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PDB: 51 件
3AHD
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Phosphoketolase from Bifidobacterium Breve complexed with 2-acetyl-thiamine diphosphate
分子名称: 1,2-ETHANEDIOL, 2-ACETYL-THIAMINE DIPHOSPHATE, MAGNESIUM ION, ...
著者Suzuki, R, Katayama, T, Kim, B.-J, Wakagi, T, Shoun, H, Ashida, H, Yamamoto, K, Fushinobu, S.
登録日2010-04-22
公開日2010-08-25
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
J.Biol.Chem., 285, 2010
3AHJ
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H553A mutant of Phosphoketolase from Bifidobacterium Breve
分子名称: 1,2-ETHANEDIOL, MAGNESIUM ION, THIAMINE DIPHOSPHATE, ...
著者Suzuki, R, Katayama, T, Kim, B.-J, Wakagi, T, Shoun, H, Ashida, H, Yamamoto, K, Fushinobu, S.
登録日2010-04-22
公開日2010-08-25
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
J.Biol.Chem., 285, 2010
3AHC
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Resting form of Phosphoketolase from Bifidobacterium Breve
分子名称: 1,2-ETHANEDIOL, MAGNESIUM ION, NONAETHYLENE GLYCOL, ...
著者Suzuki, R, Katayama, T, Kim, B.-J, Wakagi, T, Shoun, H, Ashida, H, Yamamoto, K, Fushinobu, S.
登録日2010-04-22
公開日2010-08-25
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
J.Biol.Chem., 285, 2010
3AHE
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Phosphoketolase from Bifidobacterium Breve complexed with dihydroxyethyl thiamine diphosphate
分子名称: 1,2-ETHANEDIOL, 2-[3-[(4-AMINO-2-METHYL-5-PYRIMIDINYL)METHYL]-2-(1,2-DIHYDROXYETHYL)-4-METHYL-1,3-THIAZOL-3-IUM-5-YL]ETHYL TRIHYDROGEN DIPHOSPHATE, MAGNESIUM ION, ...
著者Suzuki, R, Katayama, T, Kim, B.-J, Wakagi, T, Shoun, H, Ashida, H, Yamamoto, K, Fushinobu, S.
登録日2010-04-22
公開日2010-08-25
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
J.Biol.Chem., 285, 2010
3AHF
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Phosphoketolase from Bifidobacterium Breve complexed with inorganic phosphate
分子名称: GLYCEROL, MAGNESIUM ION, PHOSPHATE ION, ...
著者Suzuki, R, Katayama, T, Kim, B.-J, Wakagi, T, Shoun, H, Ashida, H, Yamamoto, K, Fushinobu, S.
登録日2010-04-22
公開日2010-08-25
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
J.Biol.Chem., 285, 2010
3AHH
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H142A mutant of Phosphoketolase from Bifidobacterium Breve complexed with acetyl thiamine diphosphate
分子名称: 1,2-ETHANEDIOL, 2-ACETYL-THIAMINE DIPHOSPHATE, MAGNESIUM ION, ...
著者Suzuki, R, Katayama, T, Kim, B.-J, Wakagi, T, Shoun, H, Ashida, H, Yamamoto, K, Fushinobu, S.
登録日2010-04-22
公開日2010-08-25
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
J.Biol.Chem., 285, 2010
7VFQ
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Wild type GltA from Bifidobacterium infantis JCM 1222 complexed with lacto-N-tetraose
分子名称: Extracellular solute-binding protein, family 1, SULFATE ION, ...
著者Sato, M, Sakanaka, M, Katayama, T, Fushinobu, S.
登録日2021-09-13
公開日2022-09-14
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.55 Å)
主引用文献Short stretch sequence of a milk oligosaccharide transporter represents the phenotypic selection trajectory in infant gut microbiome
To Be Published
7VFR
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GltA N83K mutant from Bifidobacterium infantis JCM 1222 complexed with lacto-N-tetraose
分子名称: Extracellular solute-binding protein, family 1, SULFATE ION, ...
著者Sato, M, Sakanaka, M, Katayama, T, Fushinobu, S.
登録日2021-09-13
公開日2022-09-14
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.56 Å)
主引用文献Short stretch sequence of a milk oligosaccharide transporter represents the phenotypic selection trajectory in infant gut microbiome
To Be Published
2Z8F
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The galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum in complex with lacto-N-tetraose
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Galacto-N-biose/lacto-N-biose I transporter substrate-binding protein, SODIUM ION, ...
著者Suzuki, R, Wada, J, Katayama, T, Fushinobu, S.
登録日2007-09-05
公開日2008-03-18
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.65 Å)
主引用文献Structural and thermodynamic analyses of solute-binding Protein from Bifidobacterium longum specific for core 1 disaccharide and lacto-N-biose I.
J.Biol.Chem., 283, 2008
2Z8D
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The galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum in complex with lacto-N-biose
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Galacto-N-biose/lacto-N-biose I transporter substrate-binding protein, ZINC ION, ...
著者Suzuki, R, Wada, J, Katayama, T, Fushinobu, S.
登録日2007-09-05
公開日2008-03-18
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献Structural and thermodynamic analyses of solute-binding Protein from Bifidobacterium longum specific for core 1 disaccharide and lacto-N-biose I.
J.Biol.Chem., 283, 2008
2Z8E
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BU of 2z8e by Molmil
The galacto-N-biose-/lacto-N-biose I-binding protein (GL-BP) of the ABC transporter from Bifidobacterium longum in complex with galacto-N-biose
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Galacto-N-biose/lacto-N-biose I transporter substrate-binding protein, ZINC ION, ...
著者Suzuki, R, Wada, J, Katayama, T, Fushinobu, S.
登録日2007-09-05
公開日2008-03-18
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.99 Å)
主引用文献Structural and thermodynamic analyses of solute-binding Protein from Bifidobacterium longum specific for core 1 disaccharide and lacto-N-biose I.
J.Biol.Chem., 283, 2008
3AC0
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Crystal structure of Beta-glucosidase from Kluyveromyces marxianus in complex with glucose
分子名称: Beta-glucosidase I, beta-D-glucopyranose
著者Yoshida, E, Hidaka, M, Fushinobu, S, Katayama, T, Kumagai, H.
登録日2009-12-25
公開日2010-08-11
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.54 Å)
主引用文献Role of a PA14 domain in determining substrate specificity of a glycoside hydrolase family 3 beta-glucosidase from Kluyveromyces marxianus.
Biochem.J., 431, 2010
3ABZ
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Crystal structure of Se-Met labeled Beta-glucosidase from Kluyveromyces marxianus
分子名称: Beta-glucosidase I, GLYCEROL
著者Yoshida, E, Hidaka, M, Fushinobu, S, Katayama, T, Kumagai, H.
登録日2009-12-25
公開日2010-08-11
最終更新日2013-10-30
実験手法X-RAY DIFFRACTION (2.15 Å)
主引用文献Role of a PA14 domain in determining substrate specificity of a glycoside hydrolase family 3 beta-glucosidase from Kluyveromyces marxianus.
Biochem.J., 431, 2010
2ZXQ
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Crystal structure of endo-alpha-N-acetylgalactosaminidase from Bifidobacterium longum (EngBF)
分子名称: (4S)-2-METHYL-2,4-PENTANEDIOL, Endo-alpha-N-acetylgalactosaminidase, MANGANESE (II) ION
著者Suzuki, R, Katayama, T, Ashida, H, Yamamoto, K, Kitaoka, M, Fushinobu, S.
登録日2009-01-05
公開日2009-06-16
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Crystallographic and mutational analyses of substrate recognition of endo-{alpha}-N-acetylgalactosaminidase from Bifidobacterium longum.
J.Biochem., 2009
2E0G
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BU of 2e0g by Molmil
DnaA N-terminal domain
分子名称: Chromosomal replication initiator protein dnaA
著者Abe, Y, Katayama, T, Ueda, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
登録日2006-10-07
公開日2007-05-01
最終更新日2024-05-15
実験手法SOLUTION NMR
主引用文献Structure and Function of DnaA N-Terminal Domains: Specific Sites and Mechanisms in Inter-DnaA Interaction and in DnaB Helicase Loading on oriC
To be Published
2YVA
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BU of 2yva by Molmil
Crystal structure of Escherichia coli DiaA
分子名称: DnaA initiator-associating protein diaA
著者Keyamura, K, Fujikawa, N, Ishida, T, Ozaki, S, Suetsugu, M, Kagawa, W, Yokoyama, S, Kurumizaka, H, Katayama, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
登録日2007-04-10
公開日2008-01-22
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献The interaction of DiaA and DnaA regulates the replication cycle in E. coli by directly promoting ATP DnaA-specific initiation complexes
Genes Dev., 21, 2007
2D35
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Solution structure of Cell Division Reactivation Factor, CedA
分子名称: Cell division activator cedA
著者Abe, Y, Watanabe, N, Matsuda, Y, Yoshida, Y, Katayama, T, Ueda, T.
登録日2005-09-26
公開日2006-12-12
最終更新日2022-03-09
実験手法SOLUTION NMR
主引用文献Structural Analysis and Molecular Interaction of Cell Division Reactivation Factor, CedA from Escherichia coli
To be Published
2EAB
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Crystal structure of 1,2-a-L-fucosidase from Bifidobacterium bifidum (apo form)
分子名称: 1,2-ETHANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Alpha-fucosidase, ...
著者Nagae, M, Tsuchiya, A, Katayama, T, Yamamoto, K, Wakatsuki, S, Kato, R.
登録日2007-01-31
公開日2007-04-24
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (1.12 Å)
主引用文献Structural basis on the catalytic reaction mechanism of novel 1,2-alpha-L-fucosidase (AFCA) from Bifidobacterium bifidum
J.Biol.Chem., 282, 2007
2Z4R
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Crystal structure of domain III from the Thermotoga maritima replication initiation protein DnaA
分子名称: ADENOSINE-5'-DIPHOSPHATE, Chromosomal replication initiator protein dnaA, MAGNESIUM ION
著者Fujikawa, N, Ozaki, S, Kagawa, W, Park, S.-Y, Katayama, T, Kurumizaka, H, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
登録日2007-06-25
公開日2008-02-19
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (3.05 Å)
主引用文献A Common Mechanism for the ATP-DnaA-dependent Formation of Open Complexes at the Replication Origin
J.Biol.Chem., 283, 2008
2Z4S
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Crystal structure of domain III from the Thermotoga maritima replication initiation protein DnaA
分子名称: ADENOSINE-5'-DIPHOSPHATE, Chromosomal replication initiator protein dnaA, MAGNESIUM ION
著者Fujikawa, N, Ozaki, S, Kagawa, W, Park, S.-Y, Katayama, T, Kurumizaka, H, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
登録日2007-06-25
公開日2008-02-19
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (3 Å)
主引用文献A Common Mechanism for the ATP-DnaA-dependent Formation of Open Complexes at the Replication Origin
J.Biol.Chem., 283, 2008
5WQV
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Crystal structure of PriB mutant - S55A
分子名称: Primosomal replication protein N
著者Fujiyama, S, Shiroishi, M, Katayama, T, Abe, Y, Ueda, T.
登録日2016-11-28
公開日2017-11-29
最終更新日2019-06-12
実験手法X-RAY DIFFRACTION (1.97 Å)
主引用文献Insight into the interaction between PriB and DnaT on bacterial DNA replication restart: Significance of the residues on PriB dimer interface and highly acidic region on DnaT.
Biochim Biophys Acta Proteins Proteom, 1867, 2019
3UES
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Crystal structure of alpha-1,3/4-fucosidase from Bifidobacterium longum subsp. infantis complexed with deoxyfuconojirimycin
分子名称: (2S,3R,4S,5R)-2-METHYLPIPERIDINE-3,4,5-TRIOL, 1,2-ETHANEDIOL, Alpha-1,3/4-fucosidase, ...
著者Sakurama, H, Fushinobu, S, Yoshida, E, Honda, Y, Hidaka, M, Ashida, H, Kitaoka, M, Katayama, T, Yamamoto, K, Kumagai, H.
登録日2011-10-31
公開日2012-04-04
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献1,3-1,4-alpha-L-fucosynthase that specifically introduces Lewis a/x antigens into type-1/2 chains
J.Biol.Chem., 287, 2012
3UET
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Crystal structure of alpha-1,3/4-fucosidase from Bifidobacterium longum subsp. infantis D172A/E217A mutant complexed with lacto-N-fucopentaose II
分子名称: 1,2-ETHANEDIOL, Alpha-1,3/4-fucosidase, SODIUM ION, ...
著者Sakurama, H, Fushinobu, S, Yoshida, E, Honda, Y, Hidaka, M, Ashida, H, Kitaoka, M, Katayama, T, Yamamoto, K, Kumagai, H.
登録日2011-10-31
公開日2012-04-04
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献1,3-1,4-alpha-L-fucosynthase that specifically introduces Lewis a/x antigens into type-1/2 chains
J.Biol.Chem., 287, 2012
2EAD
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Crystal structure of 1,2-a-L-fucosidase from Bifidobacterium bifidum in complex with substrate
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Alpha-fucosidase, CALCIUM ION, ...
著者Nagae, M, Tsuchiya, A, Katayama, T, Yamamoto, K, Wakatsuki, S, Kato, R.
登録日2007-01-31
公開日2007-04-24
最終更新日2021-11-10
実験手法X-RAY DIFFRACTION (1.89 Å)
主引用文献Structural basis on the catalytic reaction mechanism of novel 1,2-alpha-L-fucosidase (AFCA) from Bifidobacterium bifidum
J.Biol.Chem., 282, 2007
2EAE
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Crystal structure of 1,2-a-L-fucosidase from Bifidobacterium bifidum in complexes with products
分子名称: Alpha-fucosidase, CALCIUM ION, alpha-L-fucopyranose, ...
著者Nagae, M, Tsuchiya, A, Katayama, T, Yamamoto, K, Wakatsuki, S, Kato, R.
登録日2007-01-31
公開日2007-04-24
最終更新日2021-11-10
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Structural basis on the catalytic reaction mechanism of novel 1,2-alpha-L-fucosidase (AFCA) from Bifidobacterium bifidum
J.Biol.Chem., 282, 2007

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