5GQG
 
 | | Crystal structure of lacto-N-biosidase LnbX from Bifidobacterium longum subsp. longum, galacto-N-biose complex | | 分子名称: | CALCIUM ION, Lacto-N-biosidase, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose | | 著者 | Yamada, C, Arakawa, T, Katayama, T, Fushinobu, S. | | 登録日 | 2016-08-07 | | 公開日 | 2017-04-19 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.7 Å) | | 主引用文献 | Molecular Insight into Evolution of Symbiosis between Breast-Fed Infants and a Member of the Human Gut Microbiome Bifidobacterium longum
Cell Chem Biol, 24, 2017
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5GQF
 | | Crystal structure of lacto-N-biosidase LnbX from Bifidobacterium longum subsp. longum, lacto-N-biose complex | | 分子名称: | CALCIUM ION, Lacto-N-biosidase, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | | 著者 | Yamada, C, Arakawa, T, Katayama, T, Fushinobu, S. | | 登録日 | 2016-08-07 | | 公開日 | 2017-04-19 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (1.82 Å) | | 主引用文献 | Molecular Insight into Evolution of Symbiosis between Breast-Fed Infants and a Member of the Human Gut Microbiome Bifidobacterium longum
Cell Chem Biol, 24, 2017
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7V6M
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7V6I
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7WDT
 | | 6-sulfo-beta-D-N-acetylglucosaminidase from Bifidobacterium bifidum in complex with GlcNAc-6S | | 分子名称: | 2-acetamido-2-deoxy-6-O-sulfo-alpha-D-glucopyranose, 2-acetamido-2-deoxy-6-O-sulfo-beta-D-glucopyranose, Beta-N-acetylhexosaminidase, ... | | 著者 | Yamada, C, Kashima, T, Fushinobu, S, Katoh, T, Katayama, T. | | 登録日 | 2021-12-22 | | 公開日 | 2022-12-28 | | 最終更新日 | 2023-06-14 | | 実験手法 | X-RAY DIFFRACTION (1.65 Å) | | 主引用文献 | A bacterial sulfoglycosidase highlights mucin O-glycan breakdown in the gut ecosystem.
Nat.Chem.Biol., 19, 2023
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5GQC
 | | Crystal structure of lacto-N-biosidase LnbX from Bifidobacterium longum subsp. longum, ligand-free form | | 分子名称: | CALCIUM ION, Lacto-N-biosidase, SODIUM ION | | 著者 | Yamada, C, Arakawa, T, Katayama, T, Fushinobu, S. | | 登録日 | 2016-08-07 | | 公開日 | 2017-04-19 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.36 Å) | | 主引用文献 | Molecular Insight into Evolution of Symbiosis between Breast-Fed Infants and a Member of the Human Gut Microbiome Bifidobacterium longum
Cell Chem Biol, 24, 2017
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6KQT
 | | Crystal Structure of GH136 lacto-N-biosidase from Eubacterium ramulus - native protein | | 分子名称: | SODIUM ION, TRIETHYLENE GLYCOL, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | 著者 | Yamada, C, Arakawa, T, Pichler, M.J, Abou Hachem, M, Fushinobu, S. | | 登録日 | 2019-08-18 | | 公開日 | 2020-06-10 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways.
Nat Commun, 11, 2020
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6KQS
 | | Crystal Structure of GH136 lacto-N-biosidase from Eubacterium ramulus - selenomethionine derivative | | 分子名称: | GLYCEROL, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose, lacto-N-biosidase | | 著者 | Yamada, C, Arakawa, T, Pichler, M.J, Abou Hachem, M, Fushinobu, S. | | 登録日 | 2019-08-18 | | 公開日 | 2020-06-10 | | 最終更新日 | 2024-10-30 | | 実験手法 | X-RAY DIFFRACTION (1.4 Å) | | 主引用文献 | Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways.
Nat Commun, 11, 2020
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6M5A
 | | Crystal structure of GH121 beta-L-arabinobiosidase HypBA2 from Bifidobacterium longum | | 分子名称: | 1,2-ETHANEDIOL, Beta-L-arabinobiosidase, CALCIUM ION, ... | | 著者 | Saito, K, Arakawa, T, Yamada, C, Fujita, K, Fushinobu, S. | | 登録日 | 2020-03-10 | | 公開日 | 2020-06-03 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (1.85 Å) | | 主引用文献 | Crystal structure of beta-L-arabinobiosidase belonging to glycoside hydrolase family 121.
Plos One, 15, 2020
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6M3X
 | | Cryo-EM structure of sulfur oxygenase reductase from Sulfurisphaera tokodaii | | 分子名称: | FE (III) ION, Sulfur oxygenase/reductase | | 著者 | Sato, Y, Adachi, N, Moriya, T, Arakawa, T, Kawasaki, M, Yamada, C, Senda, T, Fushinobu, S. | | 登録日 | 2020-03-04 | | 公開日 | 2020-07-15 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (2.24 Å) | | 主引用文献 | Crystallographic and cryogenic electron microscopic structures and enzymatic characterization of sulfur oxygenase reductase fromSulfurisphaera tokodaii.
J Struct Biol X, 4, 2020
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7BZL
 | | GH127 beta-L-arabinofuranosidase HypBA1 covalently complexed with beta-L-arabinofuranose-configured cyclophellitol | | 分子名称: | (1S,2S,3R,4R)-3-(hydroxymethyl)cyclopentane-1,2,4-triol, Non-reducing end beta-L-arabinofuranosidase, ZINC ION | | 著者 | Amaki, S, McGregor, N.G.S, Arakawa, T, Yamada, C, Borlandelli, V, Overkleeft, H.S, Davies, G.J, Fushinobu, S. | | 登録日 | 2020-04-28 | | 公開日 | 2021-01-27 | | 最終更新日 | 2024-10-23 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Cysteine Nucleophiles in Glycosidase Catalysis: Application of a Covalent beta-l-Arabinofuranosidase Inhibitor.
Angew.Chem.Int.Ed.Engl., 60, 2021
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6M35
 | | Crystal structure of sulfur oxygenase reductase from Sulfurisphaera tokodaii | | 分子名称: | FE (III) ION, GLYCEROL, SULFATE ION, ... | | 著者 | Sato, Y, Yabuki, T, Arakawa, T, Yamada, C, Fushinobu, S, Wakagi, T. | | 登録日 | 2020-03-02 | | 公開日 | 2020-07-15 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.73 Å) | | 主引用文献 | Crystallographic and cryogenic electron microscopic structures and enzymatic characterization of sulfur oxygenase reductase fromSulfurisphaera tokodaii.
J Struct Biol X, 4, 2020
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8HVB
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8HVC
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8HVD
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8IC8
 | | Exo-alpha-D-arabinofuranosidase from Microbacterium arabinogalactanolyticum | | 分子名称: | Exo-alpha-D-arabinofuranosidase, PHOSPHATE ION | | 著者 | Kashima, T, Arakawa, T, Yamada, C, Ishiwata, A, Fujita, K, Fushinobu, S. | | 登録日 | 2023-02-11 | | 公開日 | 2023-08-16 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (2.42 Å) | | 主引用文献 | Identification and characterization of endo-alpha-, exo-alpha-, and exo-beta-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria.
Nat Commun, 14, 2023
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8HHV
 | | endo-alpha-D-arabinanase EndoMA1 from Microbacterium arabinogalactanolyticum | | 分子名称: | CALCIUM ION, GLYCEROL, SODIUM ION, ... | | 著者 | Nakashima, C, Li, J, Arakawa, T, Yamada, C, Ishiwata, A, Fujita, K, Fushinobu, S. | | 登録日 | 2022-11-17 | | 公開日 | 2023-08-16 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | | 主引用文献 | Identification and characterization of endo-alpha-, exo-alpha-, and exo-beta-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria.
Nat Commun, 14, 2023
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7WDU
 | | 6-sulfo-beta-D-N-acetylglucosaminidase from Bifidobacterium bifidum in complex with PUGNAc-6S | | 分子名称: | Beta-N-acetylhexosaminidase, CALCIUM ION, [[(3R,4R,5S,6R)-3-acetamido-4,5-bis(oxidanyl)-6-(sulfooxymethyl)oxan-2-ylidene]amino] N-phenylcarbamate | | 著者 | Kashima, T, Yamada, C, Fushinobu, S, Katoh, T, Katayama, T. | | 登録日 | 2021-12-22 | | 公開日 | 2022-12-28 | | 最終更新日 | 2023-06-14 | | 実験手法 | X-RAY DIFFRACTION (2.23 Å) | | 主引用文献 | A bacterial sulfoglycosidase highlights mucin O-glycan breakdown in the gut ecosystem.
Nat.Chem.Biol., 19, 2023
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7V1W
 | | Difructose dianhydride I synthase/hydrolase (alphaFFase1) from Bifidobacterium dentium in complex with beta-D-arabinofuranose | | 分子名称: | CALCIUM ION, Difructose dianhydride I synthase/hydrolase (alphaFFase1), beta-D-arabinofuranose | | 著者 | Kashima, T, Arakawa, T, Yamada, C, Fujita, K, Fushinobu, S. | | 登録日 | 2021-08-06 | | 公開日 | 2021-11-03 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.86 Å) | | 主引用文献 | Identification of difructose dianhydride I synthase/hydrolase from an oral bacterium establishes a novel glycoside hydrolase family.
J.Biol.Chem., 297, 2021
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7V1X
 | | Difructose dianhydride I synthase/hydrolase (alphaFFase1) from Bifidobacterium dentium in complex with beta-D-fructofuranose | | 分子名称: | CALCIUM ION, Difructose dianhydride I synthase/hydrolase, beta-D-fructofuranose | | 著者 | Kashima, T, Arakawa, T, Yamada, C, Fujita, K, Fushinobu, S. | | 登録日 | 2021-08-06 | | 公開日 | 2021-11-03 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.76 Å) | | 主引用文献 | Identification of difructose dianhydride I synthase/hydrolase from an oral bacterium establishes a novel glycoside hydrolase family.
J.Biol.Chem., 297, 2021
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7V1V
 | | Difructose dianhydride I synthase/hydrolase (alphaFFase1) from Bifidobacterium dentium, ligand-free form | | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, CALCIUM ION, D(-)-TARTARIC ACID, ... | | 著者 | Kashima, T, Arakawa, T, Yamada, C, Fujita, K, Fushinobu, S. | | 登録日 | 2021-08-06 | | 公開日 | 2021-11-03 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.96 Å) | | 主引用文献 | Identification of difructose dianhydride I synthase/hydrolase from an oral bacterium establishes a novel glycoside hydrolase family.
J.Biol.Chem., 297, 2021
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5YHS
 | | Pyruvylated beta-D-galactosidase from Bacillus sp. HMA207, apo form | | 分子名称: | Pyruvylated beta-D-galactosidase | | 著者 | Tanuma, M, Yamada, C, Arakawa, T, Higuchi, Y, Takegawa, K, Fushinobu, S. | | 登録日 | 2017-09-29 | | 公開日 | 2018-08-29 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Identification and characterization of a novel beta-D-galactosidase that releases pyruvylated galactose.
Sci Rep, 8, 2018
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5YIF
 | | Pyruvylated beta-D-galactosidase from Bacillus sp. HMA207, E163A mutant pyruvylated beta-D-galactose complex | | 分子名称: | (2R,4aR,6R,7R,8R,8aR)-2-methyl-6,7,8-tris(oxidanyl)-4,4a,6,7,8,8a-hexahydropyrano[3,2-d][1,3]dioxine-2-carboxylic acid, Pyruvylated beta-D-galactosidase | | 著者 | Tanuma, M, Yamada, C, Arakawa, T, Higuchi, Y, Takegawa, K, Fushinobu, S. | | 登録日 | 2017-10-04 | | 公開日 | 2018-08-29 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.45 Å) | | 主引用文献 | Identification and characterization of a novel beta-D-galactosidase that releases pyruvylated galactose.
Sci Rep, 8, 2018
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6A3F
 | | Levoglucosan dehydrogenase, apo form | | 分子名称: | Putative dehydrogenase, SULFATE ION | | 著者 | Sugiura, M, Yamada, C, Arakawa, T, Fushinobu, S. | | 登録日 | 2018-06-15 | | 公開日 | 2018-09-26 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Identification, functional characterization, and crystal structure determination of bacterial levoglucosan dehydrogenase.
J. Biol. Chem., 293, 2018
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7EXW
 | | GH127 beta-L-arabinofuranosidase HypBA1 covalently complexed with alpha-L-arabinofuranosylamide | | 分子名称: | 2-bromanyl-N-[(2R,3R,4R,5S}-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]ethanamide, Non-reducing end beta-L-arabinofuranosidase, ZINC ION | | 著者 | Sawano, K, Arakawa, T, Yamada, C, Fujita, K, Fushinobu, S. | | 登録日 | 2021-05-28 | | 公開日 | 2021-11-17 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Substrate complex structure, active site labeling and catalytic role of the zinc ion in cysteine glycosidase.
Glycobiology, 32, 2022
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