School of Pharmacy Zunyi Medical University 563000 Zunyi People's Republic of China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education Zunyi Medical University 563000 Zunyi People's Republic of China
| |
Collapse
|
29
|
Omidvar M, Zdarta J, Sigurdardóttir SB, Pinelo M. Mimicking natural strategies to create multi-environment enzymatic reactors: From natural cell compartments to artificial polyelectrolyte reactors. Biotechnol Adv 2021; 54:107798. [PMID: 34265377 DOI: 10.1016/j.biotechadv.2021.107798] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Revised: 06/09/2021] [Accepted: 07/07/2021] [Indexed: 12/28/2022]
Abstract
Engineering microenvironments for sequential enzymatic reactions has attracted specific interest within different fields of research as an effective strategy to improve the catalytic performance of enzymes. While in industry most enzymatic reactions occur in a single compartment carrier, living cells are however able to conduct multiple reactions simultaneously within confined sub-compartments, or organelles. Engineering multi-compartments with regulated environments and transformation properties enhances enzyme activity and stability and thus increases the overall yield of final products. In this review, we discuss current and potential methods to fabricate artificial cells for sequential enzymatic reactions, which are inspired by mechanisms and metabolic pathways developed by living cells. We aim to advance the understanding of living cell complexity and its compartmentalization and present solutions to mimic these processes in vitro. Particular attention has been given to layer-by-layer assembly of polyelectrolytes for developing multi-compartments. We hope this review paves the way for the next steps toward engineering of smart artificial multi-compartments with adoptive stimuli-responsive properties, mimicking living cells to improve catalytic properties and efficiency of the enzymes and enhance their stability.
Collapse
Affiliation(s)
- Maryam Omidvar
- Process and Systems Engineering Centre, Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark
| | - Jakub Zdarta
- Process and Systems Engineering Centre, Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark; Institute of Chemical Technology and Engineering, Faculty of Chemical Technology, Poznan University of Technology, 60965 Poznan, Poland
| | - Sigyn Björk Sigurdardóttir
- Process and Systems Engineering Centre, Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark
| | - Manuel Pinelo
- Process and Systems Engineering Centre, Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark.
| |
Collapse
|
30
|
Wang J, Zhang H, Yin D, Xu X, Tan T, Lv Y. Boosted activity by engineering the enzyme microenvironment in cascade reaction: A molecular understanding. Synth Syst Biotechnol 2021; 6:163-172. [PMID: 34278014 PMCID: PMC8271104 DOI: 10.1016/j.synbio.2021.06.004] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2021] [Revised: 06/06/2021] [Accepted: 06/24/2021] [Indexed: 11/19/2022] Open
Abstract
Engineering of enzyme microenvironment can surprisingly boost the apparent activity. However, the underlying regulation mechanism is not well-studied at a molecular level so far. Here, we present a modulation of two model enzymes of cytochrome c (Cty C) and d-amino acid oxidase (DAAO) with opposite pH-activity profiles using ionic polymers. The operational pH of poly (acrylic acid) modified Cyt C and polyallylamine modified DAAO was extended to 3–7 and 2–10 where the enzyme activity was larger than that at their optimum pH of 4.5 and 8.5 by 106% and 28%, respectively. The cascade reaction catalyzed by two modified enzymes reveals a 1.37-fold enhancement in catalytic efficiency compared with their native counterparts. The enzyme activity boosting is understood by performing the UV–vis/CD spectroscopy and molecular dynamics simulations in the atomistic level. The increased activity is ascribed to the favorable microenvironment in support of preserving enzyme native structures nearby cofactor under external perturbations.
Collapse
Affiliation(s)
- Jing Wang
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Haiyang Zhang
- Department of Biological Science and Engineering, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing, 100083, China
| | - Deping Yin
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Xiao Xu
- School of Chemical Engineering, Nanjing University of Science and Technology, Nanjing, 210094, China
| | - Tianwei Tan
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Yongqin Lv
- Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, China
- Corresponding author.
| |
Collapse
|
31
|
Zheng L, Jiang B, Chen J, Zhang T, Gu X, Pan Y. Efficient biotransformation and synergetic mechanism of dual-enzyme cascade reaction in nonreducing maltoheptaose synthesis. FOOD BIOSCI 2021. [DOI: 10.1016/j.fbio.2021.101066] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
|
32
|
Van der Verren M, Smeets V, Vander Straeten A, Dupont-Gillain C, Debecker DP. Hybrid chemoenzymatic heterogeneous catalyst prepared in one step from zeolite nanocrystals and enzyme-polyelectrolyte complexes. NANOSCALE ADVANCES 2021; 3:1646-1655. [PMID: 36132563 PMCID: PMC9417918 DOI: 10.1039/d0na00834f] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/08/2020] [Revised: 03/25/2021] [Accepted: 01/30/2021] [Indexed: 05/04/2023]
Abstract
The combination of inorganic heterogeneous catalysts and enzymes, in so-called hybrid chemoenzymatic heterogeneous catalysts (HCEHCs), is an attractive strategy to effectively run chemoenzymatic reactions. Yet, the preparation of such bifunctional materials remains challenging because both the inorganic and the biological moieties must be integrated in the same solid, while preserving their intrinsic activity. Combining an enzyme and a zeolite, for example, is complicated because the pores of the zeolite are too small to accommodate the enzyme and a covalent anchorage on the surface is often ineffective. Herein, we developed a new pathway to prepare a nanostructured hybrid catalyst built from glucose oxidase and TS-1 zeolite. Such hybrid material can catalyse the in situ biocatalytic formation of H2O2, which is subsequently used by the zeolite to trigger the epoxidation of allylic alcohol. Starting from an enzymatic solution and a suspension of zeolite nanocrystals, the hybrid catalyst is obtained in one step, using a continuous spray drying method. While enzymes are expectedly unable to resist the conditions used in spray drying (temperature, shear stress, etc.), we leverage on the preparation of "enzyme-polyelectrolyte complexes" (EPCs) to increase the enzyme stability. Interestingly, the use of EPCs also prevents enzyme leaching and appears to stabilize the enzyme against pH changes. We show that the one-pot preparation by spray drying gives access to hybrid chemoenzymatic heterogeneous catalysts with unprecedented performance in the targeted chemoenzymatic reaction. The bifunctional catalyst performs much better than the two catalysts operating as separate entities. We anticipate that this strategy could be used as an adaptable method to prepare other types of multifunctional materials starting from a library of functional nanobuilding blocks and biomolecules.
Collapse
Affiliation(s)
- Margot Van der Verren
- Institute of Condensed Matter and Nanosciences, UCLouvain Place Louis Pasteur 1 1348 Louvain-la-Neuve Belgium
| | - Valentin Smeets
- Institute of Condensed Matter and Nanosciences, UCLouvain Place Louis Pasteur 1 1348 Louvain-la-Neuve Belgium
| | - Aurélien Vander Straeten
- Institute of Condensed Matter and Nanosciences, UCLouvain Place Louis Pasteur 1 1348 Louvain-la-Neuve Belgium
| | - Christine Dupont-Gillain
- Institute of Condensed Matter and Nanosciences, UCLouvain Place Louis Pasteur 1 1348 Louvain-la-Neuve Belgium
| | - Damien P Debecker
- Institute of Condensed Matter and Nanosciences, UCLouvain Place Louis Pasteur 1 1348 Louvain-la-Neuve Belgium
| |
Collapse
|
33
|
Waghwani HK, Douglas T. Cytochrome C with peroxidase-like activity encapsulated inside the small DPS protein nanocage. J Mater Chem B 2021; 9:3168-3179. [PMID: 33885621 DOI: 10.1039/d1tb00234a] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Nature utilizes self-assembled protein-based structures as subcellular compartments in prokaryotes to sequester catalysts for specialized biochemical reactions. These protein cage structures provide unique isolated environments for the encapsulated enzymes. Understanding these systems is useful in the bioinspired design of synthetic catalytic organelle-like nanomaterials. The DNA binding protein from starved cells (Dps), isolated from Sulfolobus solfataricus, is a 9 nm dodecameric protein cage making it the smallest known naturally occurring protein cage. It is naturally over-expressed in response to oxidative stress. The small size, natural biodistribution to the kidney, and ability to cross the glomerular filtration barrier in in vivo experiments highlight its potential as a synthetic antioxidant. Cytochrome C (CytC) is a small heme protein with peroxidase-like activity involved in the electron transport chain and also plays a critical role in cellular apoptosis. Here we report the encapsulation of CytC inside the 5 nm interior cavity of Dps and demonstrate the catalytic activity of the resultant Dps nanocage with enhanced antioxidant behavior. The small cavity can accommodate a single CytC and this was achieved through self-assembly of chimeric cages comprising Dps subunits and a Dps subunit to which the CytC was fused. For selective isolation of CytC containing Dps cages, we utilized engineered polyhistidine tag present only on the enzyme fused Dps subunits (6His-Dps-CytC). The catalytic activity of encapsulated CytC was studied using guaiacol and 3,3',5,5'-tetramethylbenzidine (TMB) as two different peroxidase substrates and compared to the free (unencapsulated) CytC activity. The encapsulated CytC showed better pH dependent catalytic activity compared to free enzyme and provides a proof-of-concept model to engineer these small protein cages for their potential as catalytic nanoreactors.
Collapse
Affiliation(s)
- Hitesh Kumar Waghwani
- Department of Chemistry, Indiana University, 800 E Kirkwood Ave., Bloomington, Indiana 47405, USA.
| | | |
Collapse
|
34
|
Rymarchyk S, Kang W, Cen Y. Substrate-Dependent Sensitivity of SIRT1 to Nicotinamide Inhibition. Biomolecules 2021; 11:312. [PMID: 33670751 PMCID: PMC7922766 DOI: 10.3390/biom11020312] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Revised: 02/12/2021] [Accepted: 02/16/2021] [Indexed: 12/12/2022] Open
Abstract
SIRT1 is the most extensively studied human sirtuin with a broad spectrum of endogenous targets. It has been implicated in the regulation of a myriad of cellular events, such as gene transcription, mitochondria biogenesis, insulin secretion as well as glucose and lipid metabolism. From a mechanistic perspective, nicotinamide (NAM), a byproduct of a sirtuin-catalyzed reaction, reverses a reaction intermediate to regenerate NAD+ through "base exchange", leading to the inhibition of the forward deacetylation. NAM has been suggested as a universal sirtuin negative regulator. Sirtuins have evolved different strategies in response to NAM regulation. Here, we report the detailed kinetic analysis of SIRT1-catalyzed reactions using endogenous substrate-based synthetic peptides. A novel substrate-dependent sensitivity of SIRT1 to NAM inhibition was observed. Additionally, SIRT1 demonstrated pH-dependent deacetylation with normal solvent isotope effects (SIEs), consistent with proton transfer in the rate-limiting step. Base exchange, in contrast, was insensitive to pH changes with no apparent SIEs, indicative of lack of proton transfer in the rate-limiting step. Consequently, NAM inhibition was attenuated at a high pH in proteated buffers. Our study provides new evidence for "activation by de-repression" as an effective sirtuin activation strategy.
Collapse
Affiliation(s)
- Stacia Rymarchyk
- Department of Pharmaceutical Sciences, Albany College of Pharmacy and Health Sciences, Colchester, VT 05446, USA;
| | - Wenjia Kang
- Department of Medicinal Chemistry, Virginia Commonwealth University, Richmond, VA 23219, USA;
| | - Yana Cen
- Department of Medicinal Chemistry, Virginia Commonwealth University, Richmond, VA 23219, USA;
- Institute for Structural Biology, Drug Discovery and Development, Virginia Commonwealth University, Richmond, VA 23219, USA
| |
Collapse
|
35
|
Dubey NC, Tripathi BP. Nature Inspired Multienzyme Immobilization: Strategies and Concepts. ACS APPLIED BIO MATERIALS 2021; 4:1077-1114. [PMID: 35014469 DOI: 10.1021/acsabm.0c01293] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
In a biological system, the spatiotemporal arrangement of enzymes in a dense cellular milieu, subcellular compartments, membrane-associated enzyme complexes on cell surfaces, scaffold-organized proteins, protein clusters, and modular enzymes have presented many paradigms for possible multienzyme immobilization designs that were adapted artificially. In metabolic channeling, the catalytic sites of participating enzymes are close enough to channelize the transient compound, creating a high local concentration of the metabolite and minimizing the interference of a competing pathway for the same precursor. Over the years, these phenomena had motivated researchers to make their immobilization approach naturally realistic by generating multienzyme fusion, cluster formation via affinity domain-ligand binding, cross-linking, conjugation on/in the biomolecular scaffold of the protein and nucleic acids, and self-assembly of amphiphilic molecules. This review begins with the discussion of substrate channeling strategies and recent empirical efforts to build it synthetically. After that, an elaborate discussion covering prevalent concepts related to the enhancement of immobilized enzymes' catalytic performance is presented. Further, the central part of the review summarizes the progress in nature motivated multienzyme assembly over the past decade. In this section, special attention has been rendered by classifying the nature-inspired strategies into three main categories: (i) multienzyme/domain complex mimic (scaffold-free), (ii) immobilization on the biomolecular scaffold, and (iii) compartmentalization. In particular, a detailed overview is correlated to the natural counterpart with advances made in the field. We have then discussed the beneficial account of coassembly of multienzymes and provided a synopsis of the essential parameters in the rational coimmobilization design.
Collapse
Affiliation(s)
- Nidhi C Dubey
- Institute of Molecular Medicine, Jamia Hamdard, New Delhi 110062, India
| | - Bijay P Tripathi
- Department of Materials Science and Engineering, Indian institute of Technology Delhi, New Delhi 110016, India
| |
Collapse
|
36
|
Calzini MA, Malico AA, Mitchler MM, Williams GJ. Protein engineering for natural product biosynthesis and synthetic biology applications. Protein Eng Des Sel 2021; 34:gzab015. [PMID: 34137436 PMCID: PMC8209613 DOI: 10.1093/protein/gzab015] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2021] [Revised: 05/12/2021] [Accepted: 05/17/2021] [Indexed: 11/14/2022] Open
Abstract
As protein engineering grows more salient, many strategies have emerged to alter protein structure and function, with the goal of redesigning and optimizing natural product biosynthesis. Computational tools, including machine learning and molecular dynamics simulations, have enabled the rational mutagenesis of key catalytic residues for enhanced or altered biocatalysis. Semi-rational, directed evolution and microenvironment engineering strategies have optimized catalysis for native substrates and increased enzyme promiscuity beyond the scope of traditional rational approaches. These advances are made possible using novel high-throughput screens, including designer protein-based biosensors with engineered ligand specificity. Herein, we detail the most recent of these advances, focusing on polyketides, non-ribosomal peptides and isoprenoids, including their native biosynthetic logic to provide clarity for future applications of these technologies for natural product synthetic biology.
Collapse
Affiliation(s)
- Miles A Calzini
- Department of Chemistry, NC State University, Raleigh, NC 27695-8204, USA
| | - Alexandra A Malico
- Department of Chemistry, NC State University, Raleigh, NC 27695-8204, USA
| | - Melissa M Mitchler
- Department of Chemistry, NC State University, Raleigh, NC 27695-8204, USA
| | - Gavin J Williams
- Department of Chemistry, NC State University, Raleigh, NC 27695-8204, USA
- Comparative Medicine Institute, NC State University Raleigh, Raleigh, NC 27695-8204, USA
| |
Collapse
|
37
|
An ATP-free in vitro synthetic enzymatic biosystem facilitating one-pot stoichiometric conversion of starch to mannitol. Appl Microbiol Biotechnol 2021; 105:1913-1924. [PMID: 33544214 DOI: 10.1007/s00253-021-11154-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2020] [Revised: 01/16/2021] [Accepted: 01/28/2021] [Indexed: 01/05/2023]
Abstract
D-Mannitol (hereinafter as mannitol) is a six-carbon sugar alcohol with diverse applications in food and pharmaceutical industries. To overcome the drawbacks of the chemical hydrogenation method commonly used for mannitol production at present, there is a need to search for novel prospective mannitol production strategies that are of high yield and low cost. In this study, we present a novel approach for the stoichiometric synthesis of mannitol via an in vitro synthetic enzymatic biosystem using the low-cost starch as substrate. By dividing the overall reaction pathway into three modules which could be executed sequentially in one pot, our design aimed at the stoichiometric conversion of starch-based materials into mannitol in an ATP-independent and cofactor-balanced manner. At optimized conditions, high product yields of around 95-98% were achieved using both 10 g/L and 50 g/L maltodextrin as substrate, indicating the potential of our designed system for industrial applications. This study not only provides a high-efficient strategy for the synthesis of mannitol but also expands the product scope of sugar alcohols by the in vitro synthetic enzymatic biosystems using low-cost starch-based materials as the input. KEY POINTS : • We described a design-build-test-learn pipeline to construct in vitro biosystems. • The designed system comprised six key enzymes and another three enzymes. • The system converted maltodextrin stoichiometrically to mannitol in one pot.
Collapse
|
38
|
Jia W, Li H, Wang Q, Zheng K, Lin H, Li X, Huang J, Xu L, Dong W, Shu Z. Screening of perhydrolases to optimize glucose oxidase-perhydrolase-in situ chemical oxidation cascade reaction system and its application in melanin decolorization. J Biotechnol 2021; 328:106-114. [PMID: 33485863 DOI: 10.1016/j.jbiotec.2021.01.013] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Revised: 01/02/2021] [Accepted: 01/12/2021] [Indexed: 10/22/2022]
Abstract
A novel glucose oxidase (GOD)-perhydrolase-in situ chemical oxidation (ISCO) cascade reaction system was designed, optimized, and verified the operation feasibility in this research. Among the determined four perhydrolases, acyltransferase from Mycobacterium smegmatis (MsAcT) displayed the highest specific activity for perhydrolysis reaction (76.4 U/mg) and the lowest Km value to hydrogen peroxide (13.9 mmol/L). GOD-MsAcT cascade reaction system also displayed high catalytic efficiency. Under the optimal parameters (50:1 activity unit ratio of GOD to MsAcT, pH 8.0, 50 mmol/L of β-d-glucose, and 15 mmol/L of glyceryl triacetate), the melanin decolorization rate using GOD-MsAcT-ISCO cascade reaction system reached 86.8 %. Kinetics of GOD-MsAcT-ISCO cascade reaction system for melanin decolorization fitted the kinetic model of Boltzmann sigmoid. As a substitutive skin whitening technology, GOD-MsAcT-ISCO cascade reaction system displayed an excellent application prospect.
Collapse
Affiliation(s)
- Wenjing Jia
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Huan Li
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Qian Wang
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Kaixuan Zheng
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, Fujian Normal University, Fuzhou, 350117, China
| | - Hong Lin
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Xin Li
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Jianzhong Huang
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China.
| | - Linting Xu
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Wanqian Dong
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China
| | - Zhengyu Shu
- National & Local United Engineering Research Center of Industrial Microbiology and Fermentation Technology, Ministry of Education, Fujian Normal University, Fuzhou, 350117, China; College of Life Sciences, Fujian Normal University (Qishan Campus), Fuzhou, 350117, China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, Fujian Normal University, Fuzhou, 350117, China.
| |
Collapse
|
39
|
The power of electrified nanoconfinement for energising, controlling and observing long enzyme cascades. Nat Commun 2021; 12:340. [PMID: 33436601 PMCID: PMC7804111 DOI: 10.1038/s41467-020-20403-w] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Accepted: 11/24/2020] [Indexed: 01/28/2023] Open
Abstract
Multistep enzyme-catalyzed cascade reactions are highly efficient in nature due to the confinement and concentration of the enzymes within nanocompartments. In this way, rates are exceptionally high, and loss of intermediates minimised. Similarly, extended enzyme cascades trapped and crowded within the nanoconfined environment of a porous conducting metal oxide electrode material form the basis of a powerful way to study and exploit myriad complex biocatalytic reactions and pathways. One of the confined enzymes, ferredoxin-NADP+ reductase, serves as a transducer, rapidly and reversibly recycling nicotinamide cofactors electrochemically for immediate delivery to the next enzyme along the chain, thereby making it possible to energize, control and observe extended cascade reactions driven in either direction depending on the electrode potential that is applied. Here we show as proof of concept the synthesis of aspartic acid from pyruvic acid or its reverse oxidative decarboxylation/deamination, involving five nanoconfined enzymes. Multistep enzymatic reactions (cascades) can be achieved by confining enzymes in synthetic materials, but ways to simultaneously energize, control and observe the reactions in real time are lacking. Here, bidirectional interconversion between aspartate and pyruvate by a five enzyme cascade trapped in electrode nanopores, addressable by laptop commands, is demonstrated.
Collapse
|
40
|
Rose HB, Wilber MM, Bommarius AS. Evaluation of ionic equilibria in mixed-buffer isothermal titration calorimetry and continuously stirred tank reactors. Int J Pharm 2020; 594:120170. [PMID: 33309829 DOI: 10.1016/j.ijpharm.2020.120170] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Revised: 11/18/2020] [Accepted: 12/07/2020] [Indexed: 12/01/2022]
Abstract
Determination of an equilibrium pH value in complex aqueous solution and deconvolution of this equilibrium to evaluate phenomena related to mixing, dilution, or progress of reaction is increasingly important in areas ranging from water quality to pharmaceutical formulations and manufacturing. Linearization of pH problems by simple algebraic substitution enables equilibria within complex buffered aqueous solutions to be modeled as an eigenvalue problem. This formulation approach makes rigorous determination of equilibrium pH values and reactor dynamics more accessible than with previous calculation methods, even when activity coefficients and non-ideality are considered. This work demonstrates how such calculations can enable detailed modeling of enthalpic changes in an isothermal titration calorimeter. In support of this work, the acid dissociation constants for three furancarboxylic acids (2-furancarboxylic acid, FA; 5-formyl-2-furancarboxylic acid, FFA; and 2,5-furandicarboxylic acid, FDCA), two of them novel, were determined and compared with multi-wavelength ultraviolet-visible spectrophotometry. The thermodynamic pKa values were determined to be 3.1 for FA, 2.2 for FFA, and 2.1 and 3.4 for the first and second ionization steps of FDCA, respectively.
Collapse
Affiliation(s)
- Harrison B Rose
- School of Chemical & Biomolecular Engineering, Krone Engineered Biosystems Building, Georgia Institute of Technology, Atlanta, GA 30332, United States
| | - Madison M Wilber
- School of Chemical & Biomolecular Engineering, Krone Engineered Biosystems Building, Georgia Institute of Technology, Atlanta, GA 30332, United States
| | - Andreas S Bommarius
- School of Chemical & Biomolecular Engineering, Krone Engineered Biosystems Building, Georgia Institute of Technology, Atlanta, GA 30332, United States; School of Chemistry & Biochemistry, Krone Engineered Biosystems Building, Georgia Institute of Technology, Atlanta, GA 30332, United States.
| |
Collapse
|
41
|
Cao CH, Gong H, Dong Y, Li JM, Cheng F, Xue YP, Zheng YG. Enzyme cascade for biocatalytic deracemization of D,L-phosphinothricin. J Biotechnol 2020; 325:372-379. [PMID: 33007350 DOI: 10.1016/j.jbiotec.2020.09.024] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Revised: 09/14/2020] [Accepted: 09/26/2020] [Indexed: 10/23/2022]
Abstract
Deracemization of D,L-phosphinothricin (D,L-PPT) is one of the most promising routes for preparation of optically pure L-PPT. In this work, an efficient multi-enzyme redox cascade was developed for deracemization ofPPT, which includes oxidative reaction and reductive reaction. The oxidative reaction catalyzing oxidative deamination of D-PPT to 2-oxo-4-[(hydroxy)(-methyl)phosphinyl]butyric acid (PPO) was performed by a D-amino acid oxidase and a catalase for removing H2O2. The reductive reaction catalyzing amination of PPO to L-PPT is achieved by a glufosinate dehydrogenase and a glucose dehydrogenase for cofactor regeneration. To avoid the inhibitory effect of glucose on the oxidative reaction, a "two stages in one-pot" strategy was developed to combine these two reactions in deracemization process. By using this strategy, the L-PPT was obtained with a high yield (89 %) and > 99 % enantiomeric excess at substrate loading of 300 mM in absence of addition of extra NADP+. These encouraging results demonstrated that the developed enzyme cascade deracemization process exhibits great potential and economical competitiveness for manufacture of L-PPT from D,L-PPT.
Collapse
Affiliation(s)
- Cheng-Hao Cao
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China
| | - Huo Gong
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China
| | - Yan Dong
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China
| | - Ju-Mou Li
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China
| | - Feng Cheng
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China
| | - Ya-Ping Xue
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China.
| | - Yu-Guo Zheng
- Key Laboratory of Bioorganic Synthesis of Zhejiang Province, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China; Engineering Research Center of Bioconversion and Biopurification of Ministry of Education, Zhejiang University of Technology, Hangzhou 310014, China; National and Local Joint Engineering Research Center for Biomanufacturing of Chiral Chemicals, Zhejiang University of Technology, Hangzhou 310014, China
| |
Collapse
|
42
|
|
43
|
Arqué X, Andrés X, Mestre R, Ciraulo B, Ortega Arroyo J, Quidant R, Patiño T, Sánchez S. Ionic Species Affect the Self-Propulsion of Urease-Powered Micromotors. RESEARCH 2020; 2020:2424972. [PMID: 32803169 PMCID: PMC7404610 DOI: 10.34133/2020/2424972] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Accepted: 06/17/2020] [Indexed: 11/18/2022]
Abstract
Enzyme-powered motors self-propel through the catalysis of in situ bioavailable fuels, which makes them excellent candidates for biomedical applications. However, fundamental issues like their motion in biological fluids and the understanding of the propulsion mechanism are critical aspects to be tackled before a future application in biomedicine. Herein, we investigated the physicochemical effects of ionic species on the self-propulsion of urease-powered micromotors. Results showed that the presence of PBS, NaOH, NaCl, and HEPES reduced self-propulsion of urease-powered micromotors pointing towards ion-dependent mechanisms of motion. We studied the 3D motion of urease micromotors using digital holographic microscopy to rule out any motor-surface interaction as the cause of motion decay when salts are present in the media. In order to protect and minimize the negative effect of ionic species on micromotors' performance, we coated the motors with methoxypolyethylene glycol amine (mPEG) showing higher speed compared to noncoated motors at intermediate ionic concentrations. These results provide new insights into the mechanism of urease-powered micromotors, study the effect of ionic media, and contribute with potential solutions to mitigate the reduction of mobility of enzyme-powered micromotors.
Collapse
Affiliation(s)
- Xavier Arqué
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 10-12, 08028 Barcelona, Spain
| | - Xavier Andrés
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 10-12, 08028 Barcelona, Spain
| | - Rafael Mestre
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 10-12, 08028 Barcelona, Spain
| | - Bernard Ciraulo
- Institute of Photonic Sciences (ICFO), The Barcelona Institute of Science and Technology, Carl Friedrich Gauss 3, 08860 Castelldefels, Barcelona, Spain
| | - Jaime Ortega Arroyo
- Institute of Photonic Sciences (ICFO), The Barcelona Institute of Science and Technology, Carl Friedrich Gauss 3, 08860 Castelldefels, Barcelona, Spain
| | - Romain Quidant
- Institute of Photonic Sciences (ICFO), The Barcelona Institute of Science and Technology, Carl Friedrich Gauss 3, 08860 Castelldefels, Barcelona, Spain.,Institució Catalana de Recerca i Estudis Avançats (ICREA), Pg. Lluís Companys 23, 08010 Barcelona, Spain
| | - Tania Patiño
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 10-12, 08028 Barcelona, Spain.,Chemistry Department, University of Rome, Tor Vergata, Via della Ricerca Scientifica, 00133 Rome, Italy
| | - Samuel Sánchez
- Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 10-12, 08028 Barcelona, Spain.,Institució Catalana de Recerca i Estudis Avançats (ICREA), Pg. Lluís Companys 23, 08010 Barcelona, Spain
| |
Collapse
|
44
|
Xu G, Liu K, Xu B, Yao Y, Li W, Yan J, Zhang A. Confined Microenvironments from Thermoresponsive Dendronized Polymers. Macromol Rapid Commun 2020; 41:e2000325. [PMID: 32639094 DOI: 10.1002/marc.202000325] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2020] [Revised: 06/23/2020] [Indexed: 11/07/2022]
Abstract
Confined microenvironments in biomacromolecules arising from molecular crowding account for their well-defined biofunctions and bioactivities. To mimick this, synthetic polymers to form confined structures or microenvironments are of key scientific value, which have received significant attention recently. To create synthetic confined microenvironments, molecular crowding effects and topological cooperative effects have been applied successfully, and the key is balance between self-association of structural units and self-repulsion from crowding-induced steric hindrance. In this article, formation of confined microenvironments from stimuli-responsive dendronized polymers carrying densely dendritic oligoethylene glycols (OEGs) moieties in their pendants is presented. These wormlike thick macromolecules exhibit characteristic thermoresponsive properties, which can provide constrained microenvironments to encapsulate effectively guest molecules including dyes, proteins, or nucleic acids to prevent their protonation or biodegradation. This efficient shielding effect can also mediate chemical reactions in aqueous phase, and even enhance chirality transferring efficiency. All of these can be switched off simply through the thermally-induced dehydration and collapse of OEG dendrons due to the amphiphilicity of OEG chains. Furthermore, the switchable encapsulation and release of guests can be greatly enhanced when these dendronized polymers are used as major constituents for fabricating bulk hydrogels or nanogels, which provide a higher-level confinement.
Collapse
Affiliation(s)
- Gang Xu
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| | - Kun Liu
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| | - Biyi Xu
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| | - Yi Yao
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| | - Wen Li
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| | - Jiatao Yan
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| | - Afang Zhang
- International Joint Laboratory of Smart and Biomimetic Polymers, School of Materials Science and Engineering, Shanghai University, 99 Shangda Road, Shanghai, 200444, China
| |
Collapse
|
45
|
Yang H, Xue W, Liu M, Yu K, Yu W. Carbon doped Fe 3O 4 peroxidase-like nanozyme for mitigating the membrane fouling by NOM at neutral pH. WATER RESEARCH 2020; 174:115637. [PMID: 32105995 DOI: 10.1016/j.watres.2020.115637] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Revised: 02/18/2020] [Accepted: 02/20/2020] [Indexed: 06/10/2023]
Abstract
Oxidation is a widely used method in drinking water treatment to mitigate the membrane fouling caused by the natural organic matters (NOM) from the surface water during ultra-filtration (UF) and nano-filtration (NF) processes, and H2O2 is one of the common oxidants for it. However, the oxidation capability of H2O2 at neutral pH is lower, compared to the acidic and alkaline conditions. In order to improve the efficiency of NOM oxidation at neutral pH, a carbon-doped Fe3O4 peroxidase-like nanozyme (CFPN) was synthesized in this study and used as a high-performance catalyst for H2O2 to generate hydroxyl radical. The oxygen-containing groups on the carbon structure of CFPN can form an acidic microenvironment, allowing H2O2 to produce hydroxyl radical by catalysis in neutral conditions. The results of hydrophilicity analysis, zeta potential, high-performance liquid size exclusion chromatography (HPSEC), Fourier transform infrared spectrum (FTIR) and flux indicated that the hydroxyl radical can oxidize the hydrophobic matters of humic acid (HA) into hydrophilic matters by Fenton reaction or electrophilic addition reaction, which can mitigate the fouling of NF membranes. The results of the same test for the bovine serum albumin (BSA) indicated that the hydroxyl radical can mitigate the fouling of UF membranes by degrading the tertiary and secondary structures of BSA and partly oxidizing the side chain groups. In addition, two types of surface water samples were used to verify the above mechanism, and the results indicated that the hydroxyl radical treatment at neutral pH is a new viable and effective strategy to significantly mitigate the NOM fouling of UF and NF membranes.
Collapse
Affiliation(s)
- Hankun Yang
- State Key Laboratory of Environmental Aquatic Chemistry, Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Wu Xue
- State Key Laboratory of Environmental Aquatic Chemistry, Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Mengjie Liu
- State Key Laboratory of Environmental Aquatic Chemistry, Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Kai Yu
- Department of Clinical Engineering, Ningbo Urology & Nephrology Hospital, No.998, Qian He Road, Yinzhou District, Ningbo, Zhejiang Province, 315100, People's Republic of China
| | - Wenzheng Yu
- State Key Laboratory of Environmental Aquatic Chemistry, Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China.
| |
Collapse
|
46
|
Fu J, Wang Z, Liang XH, Oh SW, St Iago-McRae E, Zhang T. DNA-Scaffolded Proximity Assembly and Confinement of Multienzyme Reactions. Top Curr Chem (Cham) 2020; 378:38. [PMID: 32248317 PMCID: PMC7127875 DOI: 10.1007/s41061-020-0299-3] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Accepted: 03/07/2020] [Indexed: 12/14/2022]
Abstract
Cellular functions rely on a series of organized and regulated multienzyme cascade reactions. The catalytic efficiencies of these cascades depend on the precise spatial organization of the constituent enzymes, which is optimized to facilitate substrate transport and regulate activities. Mimicry of this organization in a non-living, artificial system would be very useful in a broad range of applications—with impacts on both the scientific community and society at large. Self-assembled DNA nanostructures are promising applications to organize biomolecular components into prescribed, multidimensional patterns. In this review, we focus on recent progress in the field of DNA-scaffolded assembly and confinement of multienzyme reactions. DNA self-assembly is exploited to build spatially organized multienzyme cascades with control over their relative distance, substrate diffusion paths, compartmentalization and activity actuation. The combination of addressable DNA assembly and multienzyme cascades can deliver breakthroughs toward the engineering of novel synthetic and biomimetic reactors.
Collapse
Affiliation(s)
- Jinglin Fu
- Department of Chemistry, Rutgers University-Camden, Camden, NJ, 08102, USA. .,Center for Computational and Integrative Biology, Rutgers University-Camden, Camden, NJ, 08102, USA.
| | - Zhicheng Wang
- Department of Chemistry, Rutgers University-Camden, Camden, NJ, 08102, USA.,Center for Computational and Integrative Biology, Rutgers University-Camden, Camden, NJ, 08102, USA
| | - Xiao Hua Liang
- Department of Chemistry, Rutgers University-Camden, Camden, NJ, 08102, USA
| | - Sung Won Oh
- Center for Computational and Integrative Biology, Rutgers University-Camden, Camden, NJ, 08102, USA
| | - Ezry St Iago-McRae
- Center for Computational and Integrative Biology, Rutgers University-Camden, Camden, NJ, 08102, USA
| | - Ting Zhang
- Department of Chemistry, Rutgers University-Camden, Camden, NJ, 08102, USA
| |
Collapse
|
47
|
Li X, Cao X, Xiong J, Ge J. Enzyme-Metal Hybrid Catalysts for Chemoenzymatic Reactions. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2020; 16:e1902751. [PMID: 31468669 DOI: 10.1002/smll.201902751] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2019] [Revised: 07/10/2019] [Indexed: 05/21/2023]
Abstract
Enzyme-metal hybrid catalysts (EMHCs), which combine enzymatic and metal catalysis, provide tremendous possibilities for new chemoenzymatic cascade reactions. Here, an overview of the representative achievements in the design of EMHCs and their applications in chemoenzymatic cascade reactions are presented. The preparation of hybrid catalysts is classified into two categories: coimmobilized enzyme-metal heterogeneous catalysts and carrier-free enzyme-metal bioconjugates. Examples of one-pot chemoenzymatic cascade processes catalyzed by the hybrid catalysts are then provided as potential applications. Finally, the limitations and future perspectives of EMHCs are discussed.
Collapse
Affiliation(s)
- Xiaoyang Li
- Key Laboratory for Industrial Biocatalysis, Ministry of Education, Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Xun Cao
- Key Laboratory for Industrial Biocatalysis, Ministry of Education, Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Jiarong Xiong
- Key Laboratory for Industrial Biocatalysis, Ministry of Education, Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Jun Ge
- Key Laboratory for Industrial Biocatalysis, Ministry of Education, Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| |
Collapse
|
48
|
Li M, Shen H, Zhou Z, He W, Su P, Song J, Yang Y. Controllable and high‐performance immobilized enzyme reactor: DNA‐directed immobilization of multienzyme in polyamidoamine dendrimer‐functionalized capillaries. Electrophoresis 2020; 41:335-344. [DOI: 10.1002/elps.201900428] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2019] [Revised: 12/30/2019] [Accepted: 01/03/2020] [Indexed: 12/16/2022]
Affiliation(s)
- Mengqi Li
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| | - Hao Shen
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| | - Zixin Zhou
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| | - Wenting He
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| | - Ping Su
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| | - Jiayi Song
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| | - Yi Yang
- Key Laboratory of Environmentally Harmful Chemical Analysis, College of ChemistryBeijing University of Chemical Technology Beijing P. R. China
| |
Collapse
|
49
|
Klein WP, Thomsen RP, Turner KB, Walper SA, Vranish J, Kjems J, Ancona MG, Medintz IL. Enhanced Catalysis from Multienzyme Cascades Assembled on a DNA Origami Triangle. ACS NANO 2019; 13:13677-13689. [PMID: 31751123 DOI: 10.1021/acsnano.9b05746] [Citation(s) in RCA: 77] [Impact Index Per Article: 15.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
Developing reliable methods of constructing cell-free multienzyme biocatalytic systems is a milestone goal of synthetic biology. It would enable overcoming the limitations of current cell-based systems, which suffer from the presence of competing pathways, toxicity, and inefficient access to extracellular reactants and removal of products. DNA nanostructures have been suggested as ideal scaffolds for assembling sequential enzymatic cascades in close enough proximity to potentially allow for exploiting of channeling effects; however, initial demonstrations have provided somewhat contradictory results toward confirming this phenomenon. In this work, a three-enzyme sequential cascade was realized by site-specifically immobilizing DNA-conjugated amylase, maltase, and glucokinase on a self-assembled DNA origami triangle. The kinetics of seven different enzyme configurations were evaluated experimentally and compared to simulations of optimized activity. A 30-fold increase in the pathway's kinetic activity was observed for enzymes assembled to the DNA. Detailed kinetic analysis suggests that this catalytic enhancement originated from increased enzyme stability and a localized DNA surface affinity or hydration layer effect and not from a directed enzyme-to-enzyme channeling mechanism. Nevertheless, the approach used to construct this pathway still shows promise toward improving other more elaborate multienzymatic cascades and could potentially allow for the custom synthesis of complex (bio)molecules that cannot be realized with conventional organic chemistry approaches.
Collapse
Affiliation(s)
- William P Klein
- National Research Council , Washington , D.C. 20001 , United States
| | - Rasmus P Thomsen
- Interdisciplinary Nanoscience Center and Department of Molecular Biology and Genetics , Aarhus University , 8000 Aarhus , Denmark
| | | | - Scott A Walper
- National Research Council , Washington , D.C. 20001 , United States
| | - James Vranish
- Ave Maria University , Ave Maria , Florida 34142 , United States
| | - Jørgen Kjems
- Interdisciplinary Nanoscience Center and Department of Molecular Biology and Genetics , Aarhus University , 8000 Aarhus , Denmark
| | | | - Igor L Medintz
- National Research Council , Washington , D.C. 20001 , United States
| |
Collapse
|
50
|
Zhang Y, Hess H. Inhibitors in Commercially Available 2,2′-Azino-bis(3-ethylbenzothiazoline-6-sulfonate) Affect Enzymatic Assays. Anal Chem 2019; 92:1502-1510. [DOI: 10.1021/acs.analchem.9b04751] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yifei Zhang
- Department of Biomedical Engineering, Columbia University, 351L Engineering Terrace, 1210 Amsterdam Avenue, New York, New York 10027, United States
| | - Henry Hess
- Department of Biomedical Engineering, Columbia University, 351L Engineering Terrace, 1210 Amsterdam Avenue, New York, New York 10027, United States
| |
Collapse
|