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Thomas R, Fukamizo T, Suginta W. Green-Chemical Strategies for Production of Tailor-Made Chitooligosaccharides with Enhanced Biological Activities. Molecules 2023; 28:6591. [PMID: 37764367 PMCID: PMC10536575 DOI: 10.3390/molecules28186591] [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: 05/26/2023] [Revised: 08/23/2023] [Accepted: 08/30/2023] [Indexed: 09/29/2023] Open
Abstract
Chitooligosaccharides (COSs) are b-1,4-linked homo-oligosaccharides of N-acetylglucosamine (GlcNAc) or glucosamine (GlcN), and also include hetero-oligosaccharides composed of GlcNAc and GlcN. These sugars are of practical importance because of their various biological activities, such as antimicrobial, anti-inflammatory, antioxidant and antitumor activities, as well as triggering the innate immunity in plants. The reported data on bioactivities of COSs used to contain some uncertainties or contradictions, because the experiments were conducted with poorly characterized COS mixtures. Recently, COSs have been satisfactorily characterized with respect to their structures, especially the degree of polymerization (DP) and degree of N-acetylation (DA); thus, the structure-bioactivity relationship of COSs has become more unambiguous. To date, various green-chemical strategies involving enzymatic synthesis of COSs with designed sequences and desired biological activities have been developed. The enzymatic strategies could involve transglycosylation or glycosynthase reactions using reducing end-activated sugars as the donor substrates and chitinase/chitosanase and their mutants as the biocatalysts. Site-specific chitin deacetylases were also proposed to be applicable for this purpose. Furthermore, to improve the yields of the COS products, metabolic engineering techniques could be applied. The above-mentioned approaches will provide the opportunity to produce tailor-made COSs, leading to the enhanced utilization of chitin biomass.
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Affiliation(s)
- Reeba Thomas
- School of Biomolecular Science and Engineering (BSE), Vidyasirimedhi Institute of Science and Technology (VISTEC), Payunai, Wangchan District, Rayong 21210, Thailand; (R.T.); (T.F.)
| | - Tamo Fukamizo
- School of Biomolecular Science and Engineering (BSE), Vidyasirimedhi Institute of Science and Technology (VISTEC), Payunai, Wangchan District, Rayong 21210, Thailand; (R.T.); (T.F.)
- Department of Advanced Bioscience, Kindai University, 3327-204 Nakamachi, Nara 631-8505, Japan
| | - Wipa Suginta
- School of Biomolecular Science and Engineering (BSE), Vidyasirimedhi Institute of Science and Technology (VISTEC), Payunai, Wangchan District, Rayong 21210, Thailand; (R.T.); (T.F.)
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2
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Rousseau A, Armand S, Cottaz S, Fort S. Size-Controlled Synthesis of β(1→4)-GlcNAc Oligosaccharides Using an Endo-Glycosynthase. Chemistry 2021; 27:17637-17646. [PMID: 34633724 DOI: 10.1002/chem.202103212] [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: 09/03/2021] [Indexed: 11/11/2022]
Abstract
Chitin and peptidoglycan fragments are well recognized as pathogen associated molecular patterns (PAMPs). Long-chain oligosaccharides of β(1→4)-linked N-acetyl-D-glucosamine (GlcNAc) units indeed activate plants and mammals innate immune system. However, the mechanisms underlying PAMPs perception by lysine motif (LysM) domain receptors remain largely unknown because of insufficient availability of high-affinity molecular probes. Here, we report a two-enzyme cascade to synthesize long-chain β(1→4)-linked GlcNAc oligomers. Expression of the D52S mutant of hen egg-white lysozyme (HEWL) in Pichia pastoris at 52 mg L-1 provided a new glycosynthase catalyzing efficient polymerization of α-chitintriosyl fluoride. Selective N-deacetylation at the non-reducing unit of the glycosyl fluoride donor by Sinorhizobium meliloti NodB chitin-N-deacetylase abolished its ability to be polymerized by the glycosynthase but not to be transferred onto an acceptor. Using NodB and D52S HEWL in a one-pot cascade reaction allowed the synthesis on a milligram scale of chitin hexa-, hepta- and octasaccharides with yields up to 65 % and a perfect control over their size.
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Affiliation(s)
| | - Sylvie Armand
- CERMAV, Univ. Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Sylvain Cottaz
- CERMAV, Univ. Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Sébastien Fort
- CERMAV, Univ. Grenoble Alpes, CNRS, 38000, Grenoble, France
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3
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Fittolani G, Tyrikos-Ergas T, Vargová D, Chaube MA, Delbianco M. Progress and challenges in the synthesis of sequence controlled polysaccharides. Beilstein J Org Chem 2021; 17:1981-2025. [PMID: 34386106 PMCID: PMC8353590 DOI: 10.3762/bjoc.17.129] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 07/22/2021] [Indexed: 01/15/2023] Open
Abstract
The sequence, length and substitution of a polysaccharide influence its physical and biological properties. Thus, sequence controlled polysaccharides are important targets to establish structure-properties correlations. Polymerization techniques and enzymatic methods have been optimized to obtain samples with well-defined substitution patterns and narrow molecular weight distribution. Chemical synthesis has granted access to polysaccharides with full control over the length. Here, we review the progress towards the synthesis of well-defined polysaccharides. For each class of polysaccharides, we discuss the available synthetic approaches and their current limitations.
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Affiliation(s)
- Giulio Fittolani
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany
- Department of Chemistry and Biochemistry, Freie Universität Berlin, Arnimallee 22, 14195 Berlin, Germany
| | - Theodore Tyrikos-Ergas
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany
- Department of Chemistry and Biochemistry, Freie Universität Berlin, Arnimallee 22, 14195 Berlin, Germany
| | - Denisa Vargová
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany
| | - Manishkumar A Chaube
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany
| | - Martina Delbianco
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany
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4
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Nidetzky B, Zhong C. Phosphorylase-catalyzed bottom-up synthesis of short-chain soluble cello-oligosaccharides and property-tunable cellulosic materials. Biotechnol Adv 2020; 51:107633. [PMID: 32966861 DOI: 10.1016/j.biotechadv.2020.107633] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2020] [Revised: 08/23/2020] [Accepted: 09/06/2020] [Indexed: 12/13/2022]
Abstract
Cellulose-based materials are produced industrially in countless varieties via top-down processing of natural lignocellulose substrates. By contrast, cellulosic materials are only rarely prepared via bottom up synthesis and oligomerization-induced self-assembly of cellulose chains. Building up a cellulose chain via precision polymerization is promising, however, for it offers tunability and control of the final chemical structure. Synthetic cellulose derivatives with programmable material properties might thus be obtained. Cellodextrin phosphorylase (CdP; EC 2.4.1.49) catalyzes iterative β-1,4-glycosylation from α-d-glucose 1-phosphate, with the ability to elongate a diversity of acceptor substrates, including cellobiose, d-glucose and a range of synthetic glycosides having non-sugar aglycons. Depending on the reaction conditions leading to different degrees of polymerization (DP), short-chain soluble cello-oligosaccharides (COS) or insoluble cellulosic materials are formed. Here, we review the characteristics of CdP as bio-catalyst for synthetic applications and show advances in the enzymatic production of COS and reducing end-modified, tailored cellulose materials. Recent studies reveal COS as interesting dietary fibers that could provide a selective prebiotic effect. The bottom-up synthesized celluloses involve chains of DP ≥ 9, as precipitated in solution, and they form ~5 nm thick sheet-like crystalline structures of cellulose allomorph II. Solvent conditions and aglycon structures can direct the cellulose chain self-assembly towards a range of material architectures, including hierarchically organized networks of nanoribbons, or nanorods as well as distorted nanosheets. Composite materials are also formed. The resulting materials can be useful as property-tunable hydrogels and feature site-specific introduction of functional and chemically reactive groups. Therefore, COS and cellulose obtained via bottom-up synthesis can expand cellulose applications towards product classes that are difficult to access via top-down processing of natural materials.
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Affiliation(s)
- Bernd Nidetzky
- Institute of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, Petersgasse 12, Graz 8010, Austria; Austrian Centre of Industrial Biotechnology (acib), Krenngasse 37, Graz 8010, Austria.
| | - Chao Zhong
- Institute of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, Petersgasse 12, Graz 8010, Austria
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Chao Q, Ding Y, Chen ZH, Xiang MH, Wang N, Gao XD. Recent Progress in Chemo-Enzymatic Methods for the Synthesis of N-Glycans. Front Chem 2020; 8:513. [PMID: 32612979 PMCID: PMC7309569 DOI: 10.3389/fchem.2020.00513] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Accepted: 05/18/2020] [Indexed: 01/06/2023] Open
Abstract
Asparagine (N)-linked glycosylation is one of the most common co- and post-translational modifications of both intra- and extracellularly distributing proteins, which directly affects their biological functions, such as protein folding, stability and intercellular traffic. Production of the structural well-defined homogeneous N-glycans contributes to comprehensive investigation of their biological roles and molecular basis. Among the various methods, chemo-enzymatic approach serves as an alternative to chemical synthesis, providing high stereoselectivity and economic efficiency. This review summarizes some recent advances in the chemo-enzymatic methods for the production of N-glycans, including the preparation of substrates and sugar donors, and the progress in the glycosyltransferases characterization which leads to the diversity of N-glycan synthesis. We discuss the bottle-neck and new opportunities in exploiting the chemo-enzymatic synthesis of N-glycans based on our research experiences. In addition, downstream applications of the constructed N-glycans, such as automation devices and homogeneous glycoproteins synthesis are also described.
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Affiliation(s)
| | | | | | | | - Ning Wang
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Xiao-Dong Gao
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
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6
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Schmölzer K, Weingarten M, Baldenius K, Nidetzky B. Lacto-N-tetraose synthesis by wild-type and glycosynthase variants of the β-N-hexosaminidase from Bifidobacterium bifidum. Org Biomol Chem 2020; 17:5661-5665. [PMID: 31094393 DOI: 10.1039/c9ob00424f] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Lacto-N-biose 1,2-oxazoline was prepared chemo-enzymatically and shown to be a donor substrate for β-1,3-glycosylation of lactose by the wild-type and glycosynthase variants (D320E, D320A, Y419F) of Bifidobacterium bifidum β-N-hexosaminidase. Lacto-N-tetraose, a core structure of human milk oligosaccharides, was formed in 20-60% yield of donor substrate (up to 8 mM product titre), depending on the degree of selectivity control by the enzyme used.
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Affiliation(s)
- Katharina Schmölzer
- Austrian Centre of Industrial Biotechnology (acib), Petersgasse 14, 8010 Graz, Austria.
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7
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Dutoit R, Delsaute M, Collet L, Vander Wauven C, Van Elder D, Berlemont R, Richel A, Galleni M, Bauvois C. Crystal structure determination of Pseudomonas stutzeri A1501 endoglucanase Cel5A: the search for a molecular basis for glycosynthesis in GH5_5 enzymes. Acta Crystallogr D Struct Biol 2019; 75:605-615. [PMID: 31205022 DOI: 10.1107/s2059798319007113] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Accepted: 05/16/2019] [Indexed: 01/23/2023] Open
Abstract
The discovery of new glycoside hydrolases that can be utilized in the chemoenzymatic synthesis of carbohydrates has emerged as a promising approach for various biotechnological processes. In this study, recombinant Ps_Cel5A from Pseudomonas stutzeri A1501, a novel member of the GH5_5 subfamily, was expressed, purified and crystallized. Preliminary experiments confirmed the ability of Ps_Cel5A to catalyze transglycosylation with cellotriose as a substrate. The crystal structure revealed several structural determinants in and around the positive subsites, providing a molecular basis for a better understanding of the mechanisms that promote and favour synthesis rather than hydrolysis. In the positive subsites, two nonconserved positively charged residues (Arg178 and Lys216) were found to interact with cellobiose. This adaptation has also been reported for transglycosylating β-mannanases of the GH5_7 subfamily.
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Affiliation(s)
| | - Maud Delsaute
- InBioS - Center for Protein Engineering (CIP), Biological Macromolecules, University of Liège, 13 Allée du 6 Août, 4000 Liège, Belgium
| | | | | | - Dany Van Elder
- Laboratory of Microbiology, Université Libre de Bruxelles, 12 Rue des Professeurs Jeener et Brachet, 6041 Gosselies, Belgium
| | - Renaud Berlemont
- Department of Biological Sciences, California State University Long Beach, 1250 Bellflower Boulevard, Long Beach, CA 90840-9502, USA
| | - Aurore Richel
- Gembloux Agro-Bio Tech, University of Liège, 2 Passage des Déportés, 5030 Gembloux, Belgium
| | - Moreno Galleni
- InBioS - Center for Protein Engineering (CIP), Biological Macromolecules, University of Liège, 13 Allée du 6 Août, 4000 Liège, Belgium
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8
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Schmölzer K, Weingarten M, Baldenius K, Nidetzky B. Glycosynthase Principle Transformed into Biocatalytic Process Technology: Lacto-N-triose II Production with Engineered exo-Hexosaminidase. ACS Catal 2019. [DOI: 10.1021/acscatal.9b01288] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Katharina Schmölzer
- Austrian Centre of Industrial Biotechnology, Petersgasse 14, 8010 Graz, Austria
| | | | - Kai Baldenius
- BASF SE, Carl-Bosch-Strasse 38, 67056 Ludwigshafen, Germany
| | - Bernd Nidetzky
- Austrian Centre of Industrial Biotechnology, Petersgasse 14, 8010 Graz, Austria
- Institute of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, Petersgasse 12/I, 8010 Graz, Austria
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9
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Romero-Téllez S, Lluch JM, González-Lafont À, Masgrau L. Comparing Hydrolysis and Transglycosylation Reactions Catalyzed by Thermus thermophilus β-Glycosidase. A Combined MD and QM/MM Study. Front Chem 2019; 7:200. [PMID: 31024890 PMCID: PMC6467970 DOI: 10.3389/fchem.2019.00200] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Accepted: 03/15/2019] [Indexed: 01/26/2023] Open
Abstract
The synthesis of oligosaccharides and other carbohydrate derivatives is of relevance for the advancement of glycosciences both at the fundamental and applied level. For many years, glycosyl hydrolases (GHs) have been explored to catalyze the synthesis of glycosidic bonds. In particular, retaining GHs can catalyze a transglycosylation (T) reaction that competes with hydrolysis (H). This has been done either employing controlled conditions in wild type GHs or by engineering new mutants. The goal, which is to increase the T/H ratio, has been achieved with moderate success in several cases despite the fact that the molecular basis for T/H modulation are unclear. Here we have used QM(DFT)/MM calculations to compare the glycosylation, hydrolysis and transglycosylation steps catalyzed by wild type Thermus thermophilus β-glycosidase (family GH1), a retaining glycosyl hydrolase for which a transglycosylation yield of 36% has been determined experimentally. The three transition states have a strong oxocarbenium character and ring conformations between 4H3 and 4E. The atomic charges at the transition states for hydrolysis and transglycosylation are very similar, except for the more negative charge of the oxygen atom of water when compared to that of the acceptor Glc. The glycosylation transition state has a stronger SN2 character than the deglycosylation ones and the proton transfer is less advanced. At the QM(PBE0/TZVP)/MM level, the TS for transglycosylation has shorter O4GLC-C1FUC (forming bond) distance and longer OE2GLU338-C1FUC (breaking) distance than the hydrolysis one, although the HACC proton is closer to the Glu164 base in the hydrolysis TS. The QM(SCC-DFTB)/MM free energy maxima show the inverted situation, although the hydrolysis TS presents significant structural fluctuations. The 3-OHGLC group of the acceptor Glc (transglycosylation) and WAT432 (neighbor water in hydrolysis) are identified to stabilize the oxocarbenium transition states through interaction with O5FUC and O4FUC. The analysis of interaction suggests that perturbing the Glu392-Fuc interaction could increase the T/H ratio, either by direct mutation of this residue or indirectly as reported experimentally in the Asn390I and Phe401S cases. The molecular understanding of similarities and differences between hydrolysis and transglycosylation steps may be of help in the design of new biocatalysts for glycan synthesis.
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Affiliation(s)
- Sonia Romero-Téllez
- Departament de Química, Universitat Autònoma de Barcelona, Barcelona, Spain.,Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Barcelona, Spain
| | - José M Lluch
- Departament de Química, Universitat Autònoma de Barcelona, Barcelona, Spain.,Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Barcelona, Spain
| | - Àngels González-Lafont
- Departament de Química, Universitat Autònoma de Barcelona, Barcelona, Spain.,Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Barcelona, Spain
| | - Laura Masgrau
- Departament de Química, Universitat Autònoma de Barcelona, Barcelona, Spain.,Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Barcelona, Spain
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Senf D, Ruprecht C, Kishani S, Matic A, Toriz G, Gatenholm P, Wågberg L, Pfrengle F. Tailormade Polysaccharides with Defined Branching Patterns: Enzymatic Polymerization of Arabinoxylan Oligosaccharides. Angew Chem Int Ed Engl 2018; 57:11987-11992. [DOI: 10.1002/anie.201806871] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2018] [Indexed: 11/07/2022]
Affiliation(s)
- Deborah Senf
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
- Institute of Chemistry and Biochemistry; Freie Universität Berlin; Arnimallee 22 14195 Berlin Germany
| | - Colin Ruprecht
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
| | - Saina Kishani
- Fibre and Polymer Technology; Royal Institute of Technology; Stockholm 100 44 Sweden
- Wallenberg Wood Science Center; KTH Royal Institute of Technology; Stockholm 100 44 Sweden
| | - Aleksandar Matic
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
- Current address: University of Potsdam; Department of Chemistry; Karl-Liebknecht-Strasse 24-25 14476 Potsdam Germany
| | - Guillermo Toriz
- Wallenberg Wood Science Center and Biopolymer Technology; Department of Chemistry and Chemical Engineering; Chalmers University of Technology; Gothenburg 412 96 Sweden
| | - Paul Gatenholm
- Wallenberg Wood Science Center and Biopolymer Technology; Department of Chemistry and Chemical Engineering; Chalmers University of Technology; Gothenburg 412 96 Sweden
| | - Lars Wågberg
- Fibre and Polymer Technology; Royal Institute of Technology; Stockholm 100 44 Sweden
- Wallenberg Wood Science Center; KTH Royal Institute of Technology; Stockholm 100 44 Sweden
| | - Fabian Pfrengle
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
- Institute of Chemistry and Biochemistry; Freie Universität Berlin; Arnimallee 22 14195 Berlin Germany
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11
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Senf D, Ruprecht C, Kishani S, Matic A, Toriz G, Gatenholm P, Wågberg L, Pfrengle F. Tailormade Polysaccharides with Defined Branching Patterns: Enzymatic Polymerization of Arabinoxylan Oligosaccharides. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201806871] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Deborah Senf
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
- Institute of Chemistry and Biochemistry; Freie Universität Berlin; Arnimallee 22 14195 Berlin Germany
| | - Colin Ruprecht
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
| | - Saina Kishani
- Fibre and Polymer Technology; Royal Institute of Technology; Stockholm 100 44 Sweden
- Wallenberg Wood Science Center; KTH Royal Institute of Technology; Stockholm 100 44 Sweden
| | - Aleksandar Matic
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
- Current address: University of Potsdam; Department of Chemistry; Karl-Liebknecht-Strasse 24-25 14476 Potsdam Germany
| | - Guillermo Toriz
- Wallenberg Wood Science Center and Biopolymer Technology; Department of Chemistry and Chemical Engineering; Chalmers University of Technology; Gothenburg 412 96 Sweden
| | - Paul Gatenholm
- Wallenberg Wood Science Center and Biopolymer Technology; Department of Chemistry and Chemical Engineering; Chalmers University of Technology; Gothenburg 412 96 Sweden
| | - Lars Wågberg
- Fibre and Polymer Technology; Royal Institute of Technology; Stockholm 100 44 Sweden
- Wallenberg Wood Science Center; KTH Royal Institute of Technology; Stockholm 100 44 Sweden
| | - Fabian Pfrengle
- Department of Biomolecular Systems; Max Planck Institute of Colloids and Interfaces; Am Mühlenberg 1 14476 Potsdam Germany
- Institute of Chemistry and Biochemistry; Freie Universität Berlin; Arnimallee 22 14195 Berlin Germany
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12
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13
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Kwan DH. Structure-Guided Directed Evolution of Glycosidases: A Case Study in Engineering a Blood Group Antigen-Cleaving Enzyme. Methods Enzymol 2018; 597:25-53. [PMID: 28935105 DOI: 10.1016/bs.mie.2017.06.002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/10/2023]
Abstract
Directed evolution is an incredibly powerful strategy for engineering enzyme function. Applying this approach to glycosidases offers enormous potential for the development of highly specialized tools in chemical glycobiology. Performing enzyme directed evolution requires the generation, by random mutagenesis, of mutant libraries from which large numbers of variant enzymes must be screened in high-throughput assays. A structure-guided "semirational" method for library creation allows researchers to target specific amino acid positions for mutagenesis, concentrating mutations where they might be most effective in order to produce mutant libraries of a manageable size, minimizing screening effort while maximizing the chances of finding improved mutants. Well-designed assays, which may use specially prepared substrates, enable efficient screening of these mutant libraries. This chapter will detail general methods in the structure-guided directed evolution of glycosidases, which have previously been employed in engineering a blood group antigen-cleaving enzyme.
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Affiliation(s)
- David H Kwan
- Centre for Applied Synthetic Biology, Centre for Structural and Functional Genomics, Concordia University, Montréal, Québec, Canada.
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14
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Hong SJ, Ahn MH, Sangshetti J, Choung PH, Arote RB. Sugar-based gene delivery systems: Current knowledge and new perspectives. Carbohydr Polym 2018; 181:1180-1193. [DOI: 10.1016/j.carbpol.2017.11.105] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2017] [Revised: 11/26/2017] [Accepted: 11/28/2017] [Indexed: 12/11/2022]
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15
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Florindo RN, Souza VP, Mutti HS, Camilo C, Manzine LR, Marana SR, Polikarpov I, Nascimento AS. Structural insights into β-glucosidase transglycosylation based on biochemical, structural and computational analysis of two GH1 enzymes from Trichoderma harzianum. N Biotechnol 2018; 40:218-227. [DOI: 10.1016/j.nbt.2017.08.012] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2016] [Revised: 05/31/2017] [Accepted: 08/31/2017] [Indexed: 10/18/2022]
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16
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17
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Genetic and biochemical characterization of an oligo-α-1,6-glucosidase from Lactobacillus plantarum. Int J Food Microbiol 2017; 246:32-39. [DOI: 10.1016/j.ijfoodmicro.2017.01.021] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2016] [Revised: 11/03/2016] [Accepted: 01/30/2017] [Indexed: 01/01/2023]
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18
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Mendoza F, Lluch JM, Masgrau L. Computational insights into active site shaping for substrate specificity and reaction regioselectivity in the EXTL2 retaining glycosyltransferase. Org Biomol Chem 2017; 15:9095-9107. [DOI: 10.1039/c7ob01937h] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
QM(DFT)/MM calculations and molecular dynamics simulations on wild-type retaining α1,4-N-acetylhexosaminyltransferase (EXTL2) and Arg293Ala, Asp246Ala, Arg293Ala/Asp246Ala and Asp246Glu mutants are used to understand the role of these two residues.
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Affiliation(s)
- Fernanda Mendoza
- Departamento de Ciencias Químicas
- Facultad de Ciencias Exactas
- Universidad Andres Bello
- Sede Concepción
- Talcahuano
| | - José M. Lluch
- Institut de Biotecnologia i de Biomedicina (IBB)
- Universitat Autònoma de Barcelona
- 08193 Bellaterra (Cerdanyola del Vallès)
- Barcelona
- Spain
| | - Laura Masgrau
- Institut de Biotecnologia i de Biomedicina (IBB)
- Universitat Autònoma de Barcelona
- 08193 Bellaterra (Cerdanyola del Vallès)
- Barcelona
- Spain
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Li C, Wang LX. Endoglycosidases for the Synthesis of Polysaccharides and Glycoconjugates. Adv Carbohydr Chem Biochem 2016; 73:73-116. [PMID: 27816108 DOI: 10.1016/bs.accb.2016.07.001] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Recent advances in glycobiology have implicated essential roles of oligosaccharides and glycoconjugates in many important biological recognition processes, including intracellular signaling, cell adhesion, cell differentiation, cancer progression, host-pathogen interactions, and immune responses. A detailed understanding of the biological functions, as well as the development of carbohydrate-based therapeutics, often requires structurally well-defined oligosaccharides and glycoconjugates, which are usually difficult to isolate in pure form from natural sources. To meet with this urgent need, chemical and chemoenzymatic synthesis has become increasingly important as the major means to provide homogeneous compounds for functional glycocomics studies and for drug/vaccine development. Chemoenzymatic synthesis, an approach that combines chemical synthesis and enzymatic manipulations, is often the method of choice for constructing complex oligosaccharides and glycoconjugates that are otherwise difficult to achieve by purely chemical synthesis. Among these, endoglycosidases, a class of glycosidases that hydrolyze internal glycosidic bonds in glycoconjugates and polysaccharides, are emerging as a very attractive class of enzymes for synthetic purposes, due to their transglycosylation activity and their capability of transferring oligosaccharide units en bloc in a single step, in contrast to the limitation of monosaccharide transfers by common glycosyltransferases. In this chapter, we provide an overview on the application of endoglycosidases for the synthesis of complex carbohydrates, including oligosaccharides, polysaccharides, glycoproteins, glycolipids, proteoglycans, and other biologically relevant polysaccharides. The scope, limitation, and future directions of endoglycosidase-catalyzed synthesis are discussed.
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Affiliation(s)
- Chao Li
- University of Maryland, College Park, MD, United States
| | - Lai-Xi Wang
- University of Maryland, College Park, MD, United States
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20
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Mende M, Bednarek C, Wawryszyn M, Sauter P, Biskup MB, Schepers U, Bräse S. Chemical Synthesis of Glycosaminoglycans. Chem Rev 2016; 116:8193-255. [DOI: 10.1021/acs.chemrev.6b00010] [Citation(s) in RCA: 144] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Marco Mende
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Christin Bednarek
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Mirella Wawryszyn
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Paul Sauter
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Moritz B. Biskup
- Division
2—Informatics, Economics and Society, Karlsruhe Institute of Technology (KIT), Kaiserstraße 12, D-76131 Karlsruhe, Germany
| | - Ute Schepers
- Institute
of Toxicology and Genetics, Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany
| | - Stefan Bräse
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
- Institute
of Toxicology and Genetics, Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany
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21
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Talens-Perales D, Polaina J, Marín-Navarro J. Structural Dissection of the Active Site of Thermotoga maritima β-Galactosidase Identifies Key Residues for Transglycosylating Activity. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2016; 64:2917-2924. [PMID: 26998654 DOI: 10.1021/acs.jafc.6b00222] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Glycoside hydrolases, specifically β-galactosidases, can be used to synthesize galacto-oligosaccharides (GOS) due to the transglycosylating (secondary) activity of these enzymes. Site-directed mutagenesis of a thermoresistant β-galactosidase from Thermotoga maritima has been carried out to study the structural basis of transgalactosylation and to obtain enzymatic variants with better performance for GOS biosynthesis. Rational design of mutations was based on homologous sequence analysis and structural modeling. Analysis of mutant enzymes indicated that residue W959, or an alternative aromatic residue at this position, is critical for the synthesis of β-3'-galactosyl-lactose, the major GOS obtained with the wild-type enzyme. Mutants W959A and W959C, but not W959F, showed an 80% reduced synthesis of this GOS. Other substitutions, N574S, N574A, and F571L, increased the synthesis of β-3'-galactosyl-lactose about 40%. Double mutants F571L/N574S and F571L/N574A showed an increase of about 2-fold.
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Affiliation(s)
- David Talens-Perales
- Instituto de Agroquímica y Tecnología de Alimentos, CSIC , Paterna, Valencia, Spain
| | - Julio Polaina
- Instituto de Agroquímica y Tecnología de Alimentos, CSIC , Paterna, Valencia, Spain
| | - Julia Marín-Navarro
- Instituto de Agroquímica y Tecnología de Alimentos, CSIC , Paterna, Valencia, Spain
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22
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Mendoza F, Gómez H, Lluch JM, Masgrau L. α1,4-N-Acetylhexosaminyltransferase EXTL2: The Missing Link for Understanding Glycosidic Bond Biosynthesis with Retention of Configuration. ACS Catal 2016. [DOI: 10.1021/acscatal.5b02945] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Fernanda Mendoza
- Institut
de Biotecnologia i de Biomedicina (IBB) and ‡Departament
de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra (Cerdanyola del Vallès), Barcelona, Spain
| | - Hansel Gómez
- Institut
de Biotecnologia i de Biomedicina (IBB) and ‡Departament
de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra (Cerdanyola del Vallès), Barcelona, Spain
| | - José M. Lluch
- Institut
de Biotecnologia i de Biomedicina (IBB) and ‡Departament
de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra (Cerdanyola del Vallès), Barcelona, Spain
| | - Laura Masgrau
- Institut
de Biotecnologia i de Biomedicina (IBB) and ‡Departament
de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra (Cerdanyola del Vallès), Barcelona, Spain
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23
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Codera V, Edgar KJ, Faijes M, Planas A. Functionalized Celluloses with Regular Substitution Pattern by Glycosynthase-Catalyzed Polymerization. Biomacromolecules 2016; 17:1272-9. [DOI: 10.1021/acs.biomac.5b01453] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Victoria Codera
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Kevin J. Edgar
- Department
of Sustainable Biomaterials, Macromolecules
and Interfaces Institute, and Institute for
Critical Technologies and Applied Science, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - Magda Faijes
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
| | - Antoni Planas
- Laboratory
of Biochemistry, Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, 08017 Barcelona, Spain
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24
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25
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Carbohydrate-binding module assisting glycosynthase-catalysed polymerizations. Biochem J 2015; 470:15-22. [DOI: 10.1042/bj20150420] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2015] [Accepted: 06/02/2015] [Indexed: 11/17/2022]
Abstract
Glycosynthase-catalyzed polymerization is enhanced by the addition of a carbohydrate binding module (CBM), either as an isolated protein or fused to the glycosynthase, which results in an increase of the degree of polymerization of the polysaccharide products.
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26
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Farrán A, Cai C, Sandoval M, Xu Y, Liu J, Hernáiz MJ, Linhardt RJ. Green solvents in carbohydrate chemistry: from raw materials to fine chemicals. Chem Rev 2015; 115:6811-53. [PMID: 26121409 DOI: 10.1021/cr500719h] [Citation(s) in RCA: 155] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Angeles Farrán
- †Departamento de Química Orgánica y Bio-Orgánica, Facultad de Ciencias, Universidad Nacional de Educación a Distancia, Paseo Senda del Rey 4, 28040 Madrid, Spain
| | - Chao Cai
- ‡Key Laboratory of Marine Drugs of Ministry of Education, School of Medicine and Pharmacy, Ocean University of China, Qingdao 266003, China
| | - Manuel Sandoval
- §Escuela de Química, Universidad Nacional of Costa Rica, Post Office Box 86, 3000 Heredia, Costa Rica
| | - Yongmei Xu
- ∥Division of Chemical Biology and Medicinal Chemistry, Eshelman School of Pharmacy, University of North Carolina, Chapel Hill, North Carolina 27599, United States
| | - Jian Liu
- ∥Division of Chemical Biology and Medicinal Chemistry, Eshelman School of Pharmacy, University of North Carolina, Chapel Hill, North Carolina 27599, United States
| | - María J Hernáiz
- ▽Departamento de Química Orgánica y Farmacéutica, Facultad de Farmacia, Universidad Complutense de Madrid, Pz/Ramón y Cajal s/n, 28040 Madrid, Spain
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Glycosynthesis in a waterworld: new insight into the molecular basis of transglycosylation in retaining glycoside hydrolases. Biochem J 2015; 467:17-35. [PMID: 25793417 DOI: 10.1042/bj20141412] [Citation(s) in RCA: 117] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Carbohydrates are ubiquitous in Nature and play vital roles in many biological systems. Therefore the synthesis of carbohydrate-based compounds is of considerable interest for both research and commercial purposes. However, carbohydrates are challenging, due to the large number of sugar subunits and the multiple ways in which these can be linked together. Therefore, to tackle the challenge of glycosynthesis, chemists are increasingly turning their attention towards enzymes, which are exquisitely adapted to the intricacy of these biomolecules. In Nature, glycosidic linkages are mainly synthesized by Leloir glycosyltransferases, but can result from the action of non-Leloir transglycosylases or phosphorylases. Advantageously for chemists, non-Leloir transglycosylases are glycoside hydrolases, enzymes that are readily available and exhibit a wide range of substrate specificities. Nevertheless, non-Leloir transglycosylases are unusual glycoside hydrolases in as much that they efficiently catalyse the formation of glycosidic bonds, whereas most glycoside hydrolases favour the mechanistically related hydrolysis reaction. Unfortunately, because non-Leloir transglycosylases are almost indistinguishable from their hydrolytic counterparts, it is unclear how these enzymes overcome the ubiquity of water, thus avoiding the hydrolytic reaction. Without this knowledge, it is impossible to rationally design non-Leloir transglycosylases using the vast diversity of glycoside hydrolases as protein templates. In this critical review, a careful analysis of literature data describing non-Leloir transglycosylases and their relationship to glycoside hydrolase counterparts is used to clarify the state of the art knowledge and to establish a new rational basis for the engineering of glycoside hydrolases.
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28
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Pennec A, Daniellou R, Loyer P, Nugier-Chauvin C, Ferrières V. Araf51 with improved transglycosylation activities: one engineered biocatalyst for one specific acceptor. Carbohydr Res 2015; 402:50-5. [DOI: 10.1016/j.carres.2014.10.031] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2014] [Revised: 10/10/2014] [Accepted: 10/31/2014] [Indexed: 10/24/2022]
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29
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Pengthaisong S, Ketudat Cairns JR. Effects of active site cleft residues on oligosaccharide binding, hydrolysis, and glycosynthase activities of rice BGlu1 and its mutants. Protein Sci 2014; 23:1738-52. [PMID: 25252199 DOI: 10.1002/pro.2556] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2014] [Revised: 09/21/2014] [Accepted: 09/22/2014] [Indexed: 11/06/2022]
Abstract
Rice BGlu1 (Os3BGlu7) is a glycoside hydrolase family 1 β-glucosidase that hydrolyzes cellooligosaccharides with increasing efficiency as the degree of polymerization (DP) increases from 2 to 6, indicating six subsites for glucosyl residue binding. Five subsites have been identified in X-ray crystal structures of cellooligosaccharide complexes with its E176Q acid-base and E386G nucleophile mutants. X-ray crystal structures indicate that cellotetraose binds in a similar mode in BGlu1 E176Q and E386G, but in a different mode in the BGlu1 E386G/Y341A variant, in which glucosyl residue 4 (Glc4) interacts with Q187 instead of the eliminated phenolic group of Y341. Here, we found that the Q187A mutation has little effect on BGlu1 cellooligosaccharide hydrolysis activity or oligosaccharide binding in BGlu1 E176Q, and only slight effects on BGlu1 E386G glycosynthase activity. X-ray crystal structures showed that cellotetraose binds in a different position in BGlu1 E176Q/Y341A, in which it interacts directly with R178 and W337, and the Q187A mutation had little effect on cellotetraose binding. Mutations of R178 and W337 to A had significant and nonadditive effects on oligosaccharide hydrolysis by BGlu1, pNPGlc cleavage and cellooligosaccharide inhibition of BGlu1 E176Q and BGlu1 E386G glycosynthase activity. Hydrolysis activity was partially rescued by Y341 for longer substrates, suggesting stacking of Glc4 on Y341 stabilizes binding of cellooligosaccharides in the optimal position for hydrolysis. This analysis indicates that complex interactions between active site cleft residues modulate substrate binding and hydrolysis.
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Affiliation(s)
- Salila Pengthaisong
- School of Biochemistry, Institute of Science, and Center for Biomolecular Structure, Function and Application, Suranaree University of Technology, Nakhon Ratchasima, 30000, Thailand
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30
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Immobilization of thermostable β-galactosidase on epoxy support and its use for lactose hydrolysis and galactooligosaccharides biosynthesis. World J Microbiol Biotechnol 2014; 30:989-98. [PMID: 24122101 DOI: 10.1007/s11274-013-1517-8] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2013] [Accepted: 10/07/2013] [Indexed: 01/20/2023]
Abstract
Thermoresistant, recombinant β-galactosidase from Thermotoga maritima was purified and immobilized on the surface of epoxy-coated magnetic beads. The enzyme, which has hexameric quaternary structure as shown by gel filtration chromatography, attaches to the resin through multiple covalent linkages that involve different subunits. The bound enzyme shows higher stability than the free form. The immobilized enzyme showed to be efficient for the hydrolysis of lactose and the biosynthesis of galactooligosaccharides (GOS). The chemical structure of synthesized GOS has been determined by NMR revealing that the main product was β-3′-galactosyl lactose. Although β-galactosidases from different sources have been used for the same purposes, the distinct advantage of the methodology described in this communication is that the enzyme can be easily produced, purified and immobilized in large quantities.
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31
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Nakatani Y, Larsen DS, Cutfield SM, Cutfield JF. Major Change in Regiospecificity for the Exo-1,3-β-glucanase from Candida albicans following Its Conversion to a Glycosynthase. Biochemistry 2014; 53:3318-26. [DOI: 10.1021/bi500239m] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Y. Nakatani
- Biochemistry
Department, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
| | - D. S. Larsen
- Chemistry
Department, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
| | - S. M. Cutfield
- Biochemistry
Department, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
| | - J. F. Cutfield
- Biochemistry
Department, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
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32
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A transitional hydrolase to glycosynthase mutant by Glu to Asp substitution at the catalytic nucleophile in a retaining glycosidase. Carbohydr Res 2014; 389:85-92. [DOI: 10.1016/j.carres.2014.02.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2013] [Revised: 02/01/2014] [Accepted: 02/02/2014] [Indexed: 11/21/2022]
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33
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Screening glycosynthase libraries with a fluoride chemosensor assay independently of enzyme specificity: identification of a transitional hydrolase to synthase mutant. Biochem J 2014; 458:355-63. [DOI: 10.1042/bj20131057] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
The present paper describes a general screening assay for glycosynthase activity based on a chemosensor to transduce the released fluoride ion into a fluorescent signal. Application of the assay to a mutant library of 1,3-1,4-β-glucanase identified a mutation (E134D) that is an intermediate state between hydrolase and synthase.
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34
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Mulla D, Kracher D, Ludwig R, Nagy G, Grandits M, Holzer W, Saber Y, Gabra N, Viernstein H, Unger FM. Azido derivatives of cellobiose: oxidation at C1 with cellobiose dehydrogenase from Sclerotium rolfsii. Carbohydr Res 2013; 382:86-94. [DOI: 10.1016/j.carres.2013.09.004] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2013] [Revised: 08/30/2013] [Accepted: 09/08/2013] [Indexed: 10/26/2022]
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35
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Adrangi S, Faramarzi MA. From bacteria to human: a journey into the world of chitinases. Biotechnol Adv 2013; 31:1786-95. [PMID: 24095741 DOI: 10.1016/j.biotechadv.2013.09.012] [Citation(s) in RCA: 143] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2012] [Revised: 09/26/2013] [Accepted: 09/28/2013] [Indexed: 12/28/2022]
Abstract
Chitinases, the enzymes responsible for the biological degradation of chitin, are found in a wide range of organisms from bacteria to higher plants and animals. They participate in numerous physiological processes such as nutrition, parasitism, morphogenesis and immunity. Many organisms, in addition to chitinases, produce inactive chitinase-like lectins that despite lacking enzymatic activity are involved in several regulatory functions. Most known chitinases belong to families 18 and 19 of glycosyl hydrolases, however a few chitinases that belong to families 23 and 48 have also been identified in recent years. In this review, different aspects of chitinases and chi-lectins from bacteria, fungi, insects, plants and mammals are discussed.
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Affiliation(s)
- Sina Adrangi
- Department of Pharmaceutical Biotechnology, School of Pharmacy, Shahid Beheshti University of Medical Sciences, Tehran, Iran
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36
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Abstract
Glycan structural information is a prerequisite for elucidation of carbohydrate function in biological systems. To this end we employ a tripod approach for investigation of carbohydrate 3D structure and dynamics based on organic synthesis; different experimental spectroscopy techniques, NMR being of prime importance; and molecular simulations using, in particular, molecular dynamics (MD) simulations. The synthesis of oligosaccharides in the form of glucosyl fluorides is described, and their use as substrates for the Lam16A E115S glucosyl synthase is exemplified as well as a conformational analysis of a cyclic β-(1→3)-heptaglucan based on molecular simulations. The flexibility of the N-acetyl group of aminosugars is by MD simulations indicated to function as a gatekeeper for transitions of glycosidic torsion angles to other regions of conformational space. A novel approach to visualize glycoprotein (GP) structures is presented in which the protein is shown by, for example, ribbons, but instead of stick or space-filling models for the carbohydrate portion it is visualized by the colored geometrical figures known as CFG representation in a 3D way, which we denote 3D-CFG, thereby effectively highlighting the sugar residues of the glycan part of the GP and the position(s) on the protein.
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37
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Zhang Y, Yan S, Yao L. Mechanism of the Humicola insolens Cel7B E197S mutant catalyzed flavonoid glycosides synthesis: a QM/MM metadynamics simulation study. Theor Chem Acc 2013. [DOI: 10.1007/s00214-013-1367-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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38
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Yakhnin AV. A model for the origin of life through rearrangements among prebiotic phosphodiester polymers. ORIGINS LIFE EVOL B 2012; 43:39-47. [PMID: 23242831 DOI: 10.1007/s11084-012-9321-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2012] [Accepted: 09/01/2012] [Indexed: 11/25/2022]
Abstract
This model proposes that the origin of life on Earth occurred as a result of a process of alteration of the chemical composition of prebiotic macromolecules. The stability of organic compounds assembled into polymers generally exceeded the stability of the same compounds as free monomers. This difference in stability stimulated accumulation of prebiotic macromolecules. The prebiotic circulation of matter included constant formation and decomposition of polymers. Spontaneous chemical reactions between macromolecules with phosphodiester backbones resulted in a non-Darwinian selection for chemical stability, while formation of strong structures provided an advantage in the struggle for stability. Intermolecular structures between nucleotide-containing polymers were further stabilized by occasional acquisition of complementary nucleotides. Less stable macromolecules provided the source of nucleotides. This process resulted first in the enrichment of nucleotide content in prebiotic polymers, and subsequently in the accumulation of complementary oligonucleotides. Finally, the role of complementary copy molecules changed from the stabilization of the original templates to the de novo production of template-like molecules. I associate this stage with the origin of life in the form of cell-free molecular colonies. Original life acquired ready-to-use substrates from constantly forming prebiotic polymers. Metabolism started to develop when life began to consume more substrates than the prebiotic cycling produced. The developing utilization of non-polymeric compounds stimulated the formation of the first membrane-enveloped cells that held small soluble molecules. Cells "digested" the nucleotide-containing prebiotic macromolecules to nucleotide monomers and switched the mode of replication to the polymerization of nucleotide triphosphates.
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Affiliation(s)
- Alexander V Yakhnin
- Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA.
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39
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Leemhuis H, Pijning T, Dobruchowska JM, van Leeuwen SS, Kralj S, Dijkstra BW, Dijkhuizen L. Glucansucrases: three-dimensional structures, reactions, mechanism, α-glucan analysis and their implications in biotechnology and food applications. J Biotechnol 2012; 163:250-72. [PMID: 22796091 DOI: 10.1016/j.jbiotec.2012.06.037] [Citation(s) in RCA: 218] [Impact Index Per Article: 18.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2012] [Revised: 06/13/2012] [Accepted: 06/18/2012] [Indexed: 12/26/2022]
Abstract
Glucansucrases are extracellular enzymes that synthesize a wide variety of α-glucan polymers and oligosaccharides, such as dextran. These carbohydrates have found numerous applications in food and health industries, and can be used as pure compounds or even be produced in situ by generally regarded as safe (GRAS) lactic acid bacteria in food applications. Research in the recent years has resulted in big steps forward in the understanding and exploitation of the biocatalytic potential of glucansucrases. This paper provides an overview of glucansucrase enzymes, their recently elucidated crystal structures, their reaction and product specificity, and the structural analysis and applications of α-glucan polymers. Furthermore, we discuss key developments in the understanding of α-glucan polymer formation based on the recently elucidated three-dimensional structures of glucansucrase proteins. Finally we discuss the (potential) applications of α-glucans produced by lactic acid bacteria in food and health related industries.
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Affiliation(s)
- Hans Leemhuis
- Microbial Physiology, Groningen Biomolecular Sciences and Biotechnology Institute-GBB, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands
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40
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Yamamoto K, Davis BG. Creation of an α-mannosynthase from a broad glycosidase scaffold. Angew Chem Int Ed Engl 2012; 51:7449-53. [PMID: 22696205 DOI: 10.1002/anie.201201081] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2012] [Revised: 05/05/2012] [Indexed: 11/09/2022]
Affiliation(s)
- Keisuke Yamamoto
- Department of Chemistry, University of Oxford, Chemistry Research Laboratory, Mansfield Road, Oxford OX1 3TA, UK
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41
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Yamamoto K, Davis BG. Creation of an α-Mannosynthase from a Broad Glycosidase Scaffold. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201201081] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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42
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Affiliation(s)
- Ryan M Schmaltz
- The Department of Chemistry and Skaggs Institute for Chemical Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
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43
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Liu FC, Su CR, Wu TY, Su SG, Yang HL, Lin JHY, Wu TS. Efficient H-NMR quantitation and investigation of N-acetyl-d-glucosamine (GlcNAc) and N,N'-diacetylchitobiose (GlcNAc)(2) from chitin. Int J Mol Sci 2011; 12:5828-43. [PMID: 22016629 PMCID: PMC3189753 DOI: 10.3390/ijms12095828] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2011] [Revised: 08/22/2011] [Accepted: 08/26/2011] [Indexed: 12/21/2022] Open
Abstract
A quantitative determination method of N-acetyl-d-glucosamine (GlcNAc) and N,N′-diacetylchitobiose (GlcNAc)2 is proposed using a proton nuclear magnetic resonance experiment. N-acetyl groups of GlcNAc and (GlcNAc)2 are chosen as target signals, and the deconvolution technique is used to determine the concentration of the corresponding compound. Compared to the HPLC method, 1H-NMR spectroscopy is simple and fast. The method can be used for the analysis of chitin hydrolyzed products with real-time analysis, and for quantifying the content of products using internal standards without calibration curves. This method can be used to quickly evaluate chitinase activity. The temperature dependence of 1H-NMR spectra (VT-NMR) is studied to monitor the chemical shift variation of acetyl peak. The acetyl groups of products are involved in intramolecular H-bonding with the OH group on anomeric sites. The rotation of the acetyl group is closely related to the intramolecular hydrogen bonding pattern, as suggested by the theoretical data (molecular modeling).
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Affiliation(s)
- Fu-Chien Liu
- Department of Chemistry, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (F.-C.L.); (C.-R.S.); (T.-Y.W.); (S.-G.S.)
| | - Chung-Ren Su
- Department of Chemistry, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (F.-C.L.); (C.-R.S.); (T.-Y.W.); (S.-G.S.)
| | - Tzi-Yi Wu
- Department of Chemistry, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (F.-C.L.); (C.-R.S.); (T.-Y.W.); (S.-G.S.)
| | - Shyh-Gang Su
- Department of Chemistry, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (F.-C.L.); (C.-R.S.); (T.-Y.W.); (S.-G.S.)
| | - Huey-Lang Yang
- Institute of Biotechnology, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (H.-L.Y.); (J.H.-Y.L.)
| | - John Han-You Lin
- Institute of Biotechnology, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (H.-L.Y.); (J.H.-Y.L.)
| | - Tian-Shung Wu
- Department of Chemistry, National Cheng Kung University, Tainan 701, Taiwan; E-Mails: (F.-C.L.); (C.-R.S.); (T.-Y.W.); (S.-G.S.)
- Department of Pharmacy, China Medical University, Taichung 401, Taiwan
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +886-6-2757575; Fax: +886-6-2740552
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Tramice A, Andreotti G, Trincone A. Hydrosoluble antioxidants by enzymatic glucosylation of a vitamin E derivative using marine α-D-glucosidase from Aplysia fasciata. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2011; 13:773-781. [PMID: 21210171 DOI: 10.1007/s10126-010-9339-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2009] [Accepted: 10/29/2010] [Indexed: 05/30/2023]
Abstract
Relevant examples of polyglycosylating exo-glycosidases were reported among enzymes of marine origin (Aplysia fasciata, Geobacillus, and Pecten maximus). Herein we describe the enzymatic polyglucosylation of a chromane-methanol (2-hydroxymethyl-2,5,7,8-tetramethylchroman-6-ol) performed by using the α-D-glucosidase from the sea hare Aplysia fasciata. New di-, tri-, and tetrasaccharide derivatives were synthesized and their antioxidant activities were evaluated by DPPH test. High enzymatic substrate conversion was assessed by NMR spectroscopy, and the products were easily purified. These findings suggest that the proposed procedure is an effective process both for the molecular diversity of products and for the peculiar stereochemistry of the enzyme. At the beginning of the enzymatic reaction, only (S)-diastereomer of the monoglucoside was obtained. The isomaltoside was the most abundant disaccharide obtained and showed a radical scavenging activity similar to that of the chromane-methanol. The disaccharide can be considered a new hydrosoluble antioxidant agent useful for various technological applications (cosmetics, food industry, etc.). A relationship between the interglycosidic linkage present in disaccharides and trisaccharides and their scavenging activity was also pointed out.
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Affiliation(s)
- Annabella Tramice
- Istituto di Chimica Biomolecolare, Consiglio Nazionale delle Ricerche, Via Campi Flegrei 34, 80072 Pozzuoli, Naples, Italy
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Goffin D, Delzenne N, Blecker C, Hanon E, Deroanne C, Paquot M. Will isomalto-oligosaccharides, a well-established functional food in Asia, break through the European and American market? The status of knowledge on these prebiotics. Crit Rev Food Sci Nutr 2011; 51:394-409. [PMID: 21491266 DOI: 10.1080/10408391003628955] [Citation(s) in RCA: 87] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
This critical review article presents the current state of knowledge on isomalto-oligosaccharides, some well known functional oligosaccharides in Asia, to evaluate their potential as emergent prebiotics in the American and European functional food market. It includes first a unique inventory of the different families of compounds which have been considered as IMOs and their specific structure. A description has been given of the different production methods including the involved enzymes and their specific activities, the substrates, and the types of IMOs produced. Considering the structural complexity of IMO products, specific characterization methods are described, as well as purification methods which enable the body to get rid of digestible oligosaccharides. Finally, an extensive review of their techno-functional and nutritional properties enables placing IMOs inside the growing prebiotic market. This review is of particular interest considering that IMO commercialization in America and Europe is a topical subject due to the recent submission by Bioneutra Inc. (Canada) of a novel food file to the UK Food Standards Agency, as well as several patents for IMO production.
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Affiliation(s)
- Dorothee Goffin
- Department of Industrial Biological Chemistry, University of Liege - Gembloux Agro-Bio Tech, Passage des D´eport´es, 2, B-5030 Gembloux, Belgium.
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Spadiut O, Ibatullin FM, Peart J, Gullfot F, Martinez-Fleites C, Ruda M, Xu C, Sundqvist G, Davies GJ, Brumer H. Building custom polysaccharides in vitro with an efficient, broad-specificity xyloglucan glycosynthase and a fucosyltransferase. J Am Chem Soc 2011; 133:10892-900. [PMID: 21618981 PMCID: PMC3135005 DOI: 10.1021/ja202788q] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2011] [Indexed: 11/29/2022]
Abstract
The current drive for applications of biomass-derived compounds, for energy and advanced materials, has led to a resurgence of interest in the manipulation of plant polymers. The xyloglucans, a family of structurally complex plant polysaccharides, have attracted significant interest due to their intrinsic high affinity for cellulose, both in muro and in technical applications. Moreover, current cell wall models are limited by the lack of detailed structure-property relationships of xyloglucans, due to a lack of molecules with well-defined branching patterns. Here, we have developed a new, broad-specificity "xyloglucan glycosynthase", selected from active-site mutants of a bacterial endoxyloglucanase, which catalyzed the synthesis of high molar mass polysaccharides, with complex side-chain structures, from suitable glycosyl fluoride donor substrates. The product range was further extended by combination with an Arabidopsis thaliana α(1→2)-fucosyltransferase to achieve the in vitro synthesis of fucosylated xyloglucans typical of dicot primary cell walls. These enzymes thus comprise a toolkit for the controlled enzymatic synthesis of xyloglucans that are otherwise impossible to obtain from native sources. Moreover, this study demonstrates the validity of a chemo-enzymatic approach to polysaccharide synthesis, in which the simplicity and economy of glycosynthase technology is harnessed together with the exquisite specificity of glycosyltransferases to control molecular complexity.
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Affiliation(s)
- Oliver Spadiut
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
- Wallenberg Wood Science Center, Royal Institute of Technology (KTH), 100 44 Stockholm, Sweden
| | - Farid M. Ibatullin
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
| | - Jonelle Peart
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
| | - Fredrika Gullfot
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
| | - Carlos Martinez-Fleites
- York Structural Biology Laboratory, Department of Chemistry, University of York, Heslington, York YO10 5DD, United Kingdom
| | - Marcus Ruda
- Swetree Technologies AB, P.O. Box 4095, 904 03 Umeå, Sweden
| | - Chunlin Xu
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
- Wallenberg Wood Science Center, Royal Institute of Technology (KTH), 100 44 Stockholm, Sweden
| | - Gustav Sundqvist
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
| | - Gideon J. Davies
- York Structural Biology Laboratory, Department of Chemistry, University of York, Heslington, York YO10 5DD, United Kingdom
| | - Harry Brumer
- Division of Glycoscience, School of Biotechnology, Royal Institute of Technology (KTH), 106 91 Stockholm, Sweden
- Wallenberg Wood Science Center, Royal Institute of Technology (KTH), 100 44 Stockholm, Sweden
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Wang LX. The Amazing Transglycosylation Activity of Endo-β-N-acetylglucosaminidases. TRENDS GLYCOSCI GLYC 2011; 23:33-52. [PMID: 25309039 DOI: 10.4052/tigg.23.33] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Major advances have been made in exploring the transglycosylation activity of endo-β-N-acetylglucosaminidases (ENGases) for synthetic purpose. The exploration of synthetic sugar oxazolines as donor substrates for the ENGase-catalyzed transglycosylation has expanded the substrate availability and significantly enhanced the overall transglycosylation efficiency. On the other hand, site-directed mutagenesis in combination with activity screening has led to the discovery of the first generation ENGase-based glycosynthases that can use highly active sugar oxazolines as substrates for transglycosylation but lack hydrolytic activity on the ground-state products. ENGases have shown amazing flexibility in transglycosylation and possess much broader substrate specificity than previously thought. Now the ENGase-based chemoenzymatic method has been extended to the synthesis of a range of complex carbohydrates, including homogeneous glycopeptides, glycoproteins carrying well-defined glycans, novel oligosaccharide clusters, unusually glycosylated natural products, and even polysaccharides. This article highlights recent advances related to ENGase-catalyzed transglycosylation with a focus on their synthetic potential.
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Affiliation(s)
- Lai-Xi Wang
- Institute of Human Virology and Department of Biochemistry & Molecular Biology, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA, Tel: 410-706-4982
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Pérez X, Faijes M, Planas A. Artificial mixed-linked β-glucans produced by glycosynthase-catalyzed polymerization: tuning morphology and degree of polymerization. Biomacromolecules 2010; 12:494-501. [PMID: 21192641 DOI: 10.1021/bm1013537] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The glycosynthase derived from Bacillus licheniformis 1,3-1,4-β-glucanase was able to polymerize glycosyl fluoride donors (G4)(m)G3GαF (m = 0-2, G = Glcβ) leading to artificial mixed-linked β-glucans with regular sequences and variable β1,3 to β1,4 linkage ratios. With the E134A glycosynthase mutant, polymers had average molecular masses (M(w)) of 10-15 kDa. Whereas polymer 2 ([4G4G3G](n)) was an amorphous precipitate, the water-insoluble polymers 1 ([4G3G](n)) and 3 ([4G4G4G3G](n)) formed spherulites of 10-20 μm diameter. With the more active E134S glycosynthase mutant, polymerization led to high molecular mass polysaccharides, where M(w) was linearly dependent on enzyme concentration. Remarkably, a homo-polysaccharide [4G4G4G3G](n) with M(w) as high as 30.5 kDa (n ≈ 47) was obtained, which contained a small fraction of products up to 70 kDa, a value that is in the range of the molecular masses of low viscosity cereal 1,3-1,4-β-glucans, and among the largest products produced by a glycosynthase. Access to a range of novel tailor-made β-glucans through the glycosynthase technology will allow to evaluate the implications of polysaccharide fine structures in their physicochemical properties and their applications as biomaterials, as well as to provide valuable tools for biochemical characterization of β-glucan degrading enzymes and binding modules.
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Affiliation(s)
- Xavi Pérez
- Bioengineering Department, Institut Químic de Sarrià, Universitat Ramon Llull, Barcelona, Spain
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Egusa S, Kitaoka T, Igarashi K, Samejima M, Goto M, Wariishi H. Preparation and enzymatic behavior of surfactant-enveloped enzymes for glycosynthesis in nonaqueous aprotic media. ACTA ACUST UNITED AC 2010. [DOI: 10.1016/j.molcatb.2010.08.010] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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50
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Addington T, Calisto B, Alfonso-Prieto M, Rovira C, Fita I, Planas A. Re-engineering specificity in 1,3-1, 4-β-glucanase to accept branched xyloglucan substrates. Proteins 2010; 79:365-75. [DOI: 10.1002/prot.22884] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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