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Bilal M, Qamar SA, Carballares D, Berenguer-Murcia Á, Fernandez-Lafuente R. Proteases immobilized on nanomaterials for biocatalytic, environmental and biomedical applications: Advantages and drawbacks. Biotechnol Adv 2024; 70:108304. [PMID: 38135131 DOI: 10.1016/j.biotechadv.2023.108304] [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: 08/25/2023] [Revised: 11/30/2023] [Accepted: 12/15/2023] [Indexed: 12/24/2023]
Abstract
Proteases have gained significant scientific and industrial interest due to their unique biocatalytic characteristics and broad-spectrum applications in different industries. The development of robust nanobiocatalytic systems by attaching proteases onto various nanostructured materials as fascinating and novel nanocarriers has demonstrated exceptional biocatalytic performance, substantial stability, and ease of recyclability over multiple reaction cycles under different chemical and physical conditions. Proteases immobilized on nanocarriers may be much more resistant to denaturation caused by extreme temperatures or pH values, detergents, organic solvents, and other protein denaturants than free enzymes. Immobilized proteases may present a lower inhibition. The use of non-porous materials in the immobilization prevents diffusion and steric hindrances during the binding of the substrate to the active sites of enzymes compared to immobilization onto porous materials; when using very large or solid substrates, orientation of the enzyme must always be adequate. The advantages and problems of the immobilization of proteases on nanoparticles are discussed in this review. The continuous and batch reactor operations of nanocarrier-immobilized proteases have been successfully investigated for a variety of applications in the leather, detergent, biomedical, food, and pharmaceutical industries. Information about immobilized proteases on various nanocarriers and nanomaterials has been systematically compiled here. Furthermore, different industrial applications of immobilized proteases have also been highlighted in this review.
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Affiliation(s)
- Muhammad Bilal
- Department of Sanitary Engineering, Faculty of Civil and Environmental Engineering, Gdansk University of Technology, G. Narutowicza 11/12 Str., 80-233 Gdansk, Poland; Advanced Materials Center, Gdansk University of Technology, 11/12 Narutowicza St., 80-233 Gdansk, Poland.
| | - Sarmad Ahmad Qamar
- Department of Environmental, Biological & Pharmaceutical Sciences, and Technologies, University of Campania 'Luigi Vanvitelli', Via Vivaldi 43, 81100 Caserta, Italy
| | - Diego Carballares
- Department of Biocatalysis, ICP-CSIC, C/ Marie Curie 2, Campus UAM-CSIC Cantoblanco, Madrid, Spain
| | - Ángel Berenguer-Murcia
- Departamento de Química Inorgánica e Instituto Universitario de Materiales, Universidad de Alicante, 03080 Alicante, Spain
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2
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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: 10] [Impact Index Per Article: 10.0] [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.
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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
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3
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Yum JH, Sugiyama H, Park S. Harnessing DNA as a Designable Scaffold for Asymmetric Catalysis: Recent Advances and Future Perspectives. CHEM REC 2022; 22:e202100333. [PMID: 35312235 DOI: 10.1002/tcr.202100333] [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: 12/22/2021] [Revised: 03/03/2022] [Accepted: 03/04/2022] [Indexed: 12/27/2022]
Abstract
Since the first report of DNAzyme by in vitro selection in 1994, catalytic DNA has investigated extensively, and their application has expanded continually in virtue of rapid advances in molecular biology and biotechnology. Nowadays, DNA is in the second prime time by way of DNA-based hybrid catalysts and DNA metalloenzymes in which helical chirality of DNA serves to asymmetric catalysis. DNA-based hybrid catalysts are attractive system to respond the demand of the times to pursuit green and sustainable society beyond traditional catalytic systems that value reaction efficiency. Herein, we highlight the recent advances and perspective of DNA-based hybrid catalysts with various aspects of DNA as a versatile scaffold for asymmetric synthesis. We hope that scientists in a variety of fields will be encouraged to join and promote remarkable evolution of this interesting research.
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Affiliation(s)
- Ji Hye Yum
- Department of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa-oiwakecho, Sakyo-ku, Kyoto, 606-8502, Japan
| | - Hiroshi Sugiyama
- Department of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa-oiwakecho, Sakyo-ku, Kyoto, 606-8502, Japan.,Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University, Yoshida-ushinomiyacho, Sakyo-ku, Kyoto, 606-8501, Japan
| | - Soyoung Park
- Immunology Frontier Research Center (iFReC), Osaka University, 3-1 Yamadaoka, Suita, 565-0871, Japan.,Research Institute for Microbial Diseases (RIMD), Osaka University, 3-1 Yamadaoka, Suita, 565-0871, Japan
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4
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Xue Y, Zhang XG, Lu ZP, Xu C, Xu HJ, Hu Y. Enhancing the Catalytic Performance of Candida antarctica Lipase B by Chemical Modification With Alkylated Betaine Ionic Liquids. Front Bioeng Biotechnol 2022; 10:850890. [PMID: 35265607 PMCID: PMC8899502 DOI: 10.3389/fbioe.2022.850890] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2022] [Accepted: 01/27/2022] [Indexed: 11/24/2022] Open
Abstract
Various betaine ionic liquids composed of different chain lengths and different anions were designed and synthesized to modify Candida antarctica lipase B (CALB). The results showed that the catalytic activity of all modified lipases improved under different temperature and pH conditions, while also exhibiting enhanced thermostability and tolerance to organic solvents. With an increase in ionic liquid chain length, the modification effect was greater. Overall, CALB modified by [BetaineC16][H2PO4] performed best, with the modified CALB enzyme activity increased 3-fold, thermal stability increased 1.5-fold when stored at 70°C for 30 min, with tolerance increased 2.9-fold in 50% DMSO and 2.3-fold in 30% mercaptoethanol. Fluorescence and circular dichroism (CD) spectroscopic analysis showed that the introduction of an ionic liquid caused changes in the microenvironment surrounding some fluorescent groups and the secondary structure of the CALB enzyme protein. In order to establish the enzyme activity and stability change mechanisms of the modified CALB, the structures of CALB modified with [BetaineC4][Cl] and [BetaineC16][Cl] were constructed, while the reaction mechanisms were studied by molecular dynamics simulations. Results showed that the root mean square deviation (RMSD) and total energy of modified CALB were less than those of native CALB, indicating that modified CALB has a more stable structure. Root mean square fluctuation (RMSF) calculations showed that the rigidity of modified CALB was enhanced. Solvent accessibility area (SASA) calculations exhibited that both the hydrophilicity and hydrophobicity of the modified enzyme-proteins were improved. The increase in radial distribution function (RDF) of water molecules confirmed that the number of water molecules around the active sites also increased. Therefore, modified CALB has enhanced structural stability and higher hydrolytic activity.
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Affiliation(s)
| | | | | | | | | | - Yi Hu
- *Correspondence: Hua-Jin Xu, ; Yi Hu,
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5
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Chemical modification for improving catalytic performance of lipase B from Candida antarctica with hydrophobic proline ionic liquid. Bioprocess Biosyst Eng 2022; 45:749-759. [PMID: 35113231 DOI: 10.1007/s00449-022-02696-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Accepted: 01/18/2022] [Indexed: 12/18/2022]
Abstract
In this study, a series of proline ionic liquids with different lengths of hydrophobic alkyl on the side chain were used to modify the Candida Antarctic lipase B (CALB). The catalytic activity, thermal stability and tolerance to methanol and DMSO of the modified enzyme were all improved simultaneously. The optimum temperature changed from 55 to 60 ℃. The hydrophobicity and anion type of the modifier have important influence on the catalytic performance of CALB. CALB modified by [ProC12][H2PO4] has a better effect. Under the optimal conditions, its hydrolysis activity was 3.0 times than that of the native enzyme, the catalytic efficiency Kcat/Km improved 2.8 times in aqueous phase, and the tolerance to organic solvent with strong polarity (50% methanol 2 h) was increased by 6.8 times. Fluorescence spectra and circular dichroism (CD) spectroscopy showed that the introduction of ionic liquids changed the microenvironment near the fluorophores of the enzyme protein, the α-helix decreased and β-sheet increased in the secondary structure of the modified enzymes. The root mean square deviation (RMSD), residue root mean square fluctuation (RMSF), radius of gyration (Rg), and solution accessible surface area (SASA) of [ProC2][Br]-CALB, [ProC12][Br]-CALB and native CALB were obtained for comparison by molecular dynamics simulation. The results of dynamics simulation were in good agreement with enzymology experiment. The introduction of ionic liquids can keep CALB in a better active conformation, and proline ionic liquids with long hydrophobic chains can significantly improve the surface hydrophobicity and overall rigidity of CALB. This research offers a new idea for rapid screening of efficient modifiers and provision of enzymes with high stability and activity for industrial application.
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6
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Permana D, Putra HE, Djaenudin D. Designed protein multimerization and polymerization for functionalization of proteins. Biotechnol Lett 2022; 44:341-365. [PMID: 35083582 PMCID: PMC8791688 DOI: 10.1007/s10529-021-03217-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2021] [Accepted: 12/04/2021] [Indexed: 12/15/2022]
Abstract
Abstract Multimeric and polymeric proteins are large biomacromolecules consisting of multiple protein molecules as their monomeric units, connected through covalent or non-covalent bonds. Genetic modification and post-translational modifications (PTMs) of proteins offer alternative strategies for designing and creating multimeric and polymeric proteins. Multimeric proteins are commonly prepared by genetic modification, whereas polymeric proteins are usually created through PTMs. There are two methods that can be applied to create polymeric proteins: self-assembly and crosslinking. Self-assembly offers a spontaneous reaction without a catalyst, while the crosslinking reaction offers some catalyst options, such as chemicals and enzymes. In addition, enzymes are excellent catalysts because they provide site-specificity, rapid reaction, mild reaction conditions, and activity and functionality maintenance of protein polymers. However, only a few enzymes are applicable for the preparation of protein polymers. Most of the other enzymes are effective only for protein conjugation or labeling. Here, we review novel and applicable strategies for the preparation of multimeric proteins through genetic modification and self-assembly. We then describe the formation of protein polymers through site-selective crosslinking reactions catalyzed by enzymes, crosslinking reactions of non-natural amino acids, and protein-peptide (SpyCatcher/SpyTag) interactions. Finally, we discuss the potential applications of these protein polymers. Graphical abstract ![]()
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Affiliation(s)
- Dani Permana
- Faculty of Agriculture, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0395, Japan. .,Research Unit for Clean Technology, The National Research and Innovation Agency of Republic of Indonesia, Jl. Cisitu, Bandung, 40135, Indonesia.
| | - Herlian Eriska Putra
- Research Unit for Clean Technology, The National Research and Innovation Agency of Republic of Indonesia, Jl. Cisitu, Bandung, 40135, Indonesia
| | - Djaenudin Djaenudin
- Research Unit for Clean Technology, The National Research and Innovation Agency of Republic of Indonesia, Jl. Cisitu, Bandung, 40135, Indonesia
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7
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Protein Modifications: From Chemoselective Probes to Novel Biocatalysts. Catalysts 2021. [DOI: 10.3390/catal11121466] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Chemical reactions can be performed to covalently modify specific residues in proteins. When applied to native enzymes, these chemical modifications can greatly expand the available set of building blocks for the development of biocatalysts. Nucleophilic canonical amino acid sidechains are the most readily accessible targets for such endeavors. A rich history of attempts to design enhanced or novel enzymes, from various protein scaffolds, has paved the way for a rapidly developing field with growing scientific, industrial, and biomedical applications. A major challenge is to devise reactions that are compatible with native proteins and can selectively modify specific residues. Cysteine, lysine, N-terminus, and carboxylate residues comprise the most widespread naturally occurring targets for enzyme modifications. In this review, chemical methods for selective modification of enzymes will be discussed, alongside with examples of reported applications. We aim to highlight the potential of such strategies to enhance enzyme function and create novel semisynthetic biocatalysts, as well as provide a perspective in a fast-evolving topic.
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8
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Giri P, Pagar AD, Patil MD, Yun H. Chemical modification of enzymes to improve biocatalytic performance. Biotechnol Adv 2021; 53:107868. [PMID: 34774927 DOI: 10.1016/j.biotechadv.2021.107868] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 11/02/2021] [Accepted: 11/05/2021] [Indexed: 12/23/2022]
Abstract
Improvement in intrinsic enzymatic features is in many instances a prerequisite for the scalable applicability of many industrially important biocatalysts. To this end, various strategies of chemical modification of enzymes are maturing and now considered as a distinct way to improve biocatalytic properties. Traditional chemical modification methods utilize reactivities of amine, carboxylic, thiol and other side chains originating from canonical amino acids. On the other hand, noncanonical amino acid- mediated 'click' (bioorthogoal) chemistry and dehydroalanine (Dha)-mediated modifications have emerged as an alternate and promising ways to modify enzymes for functional enhancement. This review discusses the applications of various chemical modification tools that have been directed towards the improvement of functional properties and/or stability of diverse array of biocatalysts.
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Affiliation(s)
- Pritam Giri
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Amol D Pagar
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Mahesh D Patil
- Department of Nanomaterials and Application Technology, Center of Innovative and Applied Bioprocessing (CIAB), Sector-81, PO Manauli, S.A.S. Nagar, Mohali 140306, Punjab, India
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
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9
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Pagar AD, Patil MD, Flood DT, Yoo TH, Dawson PE, Yun H. Recent Advances in Biocatalysis with Chemical Modification and Expanded Amino Acid Alphabet. Chem Rev 2021; 121:6173-6245. [PMID: 33886302 DOI: 10.1021/acs.chemrev.0c01201] [Citation(s) in RCA: 41] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The two main strategies for enzyme engineering, directed evolution and rational design, have found widespread applications in improving the intrinsic activities of proteins. Although numerous advances have been achieved using these ground-breaking methods, the limited chemical diversity of the biopolymers, restricted to the 20 canonical amino acids, hampers creation of novel enzymes that Nature has never made thus far. To address this, much research has been devoted to expanding the protein sequence space via chemical modifications and/or incorporation of noncanonical amino acids (ncAAs). This review provides a balanced discussion and critical evaluation of the applications, recent advances, and technical breakthroughs in biocatalysis for three approaches: (i) chemical modification of cAAs, (ii) incorporation of ncAAs, and (iii) chemical modification of incorporated ncAAs. Furthermore, the applications of these approaches and the result on the functional properties and mechanistic study of the enzymes are extensively reviewed. We also discuss the design of artificial enzymes and directed evolution strategies for enzymes with ncAAs incorporated. Finally, we discuss the current challenges and future perspectives for biocatalysis using the expanded amino acid alphabet.
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Affiliation(s)
- Amol D Pagar
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
| | - Mahesh D Patil
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
| | - Dillon T Flood
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Tae Hyeon Yoo
- Department of Molecular Science and Technology, Ajou University, 206 World cup-ro, Yeongtong-gu, Suwon 16499, Korea
| | - Philip E Dawson
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Hyungdon Yun
- Department of Systems Biotechnology, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
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10
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One Pot Use of Combilipases for Full Modification of Oils and Fats: Multifunctional and Heterogeneous Substrates. Catalysts 2020. [DOI: 10.3390/catal10060605] [Citation(s) in RCA: 42] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Lipases are among the most utilized enzymes in biocatalysis. In many instances, the main reason for their use is their high specificity or selectivity. However, when full modification of a multifunctional and heterogeneous substrate is pursued, enzyme selectivity and specificity become a problem. This is the case of hydrolysis of oils and fats to produce free fatty acids or their alcoholysis to produce biodiesel, which can be considered cascade reactions. In these cases, to the original heterogeneity of the substrate, the presence of intermediate products, such as diglycerides or monoglycerides, can be an additional drawback. Using these heterogeneous substrates, enzyme specificity can promote that some substrates (initial substrates or intermediate products) may not be recognized as such (in the worst case scenario they may be acting as inhibitors) by the enzyme, causing yields and reaction rates to drop. To solve this situation, a mixture of lipases with different specificity, selectivity and differently affected by the reaction conditions can offer much better results than the use of a single lipase exhibiting a very high initial activity or even the best global reaction course. This mixture of lipases from different sources has been called “combilipases” and is becoming increasingly popular. They include the use of liquid lipase formulations or immobilized lipases. In some instances, the lipases have been coimmobilized. Some discussion is offered regarding the problems that this coimmobilization may give rise to, and some strategies to solve some of these problems are proposed. The use of combilipases in the future may be extended to other processes and enzymes.
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11
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Enzymes to unravel bioproducts architecture. Biotechnol Adv 2020; 41:107546. [PMID: 32275940 DOI: 10.1016/j.biotechadv.2020.107546] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Revised: 02/20/2020] [Accepted: 04/03/2020] [Indexed: 11/20/2022]
Abstract
Enzymes are essential and ubiquitous biocatalysts involved in various metabolic pathways and used in many industrial processes. Here, we reframe enzymes not just as biocatalysts transforming bioproducts but also as sensitive probes for exploring the structure and composition of complex bioproducts, like meat tissue, dairy products and plant materials, in both food and non-food bioprocesses. This review details the global strategy and presents the most recent investigations to prepare and use enzymes as relevant probes, with a focus on glycoside-hydrolases involved in plant deconstruction and proteases and lipases involved in food digestion. First, to expand the enzyme repertoire to fit bioproduct complexity, novel enzymes are mined from biodiversity and can be artificially engineered. Enzymes are further characterized by exploring sequence/structure/dynamics/function relationships together with the environmental factors influencing enzyme interactions with their substrates. Then, the most advanced experimental and theoretical approaches developed for exploring bioproducts at various scales (from nanometer to millimeter) using active and inactive enzymes as probes are illustrated. Overall, combining multimodal and multiscale approaches brings a better understanding of native-form or transformed bioproduct architecture and composition, and paves the way to mainstream the use of enzymes as probes.
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12
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Permana D, Minamihata K, Sato R, Wakabayashi R, Goto M, Kamiya N. Linear Polymerization of Protein by Sterically Controlled Enzymatic Cross-Linking with a Tyrosine-Containing Peptide Loop. ACS OMEGA 2020; 5:5160-5169. [PMID: 32201803 PMCID: PMC7081431 DOI: 10.1021/acsomega.9b04163] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Accepted: 02/06/2020] [Indexed: 06/10/2023]
Abstract
The structure of a protein complex needs to be controlled appropriately to maximize its functions. Herein, we report the linear polymerization of bacterial alkaline phosphatase (BAP) through the site-specific cross-linking reaction catalyzed by Trametes sp. laccase (TL). We introduced a peptide loop containing a tyrosine (Y-Loop) to BAP, and the Y-Looped BAP was treated with TL. The Y-Looped BAP formed linear polymers, whereas BAP fused with a C-terminal peptide containing a tyrosine (Y-tag) showed an irregular shape after TL treatment. The sterically confined structure of the Y-Loop could be responsible for the formation of linear BAP polymers. TL-catalyzed copolymerization of Y-Looped BAP and a Y-tagged chimeric antibody-binding protein, pG2pA-Y, resulted in the formation of linear bifunctional protein copolymers that could be employed as protein probes in an enzyme-linked immunosorbent assay (ELISA). Copolymers comprising Y-Looped BAP and pG2pA-Y at a molar ratio of 100:1 exhibited the highest signal in the ELISA with 26- and 20-fold higher than a genetically fused chimeric protein, BAP-pG2pA-Y, and its polymeric form, respectively. This result revealed that the morphology of the copolymers was the most critical feature to improve the functionality of the protein polymers as detection probes, not only for immunoassays but also for other diagnostic applications.
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Affiliation(s)
- Dani Permana
- Department
of Applied Chemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
- Research
Unit for Clean Technology, Indonesian Institute
of Sciences (LIPI), Kampus LIPI Bandung Gedung 50, Jl. Cisitu, Bandung 40135, Indonesia
| | - Kosuke Minamihata
- Department
of Applied Chemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Ryo Sato
- Department
of Applied Chemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Rie Wakabayashi
- Department
of Applied Chemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Masahiro Goto
- Department
of Applied Chemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
- Division
of Biotechnology, Center for Future Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Noriho Kamiya
- Department
of Applied Chemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
- Division
of Biotechnology, Center for Future Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
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13
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Müller A, Langó T, Turiák L, Ács A, Várady G, Kucsma N, Drahos L, Tusnády GE. Covalently modified carboxyl side chains on cell surface leads to a novel method toward topology analysis of transmembrane proteins. Sci Rep 2019; 9:15729. [PMID: 31673029 PMCID: PMC6823493 DOI: 10.1038/s41598-019-52188-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Accepted: 10/05/2019] [Indexed: 12/13/2022] Open
Abstract
The research on transmembrane proteins (TMPs) is quite widespread due to their biological importance. Unfortunately, only a little amount of structural data is available of TMPs. Since technical difficulties arise during their high-resolution structure determination, bioinformatics and other experimental approaches are widely used to characterize their low-resolution structure, namely topology. Experimental and computational methods alone are still limited to determine TMP topology, but their combination becomes significant for the production of reliable structural data. By applying amino acid specific membrane-impermeable labelling agents, it is possible to identify the accessible surface of TMPs. Depending on the residue-specific modifications, new extracellular topology data is gathered, allowing the identification of more extracellular segments for TMPs. A new method has been developed for the experimental analysis of TMPs: covalent modification of the carboxyl groups on the accessible cell surface, followed by the isolation and digestion of these proteins. The labelled peptide fragments and their exact modification sites are identified by nanoLC-MS/MS. The determined peptides are mapped to the primary sequences of TMPs and the labelled sites are utilised as extracellular constraints in topology predictions that contribute to the refined low-resolution structure data of these proteins.
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Affiliation(s)
- Anna Müller
- Institute of Enzymology, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - Tamás Langó
- Institute of Enzymology, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - Lilla Turiák
- Institute of Organic Chemistry, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - András Ács
- Institute of Organic Chemistry, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - György Várady
- Institute of Enzymology, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - Nóra Kucsma
- Institute of Enzymology, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - László Drahos
- Institute of Organic Chemistry, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary
| | - Gábor E Tusnády
- Institute of Enzymology, RCNS, Hungarian Academy of Sciences, Magyar Tudósok krt 2, Budapest, H-1117, Hungary.
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14
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Quinn MK, James S, McManus JJ. Chemical Modification Alters Protein-Protein Interactions and Can Lead to Lower Protein Solubility. J Phys Chem B 2019; 123:4373-4379. [PMID: 31046277 DOI: 10.1021/acs.jpcb.9b02368] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
The chemical modification of proteins is at the frontier of developments in biological imaging and biopharmaceutics. With the advent of more sensitive and higher resolution imaging techniques, researchers increasingly rely on the functionalization of proteins to enable these techniques to capture cellular processes. For biopharmaceutical therapies, chemically modified proteins, for example, antibody-drug conjugates (ADCs) offer the possibility of more tailored treatments for the disease with lower toxicities than traditional small molecule therapies. However, relatively little consideration is paid to how chemical modifications impact protein-protein interactions and solution stability. Using human γD-crystallin as a model, we demonstrate that chemical modification of the protein surface alters protein-protein interactions, which can result in lower solubility depending on the chemical nature of the modifier and the position on the protein where the modification is made. Understanding these effects is essential to ensure that modifying proteins effectively occurs with minimum self-association and that studies carried out using labeled proteins accurately reflect those of unmodified proteins.
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Affiliation(s)
- Michelle K Quinn
- Department of Chemistry , Maynooth University , Maynooth , Co. Kildare , Ireland
| | - Susan James
- Department of Chemistry , Maynooth University , Maynooth , Co. Kildare , Ireland
| | - Jennifer J McManus
- Department of Chemistry , Maynooth University , Maynooth , Co. Kildare , Ireland
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15
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Chemical Modification of Novel Glycosidases from Lactobacillus plantarum Using Hyaluronic Acid: Effects on High Specificity against 6-Phosphate Glucopyranoside. COATINGS 2019. [DOI: 10.3390/coatings9050311] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Three novel glycosidases produced from Lactobacillus plantarum, so called Lp_0440, Lp_2777, and Lp_3525, were isolated and overexpressed on Escherichia coli containing a His-tag for specific purification. Their specific activity was evaluated against the hydrolysis of p-nitrophenylglycosides and p-nitrophenyl-6-phosphate glycosides (glucose and galactose) at pH 7. All three were modified with hyaluronic acid (HA) following two strategies: A simple coating by direct incubation at alkaline pH or direct chemical modification at pH 6.8 through preactivation of HA with carbodiimide (EDC) and N-hydroxysuccinimide (NHS) at pH 4.8. The modifications exhibited important effect on enzyme activity and specificity against different glycopyranosides in the three cases. Physical modification showed a radical decrease in specific activity on all glycosidases, without any significant change in enzyme specificity toward monosaccharide (glucose or galactose) or glycoside (C-6 position free or phosphorylated). However, the surface covalent modification of the enzymes showed very interesting results. The glycosidase Lp_0440 showed low glycoside specificity at 25 °C, showing the same activity against p-nitrophenyl-glucopyranoside (pNP-Glu) or p-nitrophenyl-6-phosphate glucopyranoside (pNP-6P-Glu). However, the conjugated cHA-Lp_0440 showed a clear increase in the specificity towards the pNP-Glu and no activity against pNP-6P-Glu. The other two glycosidases (Lp_2777 and Lp_3525) showed high specificity towards pNP-6P-glycosides, especially to the glucose derivative. The HA covalent modification of Lp_3525 (cHA-Lp_3525) generated an enzyme completely specific against the pNP-6P-Glu (phosphoglycosidase) maintaining more than 80% of the activity after chemical modification. When the temperature was increased, an alteration of selectivity was observed. Lp_0440 and cHA-Lp_0440 only showed activity against p-nitrophenyl-galactopyranoside (pNP-Gal) at 40 °C, higher than at 25 °C in the case of the conjugated enzyme.
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16
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Permana D, Minamihata K, Tatsuke T, Lee JM, Kusakabe T, Goto M, Kamiya N. Polymerization of Horseradish Peroxidase by a Laccase‐Catalyzed Tyrosine Coupling Reaction. Biotechnol J 2019; 14:e1800531. [DOI: 10.1002/biot.201800531] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2018] [Revised: 12/29/2018] [Accepted: 01/01/2019] [Indexed: 11/08/2022]
Affiliation(s)
- Dani Permana
- Department of Applied ChemistryGraduate School of Engineering, Kyushu University744 Motooka, Nishi‐ku Fukuoka 819‐0395 Japan
- Research Unit for Clean Technology, Indonesian Institute of Sciences (LIPI)Kampus LIPI Bandung Gedung 50, Jl. Cisitu Bandung 40135 Indonesia
| | - Kosuke Minamihata
- Department of Applied ChemistryGraduate School of Engineering, Kyushu University744 Motooka, Nishi‐ku Fukuoka 819‐0395 Japan
| | - Tsuneyuki Tatsuke
- Laboratory of Insect Genome Science, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu UniversityHigashi‐ku Fukuoka 812‐8581 Japan
| | - Jae M. Lee
- Laboratory of Insect Genome Science, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu UniversityHigashi‐ku Fukuoka 812‐8581 Japan
| | - Takahiro Kusakabe
- Laboratory of Insect Genome Science, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu UniversityHigashi‐ku Fukuoka 812‐8581 Japan
| | - Masahiro Goto
- Department of Applied ChemistryGraduate School of Engineering, Kyushu University744 Motooka, Nishi‐ku Fukuoka 819‐0395 Japan
- Division of BiotechnologyCenter for Future Chemistry, Kyushu University744 Motooka, Nishi‐ku Fukuoka 819‐0395 Japan
| | - Noriho Kamiya
- Department of Applied ChemistryGraduate School of Engineering, Kyushu University744 Motooka, Nishi‐ku Fukuoka 819‐0395 Japan
- Division of BiotechnologyCenter for Future Chemistry, Kyushu University744 Motooka, Nishi‐ku Fukuoka 819‐0395 Japan
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17
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Chapman R, Stenzel MH. All Wrapped up: Stabilization of Enzymes within Single Enzyme Nanoparticles. J Am Chem Soc 2019; 141:2754-2769. [PMID: 30621398 DOI: 10.1021/jacs.8b10338] [Citation(s) in RCA: 105] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Enzymes are extremely useful in many industrial and pharmaceutical areas due to their ability to catalyze reactions with high selectivity. In order to extend their lifetime, significant efforts have been made to increase their stability using protein- or medium engineering as well as by chemical modification. Many researchers have explored the immobilization of enzymes onto carriers, or entrapment within a matrix, framework or nanoparticle with the hope of constricting the movement of the enzyme and shielding it from aggressive environments, thus delaying the denaturation. These strategies often balance three competing interests: (i) maintaining high enzymatic activity, (ii) ensuring good long-term stability against temperature, dehydration, organic solvents, and or aggressive pH, and (iii) enabling a tuning or reversible switching of enzyme activity. In most cases, multiple enzymes will be contained within a single nanoparticle or matrix, but in recent years researchers have begun to wrap up individual enzymes within single enzyme nanoparticles (SENs). In these nanoparticles the enzyme is stabilized by a thin shell, typically a polymer, prepared either by in situ polymerization from the enzyme surface or by assembling a preformed polymer around it. Because of the increased control over the environment directly around the enzyme, and the possibility of more directly controlling substrate diffusion, many SENs show remarkable stability while retaining high initial activities even for quite fragile enzymes. Moreover, the activity of the enzyme can often be more easily fine-tuned by adjusting the layer properties. We postulate that this emerging field will offer exciting and elegant opportunities to both extend the catalytic lifetime of enzymes in aggressive solvents, temperatures and pH, and enable their activity to be switched on and off on demand by modulation of the outer material layer.
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Affiliation(s)
- Robert Chapman
- Centre for Advanced Macromolecular Design (CAMD), School of Chemistry , University of New South Wales , Sydney , New South Wales 2052 , Australia
| | - Martina H Stenzel
- Centre for Advanced Macromolecular Design (CAMD), School of Chemistry , University of New South Wales , Sydney , New South Wales 2052 , Australia
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18
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Affiliation(s)
- Seiji SAKAMOTO
- Graduate School of Engineering, Department of Synthetic Chemistry and Biological Chemistry, Kyoto University
| | - Itaru HAMACHI
- Graduate School of Engineering, Department of Synthetic Chemistry and Biological Chemistry, Kyoto University
- ERATO Innovative Molecular Technology for Neuroscience Project, Japan Science and Technology Agency (JST)
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19
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Perez-Rizquez C, Abian O, Palomo JM. Site-selective modification of tryptophan and protein tryptophan residues through PdNP bionanohybrid-catalysed C–H activation in aqueous media. Chem Commun (Camb) 2019; 55:12928-12931. [DOI: 10.1039/c9cc06971b] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
PdNP bionanohybrid catalyzed selective C–H bond arylation of tryptophan residues in proteins in aqueous media at room temperature.
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Affiliation(s)
| | - Olga Abian
- Instituto Aragonés de Ciencias de la Salud (IACS)
- Zaragoza
- Spain
- Institute of Biocomputation and Physics of Complex Systems (BIFI)
- Joint Units IQFR-CSIC-BIFI, and GBsC-CSIC-BIFI
| | - Jose M. Palomo
- Department of Biocatalysis
- Institute of Catalysis (ICP-CSIC)
- 28049 Madrid
- Spain
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20
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Suo H, Gao Z, Xu L, Xu C, Yu D, Xiang X, Huang H, Hu Y. Synthesis of functional ionic liquid modified magnetic chitosan nanoparticles for porcine pancreatic lipase immobilization. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2018; 96:356-364. [PMID: 30606543 DOI: 10.1016/j.msec.2018.11.041] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Revised: 10/24/2018] [Accepted: 11/24/2018] [Indexed: 10/27/2022]
Abstract
We developed magnetic chitosan nanoparticles (CS‑Fe3O4) with mean diameter of 15-20 nm. Subsequently, these inorganic-organic composite nanoparticles were modified using an imidazole-based functional ionic liquid (IL). The prepared support (IL‑CS‑Fe3O4), which was used to immobilize porcine pancreatic lipase (PPL), was characterized using Fourier transform infrared (FTIR) spectroscopy, vibrating sample magnetometry (VSM), thermogravimetry (TG), transmission electron microscopy (TEM) and X-ray diffraction (XRD). Circular dichroism (CD) was used to analyze the secondary structure of immobilized PPL. The immobilized PPL (PPL‑IL‑CS‑Fe3O4) exhibited 1.93-fold higher specific activity than PPL‑CS-Fe3O4 when triacetin was used as the substrate, and showed 95 mg/g of lipase immobilization capacity and 382% of activity recovery. The residual activity of PPL‑IL‑CS‑Fe3O4 was above 60% of the initial activity after incubation at 50 °C for 6 h, as was higher than that of PPL‑CS‑Fe3O4 which showed 40% of the initial activity. In addition, PPL‑IL‑CS‑Fe3O4 retained 84.6% of the initial activity after 10 cycles, whereas PPL‑CS‑Fe3O4 retained only 75.5% activity. Furthermore, the kinetic parameters, apparent Km and Vmax of PPL‑IL‑CS‑Fe3O4 were 2.51 mg/mL and 1.395 U/mg respectively, these results indicated that the immobilized PPL had better affinity towards the substrate, especially when the nanoparticles were modified by functional IL. Besides, the magnetic chitosan nanoparticles loaded with PPL were easily recovered. A novel, efficient, and practical method for enzyme immobilization was developed.
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Affiliation(s)
- Hongbo Suo
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China; College of Chemistry and Environmental Science, Qujing Normal University, Qujing 655011, China
| | - Zhen Gao
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China
| | - Lili Xu
- College of Chemistry and Environmental Science, Qujing Normal University, Qujing 655011, China
| | - Chao Xu
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China
| | - Dinghua Yu
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China
| | - Xinran Xiang
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China
| | - He Huang
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China.
| | - Yi Hu
- State Key Laboratory of Materials-Oriented Chemical Engineering, School of Pharmaceutical Sciences, Nanjing Tech University, Nanjing 210009, China.
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21
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Cen Y, Li D, Xu J, Wu Q, Wu Q, Lin X. Highly Focused Library‐Based Engineering of
Candida antarctica
Lipase B with (
S
)‐Selectivity Towards
sec
‐Alcohols. Adv Synth Catal 2018. [DOI: 10.1002/adsc.201800711] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Yixin Cen
- Department of ChemistryZhejiang University Hangzhou 310027 People's Republic of China
| | - Danyang Li
- Department of ChemistryZhejiang University Hangzhou 310027 People's Republic of China
| | - Jian Xu
- Department of ChemistryZhejiang University Hangzhou 310027 People's Republic of China
| | - Qiongsi Wu
- Department of ChemistryZhejiang University Hangzhou 310027 People's Republic of China
| | - Qi Wu
- Department of ChemistryZhejiang University Hangzhou 310027 People's Republic of China
| | - Xianfu Lin
- Department of ChemistryZhejiang University Hangzhou 310027 People's Republic of China
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22
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Laccase-catalyzed bioconjugation of tyrosine-tagged functional proteins. J Biosci Bioeng 2018; 126:559-566. [DOI: 10.1016/j.jbiosc.2018.05.013] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2018] [Revised: 05/01/2018] [Accepted: 05/18/2018] [Indexed: 11/20/2022]
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23
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Krishnamurthy A, Mundra S, Belur PD. Improving the catalytic efficiency of Fibrinolytic enzyme from Serratia marcescens subsp. sakuensis by chemical modification. Process Biochem 2018. [DOI: 10.1016/j.procbio.2018.06.015] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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24
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SS-mPEG chemical modification of recombinant phospholipase C for enhanced thermal stability and catalytic efficiency. Int J Biol Macromol 2018; 111:1032-1039. [DOI: 10.1016/j.ijbiomac.2018.01.134] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Revised: 01/07/2018] [Accepted: 01/19/2018] [Indexed: 12/16/2022]
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25
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Xxxx P, Minamihata K, Tatsuke T, Lee JM, Kusakabe T, Kamiya N. Expression and Activation of Horseradish Peroxidase-Protein A/G Fusion Protein in Silkworm Larvae for Diagnostic Purposes. Biotechnol J 2018; 13:e1700624. [PMID: 29717548 DOI: 10.1002/biot.201700624] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2018] [Revised: 03/06/2018] [Indexed: 11/07/2022]
Abstract
Recombinant protein production can create artificial proteins with desired functions by introducing genetic modifications to the target proteins. Horseradish peroxidase (HRP) has been used extensively as a reporter enzyme in biotechnological applications; however, recombinant production of HRP has not been very successful, hampering the utilization of HRP with genetic modifications. A fusion protein comprising an antibody binding protein and HRP will be an ideal bio-probe for high-quality HRP-based diagnostic systems. A HRP-protein A/G fusion protein (HRP-pAG) is designed and its production in silkworm (Bombyx mori) is evaluated for the first time. HRP-pAG is expressed in a soluble apo form, and is activated successfully by incubating with hemin. The activated HRP-pAG is used directly for ELISA experiments and retains its activity over 20 days at 4 °C. Moreover, HRP-pAG is modified with biotin by the microbial transglutaminase (MTG) reaction. The biotinylated HRP-pAG is conjugated with streptavidin to form a HRP-pAG multimer and the multimeric HRP-pAG produced higher signals in the ELISA system than monomeric HRP-pAG. The successful production of recombinant HRP in silkworm will contribute to creating novel HRP-based bioconjugates as well as further functionalization of HRP by applying enzymatic post-translational modifications.
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Affiliation(s)
- Patmawati Xxxx
- Department of Applied Chemistry, Graduate School of Engineering, Kyushu University, Motooka 744, Nishi-ku, Fukuoka 819-0395, Japan
| | - Kosuke Minamihata
- Department of Applied Chemistry, Graduate School of Engineering, Kyushu University, Motooka 744, Nishi-ku, Fukuoka 819-0395, Japan
| | - Tsuneyuki Tatsuke
- Laboratory of Insect Genome Science, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Hakozaki 6-10-1, Higashi-ku, Fukuoka 812-8581, Japan
| | - Jae Man Lee
- Laboratory of Insect Genome Science, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Hakozaki 6-10-1, Higashi-ku, Fukuoka 812-8581, Japan
| | - Takahiro Kusakabe
- Laboratory of Insect Genome Science, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Hakozaki 6-10-1, Higashi-ku, Fukuoka 812-8581, Japan
| | - Noriho Kamiya
- Department of Applied Chemistry, Graduate School of Engineering, Kyushu University, Motooka 744, Nishi-ku, Fukuoka 819-0395, Japan
- Division of Biotechnology, Center for Future Chemistry, Kyushu University, Motooka 744, Nishi-ku, Fukuoka 819-0395, Japan
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26
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Xu C, Yin X, Zhang C, Chen H, Huang H, Hu Y. Improving Catalytic Performance of Burkholderiacepacia Lipase by Chemical Modification with Functional Ionic Liquids. Chem Res Chin Univ 2018. [DOI: 10.1007/s40242-018-7246-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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27
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Romero O, de las Rivas B, Lopez-Tejedor D, Palomo JM. Effect of Site-Specific Peptide-Tag Labeling on the Biocatalytic Properties of Thermoalkalophilic Lipase from Geobacillus thermocatenulatus. Chembiochem 2018; 19:369-378. [DOI: 10.1002/cbic.201700466] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2017] [Indexed: 12/19/2022]
Affiliation(s)
- Oscar Romero
- Department of Biocatalysis; Institute of Catalysis (CSIC); Marie Curie 2 Cantoblanco CampusUAM 28049 Madrid Spain
| | - Blanca de las Rivas
- Laboratorio de Biotecnología Microbiana; Instituto de Ciencia y Tecnología de alimentos y Nutrición (ICTAN-CSIC); José Antonio Novais, 10 28040 Madrid Spain
| | - David Lopez-Tejedor
- Department of Biocatalysis; Institute of Catalysis (CSIC); Marie Curie 2 Cantoblanco CampusUAM 28049 Madrid Spain
| | - Jose M. Palomo
- Department of Biocatalysis; Institute of Catalysis (CSIC); Marie Curie 2 Cantoblanco CampusUAM 28049 Madrid Spain
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28
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Peng Z, Peralta MDR, Toney MD. Extraordinarily Stable Amyloid Fibrils Engineered from Structurally Defined β-Solenoid Proteins. Biochemistry 2017; 56:6041-6050. [DOI: 10.1021/acs.biochem.7b00364] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Zeyu Peng
- Department of Chemistry, University of California, Davis, 1 Shields Avenue, Davis, California 95616, United States
| | - Maria D. R. Peralta
- Department of Chemistry, University of California, Davis, 1 Shields Avenue, Davis, California 95616, United States
| | - Michael D. Toney
- Department of Chemistry, University of California, Davis, 1 Shields Avenue, Davis, California 95616, United States
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29
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Darby JF, Atobe M, Firth JD, Bond P, Davies GJ, O'Brien P, Hubbard RE. Increase of enzyme activity through specific covalent modification with fragments. Chem Sci 2017; 8:7772-7779. [PMID: 29163914 PMCID: PMC5674511 DOI: 10.1039/c7sc01966a] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2017] [Accepted: 09/26/2017] [Indexed: 12/12/2022] Open
Abstract
Modulation of enzyme activity is a powerful means of probing cellular function and can be exploited for diverse applications. Here, we explore a method of enzyme activation where covalent tethering of a small molecule to an enzyme can increase catalytic activity (kcat/KM) up to 35-fold. Using a bacterial glycoside hydrolase, BtGH84, we demonstrate how small molecule "fragments", identified as activators in free solution, can be covalently tethered to the protein using Michael-addition chemistry. We show how tethering generates a constitutively-activated enzyme-fragment conjugate, which displays both improved catalytic efficiency and increased susceptibility to certain inhibitor classes. Structure guided modifications of the tethered fragment demonstrate how specific interactions between the fragment and the enzyme influence the extent of activation. This work suggests that a similar approach may be used to modulate the activity of enzymes such as to improve catalytic efficiency or increase inhibitor susceptibility.
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Affiliation(s)
- John F Darby
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
| | - Masakazu Atobe
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
- Asahi Kasei Pharma Corporation , 632-1 Mifuku, Izunokuni , Shizuoka 410-2321 , Japan
| | - James D Firth
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
| | - Paul Bond
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
| | - Gideon J Davies
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
| | - Peter O'Brien
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
| | - Roderick E Hubbard
- Department of Chemistry , University of York , Heslington , York , YO10 5DD , UK .
- Vernalis (R&D) Ltd , Granta Park, Abington , Cambridge , CB21 6GB , UK
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30
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Silva C, Martins M, Jing S, Fu J, Cavaco-Paulo A. Practical insights on enzyme stabilization. Crit Rev Biotechnol 2017; 38:335-350. [PMID: 28764566 DOI: 10.1080/07388551.2017.1355294] [Citation(s) in RCA: 115] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
Enzymes are efficient catalysts designed by nature to work in physiological environments of living systems. The best operational conditions to access and convert substrates at the industrial level are different from nature and normally extreme. Strategies to isolate enzymes from extremophiles can redefine new operational conditions, however not always solving all industrial requirements. The stability of enzymes is therefore a key issue on the implementation of the catalysts in industrial processes which require the use of extreme environments that can undergo enzyme instability. Strategies for enzyme stabilization have been exhaustively reviewed, however they lack a practical approach. This review intends to compile and describe the most used approaches for enzyme stabilization highlighting case studies in a practical point of view.
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Affiliation(s)
- Carla Silva
- a Centre of Biological Engineering (CEB) , University of Minho , Braga , Portugal
| | - Madalena Martins
- a Centre of Biological Engineering (CEB) , University of Minho , Braga , Portugal
| | - Su Jing
- b International Joint Research Laboratory for Textile and Fiber Bioprocesses , Jiangnan University , Wuxi , China
| | - Jiajia Fu
- c Key Laboratory of Science and Technology of Eco-Textiles , Ministry of Education, Jiangnan University , Wuxi , Jiangsu , China
| | - Artur Cavaco-Paulo
- a Centre of Biological Engineering (CEB) , University of Minho , Braga , Portugal.,b International Joint Research Laboratory for Textile and Fiber Bioprocesses , Jiangnan University , Wuxi , China
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31
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Park SH, Kwon JS, Lee BS, Park JH, Lee BK, Yun JH, Lee BY, Kim JH, Min BH, Yoo TH, Kim MS. BMP2-modified injectable hydrogel for osteogenic differentiation of human periodontal ligament stem cells. Sci Rep 2017; 7:6603. [PMID: 28747761 PMCID: PMC5529463 DOI: 10.1038/s41598-017-06911-8] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2017] [Accepted: 06/19/2017] [Indexed: 12/22/2022] Open
Abstract
This is the first report on the development of a covalently bone morphogenetic protein-2 (BMP2)-immobilized hydrogel that is suitable for osteogenic differentiation of human periodontal ligament stem cells (hPLSCs). O-propargyl-tyrosine (OpgY) was site-specifically incorporated into BMP2 to prepare BMP2-OpgY with an alkyne group. The engineered BMP2-OpgY exhibited osteogenic characteristics after in vitro osteogenic differentiation of hPLSCs, indicating the osteogenic ability of BMP2-OpgY. A methoxy polyethylene glycol-(polycaprolactone-(N3)) block copolymer (MC-N3) was prepared as an injectable in situ-forming hydrogel. BMP2 covalently immobilized on an MC hydrogel (MC-BMP2) was prepared quantitatively by a simple biorthogonal reaction between alkyne groups on BMP2-OpgY and azide groups on MC-N3 via a Cu(I)-catalyzed click reaction. The hPLSCs-loaded MC-BMP2 formed a hydrogel almost immediately upon injection into animals. In vivo osteogenic differentiation of hPLSCs in the MC-BMP2 formulation was confirmed by histological staining and gene expression analyses. Histological staining of hPLSC-loaded MC-BMP2 implants showed evidence of mineralized calcium deposits, whereas hPLSC-loaded MC-Cl or BMP2-OpgY mixed with MC-Cl, implants showed no mineral deposits. Additionally, MC-BMP2 induced higher levels of osteogenic gene expression in hPLSCs than in other groups. In conclusion, BMP2-OpgY covalently immobilized on MC-BMP2 induced osteogenic differentiation of hPLSCs as a noninvasive method for bone tissue engineering.
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Affiliation(s)
- Seung Hun Park
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Jin Seon Kwon
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Byeong Sung Lee
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Ji Hoon Park
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Bo Keun Lee
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Jeong-Ho Yun
- Department of Periodontology, School of Dentistry and Institute of Oral Bioscience, Chonbuk National University, Jeonju, 561-712, Korea
| | - Bun Yeoul Lee
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Jae Ho Kim
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Byoung Hyun Min
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea
| | - Tae Hyeon Yoo
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea.
| | - Moon Suk Kim
- Department of Molecular Science and Technology, Ajou University, Suwon, 443-749, Korea.
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Milczek EM. Commercial Applications for Enzyme-Mediated Protein Conjugation: New Developments in Enzymatic Processes to Deliver Functionalized Proteins on the Commercial Scale. Chem Rev 2017. [DOI: 10.1021/acs.chemrev.6b00832] [Citation(s) in RCA: 71] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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Bertrand B, Martínez-Morales F, Trejo-Hernández MR. Upgrading Laccase Production and Biochemical Properties: Strategies and Challenges. Biotechnol Prog 2017; 33:1015-1034. [PMID: 28393483 DOI: 10.1002/btpr.2482] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2017] [Revised: 03/31/2017] [Indexed: 12/22/2022]
Abstract
Improving laccases continues to be crucial in novel biotechnological developments and industrial applications, where they are concerned. This review breaks down and explores the potential of the strategies (conventional and modern) that can be used for laccase enhancement (increased production and upgraded biochemical properties such as stability and catalytic efficiency). The challenges faced with these approaches are briefly discussed. We also shed light on how these strategies merge and give rise to new options and advances in this field of work. Additionally, this article seeks to serve as a guide for students and academic researchers interested in laccases. This document not only gives basic information on laccases, but also provides updated information on the state of the art of various technologies that are used in this line of investigation. It also gives the readers an idea of the areas extensively studied and the areas where there is still much left to be done. © 2017 American Institute of Chemical Engineers Biotechnol. Prog., 33:1015-1034, 2017.
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Affiliation(s)
- Brandt Bertrand
- Department of Environmental Biotechnology, Centro de Investigación en Biotecnología, Universidad Autónoma del Estado de Morelos, Avenida Universidad 1001, Chamilpa, Cuernavaca, Morelos, CP 62209, México
| | - Fernando Martínez-Morales
- Department of Environmental Biotechnology, Centro de Investigación en Biotecnología, Universidad Autónoma del Estado de Morelos, Avenida Universidad 1001, Chamilpa, Cuernavaca, Morelos, CP 62209, México
| | - María R Trejo-Hernández
- Department of Environmental Biotechnology, Centro de Investigación en Biotecnología, Universidad Autónoma del Estado de Morelos, Avenida Universidad 1001, Chamilpa, Cuernavaca, Morelos, CP 62209, México
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Tang CC, Shi YJ, Chen YJ, Chang LS. Ovalbumin with Glycated Carboxyl Groups Shows Membrane-Damaging Activity. Int J Mol Sci 2017; 18:ijms18030520. [PMID: 28264493 PMCID: PMC5372536 DOI: 10.3390/ijms18030520] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2017] [Revised: 02/17/2017] [Accepted: 02/22/2017] [Indexed: 11/25/2022] Open
Abstract
The aim of the present study was to investigate whether glycated ovalbumin (OVA) showed novel activity at the lipid-water interface. Mannosylated OVA (Man-OVA) was prepared by modification of the carboxyl groups with p-aminophenyl α-dextro (d)-mannopyranoside. An increase in the number of modified carboxyl groups increased the membrane-damaging activity of Man-OVA on cell membrane-mimicking vesicles, whereas OVA did not induce membrane permeability in the tested phospholipid vesicles. The glycation of carboxyl groups caused a notable change in the gross conformation of OVA. Moreover, owing to their spatial positions, the Trp residues in Man-OVA were more exposed, unlike those in OVA. Fluorescence quenching studies suggested that the Trp residues in Man-OVA were located on the interface binds with the lipid vesicles, and their microenvironment was abundant in positively charged residues. Although OVA and Man-OVA showed a similar binding affinity for lipid vesicles, the lipid-interacting feature of Man-OVA was distinct from that of OVA. Chemical modification studies revealed that Lys and Arg residues, but not Trp residues, played a crucial role in the membrane-damaging activity of Man-OVA. Taken together, our data suggest that glycation of carboxyl groups causes changes in the structural properties and membrane-interacting features of OVA, generating OVA with membrane-perturbing activities at the lipid-water interface.
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Affiliation(s)
- Ching-Chia Tang
- Institute of Biomedical Sciences, National Sun Yat-Sen University, Kaohsiung 804, Taiwan.
| | - Yi-Jun Shi
- Institute of Biomedical Sciences, National Sun Yat-Sen University, Kaohsiung 804, Taiwan.
| | - Ying-Jung Chen
- Department of Fragrance and Cosmetic Science, Kaohsiung Medical University, Kaohsiung 807, Taiwan.
| | - Long-Sen Chang
- Institute of Biomedical Sciences, National Sun Yat-Sen University, Kaohsiung 804, Taiwan.
- Department of Biotechnology, Kaohsiung Medical University, Kaohsiung 807, Taiwan.
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35
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Extending enzyme molecular recognition with an expanded amino acid alphabet. Proc Natl Acad Sci U S A 2017; 114:2610-2615. [PMID: 28196894 DOI: 10.1073/pnas.1616816114] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Natural enzymes are constructed from the 20 proteogenic amino acids, which may then require posttranslational modification or the recruitment of coenzymes or metal ions to achieve catalytic function. Here, we demonstrate that expansion of the alphabet of amino acids can also enable the properties of enzymes to be extended. A chemical mutagenesis strategy allowed a wide range of noncanonical amino acids to be systematically incorporated throughout an active site to alter enzymic substrate specificity. Specifically, 13 different noncanonical side chains were incorporated at 12 different positions within the active site of N-acetylneuraminic acid lyase (NAL), and the resulting chemically modified enzymes were screened for activity with a range of aldehyde substrates. A modified enzyme containing a 2,3-dihydroxypropyl cysteine at position 190 was identified that had significantly increased activity for the aldol reaction of erythrose with pyruvate compared with the wild-type enzyme. Kinetic investigation of a saturation library of the canonical amino acids at the same position showed that this increased activity was not achievable with any of the 20 proteogenic amino acids. Structural and modeling studies revealed that the unique shape and functionality of the noncanonical side chain enabled the active site to be remodeled to enable more efficient stabilization of the transition state of the reaction. The ability to exploit an expanded amino acid alphabet can thus heighten the ambitions of protein engineers wishing to develop enzymes with new catalytic properties.
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Virgen-Ortíz JJ, dos Santos JCS, Berenguer-Murcia Á, Barbosa O, Rodrigues RC, Fernandez-Lafuente R. Polyethylenimine: a very useful ionic polymer in the design of immobilized enzyme biocatalysts. J Mater Chem B 2017; 5:7461-7490. [DOI: 10.1039/c7tb01639e] [Citation(s) in RCA: 172] [Impact Index Per Article: 24.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
This review discusses the possible roles of polyethylenimine (PEI) in the design of improved immobilized biocatalysts from diverse perspectives.
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Affiliation(s)
- Jose J. Virgen-Ortíz
- CONACYT-Centro de Investigación en Alimentación y Desarrollo
- A.C. (CIAD)-Consorcio CIDAM
- 58341 Morelia
- Mexico
| | - José C. S. dos Santos
- Instituto de Engenharias e Desenvolvimento Sustentável
- Universidade da Integração Internacional da Lusofonia Afro-Brasileira
- Acarape
- Brazil
| | - Ángel Berenguer-Murcia
- Instituto Universitario de Materiales
- Departamento de Química Inorgánica
- Universidad de Alicante
- Campus de San Vicente del Raspeig
- Ap. 99-03080 Alicante
| | - Oveimar Barbosa
- Departamento de Química
- Facultad de Ciencias
- Universidad del Tolima
- Ibagué
- Colombia
| | - Rafael C. Rodrigues
- Biocatalysis and Enzyme Technology Lab
- Institute of Food Science and Technology
- Federal University of Rio Grande do Sul
- Av. Bento Gonçalves
- Porto Alegre
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37
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Kumar K, Devarabhat P. Chemical Modification of Oxalate Oxidase Produced from Ochrobactrum intermedium CL6 Gave New Insight on its Catalytic Prowess. ACTA ACUST UNITED AC 2016. [DOI: 10.3923/ajb.2017.9.15] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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38
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Brabcová J, Blažek J, Krečmerová M, Vondrášek J, Palomo JM, Zarevúcka M. Regioselective Palmitoylation of 9-(2,3-Dihydroxy- propyl)adenine Catalyzed by a Glycopolymer-enzyme Conjugate. Molecules 2016; 21:E648. [PMID: 27196879 PMCID: PMC6274252 DOI: 10.3390/molecules21050648] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2016] [Revised: 05/04/2016] [Accepted: 05/10/2016] [Indexed: 01/26/2023] Open
Abstract
The enzymatic regioselective monopalmitoylation of racemic 9-(2,3-dihydroxypropyl)- adenine (DHPA), an approved antiviral agent, has been performed by an immobilized form of Candida antarctica B lipase (CAL-B) using a 4:1 DMF/hexane mixture as the reaction medium. To improve the chemical yield of the desired monopalmitoylation reaction, solid-phase chemical modifications of the lipase were evaluated. The reaction yield was successfully increased obtaining 100% product after a second treatment of the product solution with fresh immobilised chemically glycosylated-CAL-B.
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Affiliation(s)
- Jana Brabcová
- Institute of Organic Chemistry and Biochemistry, AS CR, Flemingovo nám. 2, Prague 6, Czech Republic.
| | - Jiří Blažek
- Institute of Organic Chemistry and Biochemistry, AS CR, Flemingovo nám. 2, Prague 6, Czech Republic.
| | - Marcela Krečmerová
- Institute of Organic Chemistry and Biochemistry, AS CR, Flemingovo nám. 2, Prague 6, Czech Republic.
| | - Jiří Vondrášek
- Institute of Organic Chemistry and Biochemistry, AS CR, Flemingovo nám. 2, Prague 6, Czech Republic.
| | - Jose M Palomo
- Departamento de Biocatálisis, Instituto de Catálisis (CSIC) Campus UAM Cantoblanco, Madrid 28049, Spain.
| | - Marie Zarevúcka
- Institute of Organic Chemistry and Biochemistry, AS CR, Flemingovo nám. 2, Prague 6, Czech Republic.
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39
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Rueda N, dos Santos JCS, Ortiz C, Torres R, Barbosa O, Rodrigues RC, Berenguer-Murcia Á, Fernandez-Lafuente R. Chemical Modification in the Design of Immobilized Enzyme Biocatalysts: Drawbacks and Opportunities. CHEM REC 2016; 16:1436-55. [DOI: 10.1002/tcr.201600007] [Citation(s) in RCA: 138] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2016] [Indexed: 11/08/2022]
Affiliation(s)
- Nazzoly Rueda
- Departamento de Biocatálisis; ICP-CSIC C/Marie Curie 2, Campus UAM-CSIC; Cantoblanco 28049 Madrid Spain
- Escuela de Química, Grupo de investigación en Bioquímica y Microbiología (GIBIM) Edificio Camilo Torres 210, Universidad Industrial de Santander; CEP 680001 Bucaramanga Colombia
| | - Jose C. S. dos Santos
- Departamento de Biocatálisis; ICP-CSIC C/Marie Curie 2, Campus UAM-CSIC; Cantoblanco 28049 Madrid Spain
- Instituto de Engenharias e Desenvolvimento Sustentável Universidade da Integração Internacional da Lusofonia Afro-Brasileira; CEP 62785-000 Acarape CE Brazil
| | - Claudia Ortiz
- Escuela de Microbiología, Universidad Industrial de Santander; Bucaramanga Colombia
| | - Rodrigo Torres
- Escuela de Química, Grupo de investigación en Bioquímica y Microbiología (GIBIM) Edificio Camilo Torres 210, Universidad Industrial de Santander; CEP 680001 Bucaramanga Colombia
| | - Oveimar Barbosa
- Departamento de Química; Facultad de Ciencias Universidad del Tolima; Ibagué Colombia
| | - Rafael C. Rodrigues
- Biocatalysis and Enzyme Technology Laboratory; Institute of Food Science and Technology Federal University of Rio Grande do Sul; Av. Bento Gonçalves 9500 P.O. Box 15090 Porto Alegre RS Brazil
| | - Ángel Berenguer-Murcia
- Instituto Universitario de Materiales Departamento de Química Inorgánica Universidad de Alicante Campus de San Vicente del Raspeig; Ap. 99 - 03080 Alicante Spain
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40
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Kaushik M, Sinha P, Jaiswal P, Mahendru S, Roy K, Kukreti S. Protein engineering andde novodesigning of a biocatalyst. J Mol Recognit 2016; 29:499-503. [DOI: 10.1002/jmr.2546] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2016] [Revised: 02/16/2016] [Accepted: 04/01/2016] [Indexed: 11/07/2022]
Affiliation(s)
- Mahima Kaushik
- Cluster Innovation Centre; University of Delhi; Delhi 110 007 India
- Nucleic Acids Research Laboratory, Department of Chemistry; University of Delhi; Delhi 110007 India
| | - Prashant Sinha
- Cluster Innovation Centre; University of Delhi; Delhi 110 007 India
| | - Pragya Jaiswal
- Cluster Innovation Centre; University of Delhi; Delhi 110 007 India
| | - Swati Mahendru
- Nucleic Acids Research Laboratory, Department of Chemistry; University of Delhi; Delhi 110007 India
| | - Kapil Roy
- Nucleic Acids Research Laboratory, Department of Chemistry; University of Delhi; Delhi 110007 India
| | - Shrikant Kukreti
- Nucleic Acids Research Laboratory, Department of Chemistry; University of Delhi; Delhi 110007 India
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41
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Gunnoo SB, Madder A. Chemical Protein Modification through Cysteine. Chembiochem 2016; 17:529-53. [DOI: 10.1002/cbic.201500667] [Citation(s) in RCA: 242] [Impact Index Per Article: 30.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2015] [Indexed: 12/15/2022]
Affiliation(s)
- Smita B. Gunnoo
- Organic & Biomimetic Chemistry Research Group; Department of Organic and Macromolecular Chemistry; Ghent University; Krijgslaan 281 9000 Gent Belgium
| | - Annemieke Madder
- Organic & Biomimetic Chemistry Research Group; Department of Organic and Macromolecular Chemistry; Ghent University; Krijgslaan 281 9000 Gent Belgium
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42
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Zhang Y, Legrand YM, Petit E, Supuran CT, Barboiu M. Dynamic encapsulation and activation of carbonic anhydrase in multivalent dynameric host matrices. Chem Commun (Camb) 2016; 52:4053-5. [DOI: 10.1039/c6cc00796a] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The encapsulation of carbonic anhydrase by reversible dynamic polymers–dynamers was used to activate enzymatic reactions.
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Affiliation(s)
- Yan Zhang
- Institut Européen des Membranes
- Adaptive Supramolecular Nanosystems Group
- F-34095 Montpellier
- France
| | - Yves-Marie Legrand
- Institut Européen des Membranes
- Adaptive Supramolecular Nanosystems Group
- F-34095 Montpellier
- France
| | - Eddy Petit
- Institut Européen des Membranes
- Adaptive Supramolecular Nanosystems Group
- F-34095 Montpellier
- France
| | - Claudiu T. Supuran
- Università degli Studi di Firenze
- Polo Scientifico
- Laboratorio di Chimica Bio-inorganica
- 50019 Sesto Fiorentino
- Italy
| | - Mihail Barboiu
- Institut Européen des Membranes
- Adaptive Supramolecular Nanosystems Group
- F-34095 Montpellier
- France
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43
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Romero-Estudillo I, Saavedra C, Boto A, Álvarez E. Site-selective modification of peptides: From “customizable units” to novelα-aryl andα-alkyl glycine derivatives, and components of branched peptides. Biopolymers 2015; 104:650-62. [DOI: 10.1002/bip.22642] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2015] [Revised: 03/04/2015] [Accepted: 03/07/2015] [Indexed: 12/15/2022]
Affiliation(s)
- Iván Romero-Estudillo
- Instituto de Productos Naturales y Agrobiología CSIC; Avda. Astrofísico Fco. Sánchez 3, 38206 La Laguna Tenerife Spain
| | - Carlos Saavedra
- Instituto de Productos Naturales y Agrobiología CSIC; Avda. Astrofísico Fco. Sánchez 3, 38206 La Laguna Tenerife Spain
| | - Alicia Boto
- Instituto de Productos Naturales y Agrobiología CSIC; Avda. Astrofísico Fco. Sánchez 3, 38206 La Laguna Tenerife Spain
| | - Eleuterio Álvarez
- Instituto de Investigaciones Químicas CSIC-USE; Avda. Américo Vespucio 49, Isla de la Cartuja, 41092 Sevilla Spain
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44
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Li X, Zhang C, Li S, Huang H, Hu Y. Improving Catalytic Performance of Candida rugosa Lipase by Chemical Modification with Polyethylene Glycol Functional Ionic Liquids. Ind Eng Chem Res 2015. [DOI: 10.1021/acs.iecr.5b01881] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Xiujuan Li
- State Key Laboratory of Materials-Oriented
Chemical Engineering, College of Biotechnology and Pharmaceutical
Engineering, Nanjing Tech University, No. 5 Xinmofan Road, Nanjing 210009, China
| | - Chuan Zhang
- State Key Laboratory of Materials-Oriented
Chemical Engineering, College of Biotechnology and Pharmaceutical
Engineering, Nanjing Tech University, No. 5 Xinmofan Road, Nanjing 210009, China
| | - Shuang Li
- State Key Laboratory of Materials-Oriented
Chemical Engineering, College of Biotechnology and Pharmaceutical
Engineering, Nanjing Tech University, No. 5 Xinmofan Road, Nanjing 210009, China
| | - He Huang
- State Key Laboratory of Materials-Oriented
Chemical Engineering, College of Biotechnology and Pharmaceutical
Engineering, Nanjing Tech University, No. 5 Xinmofan Road, Nanjing 210009, China
| | - Yi Hu
- State Key Laboratory of Materials-Oriented
Chemical Engineering, College of Biotechnology and Pharmaceutical
Engineering, Nanjing Tech University, No. 5 Xinmofan Road, Nanjing 210009, China
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45
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Romero-Estudillo I, Boto A. Domino Process Achieves Site-Selective Peptide Modification with High Optical Purity. Applications to Chain Diversification and Peptide Ligation. J Org Chem 2015; 80:9379-91. [DOI: 10.1021/acs.joc.5b00932] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Ivan Romero-Estudillo
- Instituto de Productos Naturales y Agrobiología del CSIC, Avda. Astrofísico Francisco Sánchez 3, 38206-La Laguna, Tenerife, Spain
| | - Alicia Boto
- Instituto de Productos Naturales y Agrobiología del CSIC, Avda. Astrofísico Francisco Sánchez 3, 38206-La Laguna, Tenerife, Spain
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46
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Affiliation(s)
- Omar Boutureira
- Departament de Química Analítica i Química Orgànica, Universitat Rovira i Virgili , C/Marcel·lí Domingo s/n, 43007 Tarragona, Spain
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47
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New emerging bio-catalysts design in biotransformations. Biotechnol Adv 2015; 33:605-13. [PMID: 25560932 DOI: 10.1016/j.biotechadv.2014.12.010] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2014] [Revised: 12/18/2014] [Accepted: 12/18/2014] [Indexed: 11/21/2022]
Abstract
The development of new and successful biotransformation processes of key interest in medicinal and pharmaceutical chemistry involves creating new biocatalysts with improved or even new activities and selectivities. This review emphasizes the new emerging developed strategies to achieve this goal, site-selective chemical modification of enzymes using tailor-made peptides, specific insertion of metals or organometallic complexes into proteins producing bio-catalysts with multiple activities and computational design for creating evolved artificial enzymes with non-natural synthetic catalytic activities.
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48
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Pešić M, Božić N, López C, Lončar N, Álvaro G, Vujčić Z. Chemical modification of chloroperoxidase for enhanced stability and activity. Process Biochem 2014. [DOI: 10.1016/j.procbio.2014.05.025] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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49
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Improving the catalytic performance of porcine pancreatic lipase in the presence of [MMIm][MeSO4] with the modification of functional ionic liquids. Process Biochem 2014. [DOI: 10.1016/j.procbio.2014.01.011] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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50
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Arumugam S, Guo J, Mbua NE, Friscourt F, Lin N, Nekongo E, Boons GJ, Popik VV. Selective and Reversible Photochemical Derivatization of Cysteine Residues in Peptides and Proteins. Chem Sci 2014; 5:1591-1598. [PMID: 24765521 PMCID: PMC3994131 DOI: 10.1039/c3sc51691a] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Selective derivatization of solvent-exposed cysteine residues in peptides and proteins is achieved by brief irradiation of an aqueous solution containing 3-(hydroxymethyl)-2-naphthol derivatives (NQMPs) with 350 nm fluorescent lamp. NQMP can be conjugated with various moieties, such as PEG, dyes, carbohydrates, or possess a fragment for further selective derivatization, e.g., biotin, azide, alkyne, etc. Attractive features of this labeling approach include an exceptionally fast rate of the reaction and a requirement for low equivalence of the reagent. The NQMP-thioether linkage is stable under ambient conditions, survives protein digestion and MS analysis. Irradiation of NQMP-labeled protein in a dilute solution (<40 μM) or in the presence of a vinyl ether results in a traceless release of the substrate. The reversible biotinylation of bovine serum albumin, as well as capture and release of this protein using NeutrAvidin Agarose resin beads has been demonstrated.
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Affiliation(s)
| | - Jun Guo
- Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA
| | - Ngalle Eric Mbua
- Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA
| | - Frédéric Friscourt
- Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA
| | - Nannan Lin
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA
| | - Emmanuel Nekongo
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA
| | - Geert-Jan Boons
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA
- Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA
| | - Vladimir V. Popik
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA
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