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Saavedra JM, Azócar MA, Rodríguez V, Ramírez-Sarmiento CA, Andrews BA, Asenjo JA, Parra LP. Relevance of Local Flexibility Near the Active Site for Enzymatic Catalysis: Biochemical Characterization and Engineering of Cellulase Cel5A FromBacillus agaradherans. Biotechnol J 2018; 13:e1700669. [DOI: 10.1002/biot.201700669] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2017] [Revised: 03/19/2018] [Indexed: 11/10/2022]
Affiliation(s)
- Juan M. Saavedra
- Department of Chemical Engineering and Biotechnology; Centre for Biotechnology and Bioengineering (CeBiB); University of Chile; Santiago Chile
| | - Mauricio A. Azócar
- Department of Chemical Engineering and Biotechnology; Centre for Biotechnology and Bioengineering (CeBiB); University of Chile; Santiago Chile
| | - Vida Rodríguez
- Department of Chemical Engineering and Biotechnology; Centre for Biotechnology and Bioengineering (CeBiB); University of Chile; Santiago Chile
| | - César A. Ramírez-Sarmiento
- Institute for Biological and Medical Engineering; Schools of Engineering,; Medicine and Biological Sciences; Pontificia Universidad Católica de Chile; Avenida Vicuña Mackenna 4860 Santiago 7820436 Chile
| | - Barbara A. Andrews
- Department of Chemical Engineering and Biotechnology; Centre for Biotechnology and Bioengineering (CeBiB); University of Chile; Santiago Chile
| | - Juan A. Asenjo
- Department of Chemical Engineering and Biotechnology; Centre for Biotechnology and Bioengineering (CeBiB); University of Chile; Santiago Chile
| | - Loreto P. Parra
- Institute for Biological and Medical Engineering; Schools of Engineering,; Medicine and Biological Sciences; Pontificia Universidad Católica de Chile; Avenida Vicuña Mackenna 4860 Santiago 7820436 Chile
- Department of Chemical and Bioprocesses Engineering; School of Engineering; Pontificia Universidad Católica de Chile; Santiago Chile
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Mitsuya D, Sugiyama T, Zhang S, Takeuchi Y, Okai M, Urano N, Ishida M. Enzymatic properties and the gene structure of a cold-adapted laminarinase from Pseudoalteromonas species LA. J Biosci Bioeng 2018; 126:169-175. [PMID: 29627318 DOI: 10.1016/j.jbiosc.2018.02.018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2017] [Revised: 02/17/2018] [Accepted: 02/22/2018] [Indexed: 11/18/2022]
Abstract
We isolated a laminarin-degrading cold-adapted bacterium strain LA from coastal seawater in Sagami Bay, Japan and identified it as a Pseudoalteromonas species. We named the extracellular laminarinase LA-Lam, and purified and characterized it. LA-Lam showed high degradation activity for Laminaria digitata laminarin in the ranges of 15-50°C and pH 5.0-9.0. The major terminal products degraded from L. digitata laminarin with LA-Lam were glucose, laminaribiose, and laminaritriose. The degradation profile of laminarioligosaccharides with LA-Lam suggested that the enzyme has a high substrate binding ability toward tetrameric or larger saccharides. Our results of the gene sequence and the SDS-PAGE analyses revealed that the major part of mature LA-Lam is a catalytic domain that belongs to the GH16 family, although its precursor is composed of a signal peptide, the catalytic domain, and three-repeated unknown regions.
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Affiliation(s)
- Daisuke Mitsuya
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - Takuya Sugiyama
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - Shuo Zhang
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - Yo Takeuchi
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - Masahiko Okai
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - Naoto Urano
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan
| | - Masami Ishida
- Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, 4-5-7 Konan, Minato, Tokyo 108-8477, Japan.
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Oda M, Inaba S, Kamiya N, Bekker GJ, Mikami B. Structural and thermodynamic characterization of endo-1,3-β-glucanase: Insights into the substrate recognition mechanism. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2018; 1866:415-425. [DOI: 10.1016/j.bbapap.2017.12.004] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2017] [Revised: 11/24/2017] [Accepted: 12/11/2017] [Indexed: 11/25/2022]
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Rezaie M, Aminzadeh S, Heidari F, Mashhadi Akbar Boojar M, Karkhane AA. Biochemical Characterization of Recombinant Thermostable Cohnella sp. A01 β-Glucanase. IRANIAN BIOMEDICAL JOURNAL 2018; 22:345-54. [PMID: 29331014 PMCID: PMC6058188 DOI: 10.29252/ibj.22.5.345] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Background Typically, non-cellulytic glucanase, including fungi and yeast cell wall hydrolyzing enzymes, are released by some symbiotic fungi and plants during the mycoparasitic fungi attack on plants. These enzymes are known as the defense mechanisms of plants. This study intends to investigate the biochemical properties of β-1,6-glucanase (bg16M) from native thermophilic bacteria, Cohnella A01. Methods bg16M gene was cloned and expressed in E. coli BL21 (DE3). The enzyme was purified utilizing Ni-NTA nikcle sepharose column. Pustulan and laminarin were selected as substrates in enzyme assay. The purified bg16M enzyme was treated with different pH, temperature, metal ions, and detergents. Results The expressed protein, including 639 amino acids, showed a high similarity with the hydrolytic glycosylated family 30. The molecular weight of enzyme was 64 kDa, and purification yield was 46%. The bg16M demonstrated activity as 4.83 U/ml on laminarin and 2.88 U/ml on pustulan. The optimum pH and temperature of the enzyme were 8 and 50 °C, respectively. The enzyme had an appropriate stability at high temperatures and in the pH range of 7 to 9, showing acceptable stability, while it did not lose enzymatic activity completely at acidic or basic pH. None of the studied metal ions and chemical compounds was the activator of bg16M, and urea, SDS, and copper acted as enzyme inhibitors. Conclusion Biochemical characterization of this enzyme revealed that bg16M can be applied in beverage industries and medical sectors because of its high activity, as well as thermal and alkaline stability.
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Affiliation(s)
- Meysam Rezaie
- National Institute for Genetic Engineering and Biotechnology (NIGEB), Institute of Industrial and Environmental Biotechnology, Bioprocess Engineering Research Group, Shahrak-E-Pajoohesh km 15, Tehran-Karaj Highway, P. O. Box: 14965/161, Tehran, Iran.,Faculty of Biological Sciences, Kharazmi University, Tehran, Iran
| | - Saeed Aminzadeh
- National Institute for Genetic Engineering and Biotechnology (NIGEB), Institute of Industrial and Environmental Biotechnology, Bioprocess Engineering Research Group, Shahrak-E-Pajoohesh km 15, Tehran-Karaj Highway, P. O. Box: 14965/161, Tehran, Iran
| | - Farid Heidari
- National Institute for Genetic Engineering and Biotechnology (NIGEB), Institute of Agricultural Biotechnology, Animal Biotechnology Department, Shahrak-E-Pajoohesh km 15, Tehran-Karaj Highway, P. O. Box: 14965/161, Tehran, Iran
| | | | - Ali Asghar Karkhane
- National Institute for Genetic Engineering and Biotechnology (NIGEB), Institute of Industrial and Environmental Biotechnology, Bioprocess Engineering Research Group, Shahrak-E-Pajoohesh km 15, Tehran-Karaj Highway, P. O. Box: 14965/161, Tehran, Iran
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A first glycoside hydrolase family 50 endo-β-1,3-d-glucanase from Pseudomonas aeruginosa. Enzyme Microb Technol 2018; 108:34-41. [DOI: 10.1016/j.enzmictec.2017.09.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2017] [Revised: 08/26/2017] [Accepted: 09/02/2017] [Indexed: 01/18/2023]
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Oda M, Tanabe Y, Noda M, Inaba S, Krayukhina E, Fukada H, Uchiyama S. Structural and binding properties of laminarin revealed by analytical ultracentrifugation and calorimetric analyses. Carbohydr Res 2016; 431:33-8. [PMID: 27267066 DOI: 10.1016/j.carres.2016.05.008] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Revised: 05/18/2016] [Accepted: 05/23/2016] [Indexed: 10/21/2022]
Abstract
One of the β-1,3-glucans, laminarin, has been widely used as a substrate for enzymes including endo-1,3-β-glucanase. To obtain quantitative information about the molecular interaction between laminarin and endo-1,3-β-glucanase, the structural properties of laminarin should be determined. The results from pioneering work using analytical ultracentrifugation for carbohydrate analysis showed that laminarin from Laminaria digitata predominantly exists as a single-chain species with approximately 5% of triple-helical species. Differential scanning calorimetry experiments did not show a peak assignable to the transition from triple-helix to single-chain, supporting the notion that a large proportion of laminarin is the single-chain species. The interaction of laminarin with an inactive variant of endo-1,3-β-glucanase from Cellulosimicrobium cellulans, E119A, was quantitatively analyzed using isothermal titration calorimetry. The binding was enthalpically driven and the binding affinity was approximately 10(6) M(-1). The results from binding stoichiometric analysis indicated that on average, E119A binds to laminarin in a 2:1 ratio. This seems to be reasonable, because laminarin mainly exists as a monomer, the apparent molecular mass of laminarin is 3.6 kDa, and E119A would have substrate-binding subsites corresponding to 6 glucose units. The analytical ultracentrifugation experiments could detect different complex species of laminarin and endo-1,3-β-glucanase.
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Affiliation(s)
- Masayuki Oda
- Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, 1-5, Hangi-cho, Shimogamo, Sakyo-ku, Kyoto 606-8522, Japan.
| | - Yoichi Tanabe
- Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, 1-5, Hangi-cho, Shimogamo, Sakyo-ku, Kyoto 606-8522, Japan
| | - Masanori Noda
- U-Medico Inc., 1-1, Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Satomi Inaba
- Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, 1-5, Hangi-cho, Shimogamo, Sakyo-ku, Kyoto 606-8522, Japan
| | | | - Harumi Fukada
- Graduate School of Life and Environmental Sciences, Osaka Prefecture University, 1-1, Gakuen-cho, Naka-ku, Sakai, Osaka 599-8531, Japan
| | - Susumu Uchiyama
- U-Medico Inc., 1-1, Yamadaoka, Suita, Osaka 565-0871, Japan; Graduate School of Engineering, Osaka University, 1-1, Yamadaoka, Suita, Osaka 565-0871, Japan
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Critical roles of Asp270 and Trp273 in the α-repeat of the carbohydrate-binding module of endo-1,3-β-glucanase for laminarin-binding avidity. Glycoconj J 2011; 29:77-85. [PMID: 22198269 DOI: 10.1007/s10719-011-9366-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2011] [Revised: 12/09/2011] [Accepted: 12/15/2011] [Indexed: 10/14/2022]
Abstract
A carbohydrate-binding module from family 13 (CBM13), appended to the catalytic domain of endo-1,3-β-glucanase from Cellulosimicrobium cellulans, was overexpressed in E. coli, and its interactions with β-glucans, laminarin and laminarioligosaccharides, were analyzed using surface plasmon resonance biosensor and isothermal titration calorimetry. The association constants for laminarin and laminarioligosaccharides were determined to be approximately 10(6) M(-1) and 10(4) M(-1), respectively, indicating that 2 or 3 binding sites in the α-, β-, and γ-repeats of CBM13 are involved in laminarin binding in a cooperative manner. The binding avidity is approximately 2-orders higher than the monovalent binding affinity. Mutational analysis of the conserved Asp residues in the respective repeats showed that the α-repeat primarily contributes to β-glucan binding. A Trp residue is predicted to be exposed to the solvent only in the α-repeat and would contribute to β-glucan binding. The α-repeat bound β-glucan with an affinity of approximately 10(4) M(-1), and the other repeats additionally bound laminarin, resulting in the increased binding avidity. This binding is unique compared to the recognition mode of another CBM13 from Streptomyces lividans xylanase.
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Molecular characterization of endo-1,3-β-glucanase from Cellulosimicrobium cellulans: Effects of carbohydrate-binding module on enzymatic function and stability. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2011; 1814:1713-9. [DOI: 10.1016/j.bbapap.2011.09.004] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2011] [Revised: 09/07/2011] [Accepted: 09/19/2011] [Indexed: 11/21/2022]
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Computer-aided design to select optimal polypeptide tags to assist the purification of recombinant proteins. Sep Purif Technol 2009. [DOI: 10.1016/j.seppur.2008.09.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Abstract
Enzymatic methods provide a convenient alternative for overcoming technical disadvantages of mechanical disruption. Protocols for protein extraction from bacteria and Saccharomyces cerevisiae using lytic enzymes are presented in this chapter. Adaptation of the yeast protocol to a microtiter plate format makes this protocol amenable for proteomic applications and high-throughput screening of libraries expressing genetic variants in yeast. This methodology can also be applied to bacteria.
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Salazar O, Asenjo JA. Enzymatic lysis of microbial cells. Biotechnol Lett 2007; 29:985-94. [PMID: 17464453 DOI: 10.1007/s10529-007-9345-2] [Citation(s) in RCA: 114] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2006] [Revised: 02/15/2007] [Accepted: 02/19/2007] [Indexed: 10/23/2022]
Abstract
Cell wall lytic enzymes are valuable tools for the biotechnologist, with many applications in medicine, the food industry, and agriculture, and for recovering of intracellular products from yeast or bacteria. The diversity of potential applications has conducted to the development of lytic enzyme systems with specific characteristics, suitable for satisfying the requirements of each particular application. Since the first time the lytic enzyme of excellence, lysozyme, was discovered, many investigations have contributed to the understanding of the action mechanisms and other basic aspects of these interesting enzymes. Today, recombinant production and protein engineering have improved and expanded the area of potential applications. In this review, some of the recent advances in specific enzyme systems for bacteria and yeast cells rupture and other applications are examined. Emphasis is focused in biotechnological aspects of these enzymes.
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Affiliation(s)
- Oriana Salazar
- Centre for Chemical Engineering and Biotechnology, Department of Chemical Engineering and Biotechnology, University of Chile, Beauchef 861, Santiago, Chile.
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Growth and Carcass Performance in Broiler Chickens Supplemented with β-Glucanase from Aerobic Fungi <I>Aspergillus Niger</I> and <I>Trichoderma Longibrachiatum</I>. J Poult Sci 2007. [DOI: 10.2141/jpsa.44.383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Ferrer P. Revisiting the Cellulosimicrobium cellulans yeast-lytic beta-1,3-glucanases toolbox: a review. Microb Cell Fact 2006; 5:10. [PMID: 16545129 PMCID: PMC1458353 DOI: 10.1186/1475-2859-5-10] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2005] [Accepted: 03/17/2006] [Indexed: 11/10/2022] Open
Abstract
Cellulosimicrobium cellulans (also known with the synonyms Cellulomonas cellulans, Oerskovia xanthineolytica, and Arthrobacter luteus) is an actinomycete that excretes yeast cell wall lytic enzyme complexes containing endo-beta-1,3-glucanases [EC 3.2.1.39 and 3.2.1.6] as key constituents. Three genes encoding endo-beta-1,3-glucanases from two C. cellulans strains have been cloned and characterised over the past years. The betaglII and betaglIIA genes from strain DSM 10297 (also known as O. xanthineolytica LL G109) encoded proteins of 40.8 and 28.6 kDa, respectively, whereas the beta-1,3-glucanase gene from strain ATCC 21606 (also known as A. luteus 73-14) encoded a 54.5 kDa protein. Alignment of their deduced amino acid sequences reveal that betaglII and betaglIIA have catalytic domains assigned to family 16 of glycosyl hydrolases, whereas the catalytic domain from the 54.5 kDa glucanase belongs to family 64. Notably, both betaglII and the 54.5 kDa beta-1,3-glucanase are multidomain proteins, having a lectin-like C-terminal domain that has been assigned to family 13 of carbohydrate binding modules, and that confers to beta-1,3-glucanases the ability to lyse viable yeast cells. Furthermore, betaglII may also undergo posttranslational proteolytic processing of its C-terminal domain, resulting in a truncated enzyme retaining its glucanase activity but with very low yeast-lytic activity. In this review, the diversity in terms of structural and functional characteristics of the C. cellulans beta-1,3-glucanases has been compiled and compared.
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Affiliation(s)
- Pau Ferrer
- Department of Chemical Engineering, Universitat Autònoma de Barcelona, 08193- Bellaterra (Cerdanyola del Vallès), Spain.
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Shin HS, Cha HJ. Statistical optimization for immobilized metal affinity purification of secreted human erythropoietin from Drosophila S2 cells. Protein Expr Purif 2003; 28:331-9. [PMID: 12699698 DOI: 10.1016/s1046-5928(02)00685-x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
We used a novel approach to affinity purify human erythropoietin (hEPO) following its secretion from Drosophila melanogaster S2 cells. Immobilized metal affinity purification of hEPO was optimized using a two-step serial statistical optimization strategy. After determining the elution conditions (based on preliminary batch-type purification experiments), the first optimization step considered three purification factors; resin, equilibrium, and washing. The results of this analysis showed that the resin amount was the major factor influencing yield and purity in both model equations and the washing factor lowered the confidence limits of the acquired model equations. The washing conditions were then set based on the results of the first step optimization and the second step then optimized three factors; resin, equilibrium, and elution. The yield and purity of hEPO were then compared following purification using three different approaches; batch-type purification based upon the conditions determined by serial statistical optimization, batch-type purification performed in preliminary experiments, and FPLC column chromatography-type purification. We found that the serial statistical optimization approach provided the best combination of yield and purity. These findings indicate that serial statistical optimization strategies can be successfully employed for immobilized metal affinity protein purification using either batch-type or column approaches.
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Affiliation(s)
- Hwa Sung Shin
- Department of Chemical Engineering and Division of Molecular and Life Sciences, Pohang University of Science and Technology, Pohang 790-784, Republic of Korea
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