6K0I
| Crystal Structure of UDP-glucose 4-epimerase from Bifidobacterium longum in complex with NAD+ and UDP-Glc | 分子名称: | NICOTINAMIDE-ADENINE-DINUCLEOTIDE, UDP-glucose 4-epimerase, URIDINE-5'-DIPHOSPHATE-GLUCOSE | 著者 | Nam, Y.-W, Nishimoto, M, Arakawa, T, Kitaoka, M, Fushinobu, S. | 登録日 | 2019-05-06 | 公開日 | 2019-08-07 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | 主引用文献 | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum. Sci Rep, 9, 2019
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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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5D4T
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6K0G
| Crystal Structure of UDP-glucose 4-epimerase from Bifidobacterium longum in complex with NAD+ and UDP | 分子名称: | MAGNESIUM ION, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, UDP-glucose 4-epimerase, ... | 著者 | Nam, Y.-W, Nishimoto, M, Arakawa, T, Kitaoka, M, Fushinobu, S. | 登録日 | 2019-05-06 | 公開日 | 2019-08-07 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | 主引用文献 | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum. Sci Rep, 9, 2019
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1CWP
| STRUCTURES OF THE NATIVE AND SWOLLEN FORMS OF COWPEA CHLOROTIC MOTTLE VIRUS DETERMINED BY X-RAY CRYSTALLOGRAPHY AND CRYO-ELECTRON MICROSCOPY | 分子名称: | Coat protein, RNA (5'-R(*AP*U)-3'), RNA (5'-R(*AP*UP*AP*U)-3') | 著者 | Speir, J.A, Johnson, J.E, Munshi, S, Wang, G, Timothy, S, Baker, T.S. | 登録日 | 1995-05-22 | 公開日 | 1995-05-22 | 最終更新日 | 2024-02-14 | 実験手法 | X-RAY DIFFRACTION (3.2 Å) | 主引用文献 | Structures of the native and swollen forms of cowpea chlorotic mottle virus determined by X-ray crystallography and cryo-electron microscopy. Structure, 3, 1995
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5D4V
| HcgC with SAH and a guanylylpyridinol (GP) derivative | 分子名称: | 5'-O-[(R)-[(3,6-dimethyl-2-oxo-1,2-dihydropyridin-4-yl)oxy](hydroxy)phosphoryl]guanosine, S-ADENOSYL-L-HOMOCYSTEINE, SULFATE ION, ... | 著者 | Fujishiro, T, Ermler, U, Shima, S. | 登録日 | 2015-08-09 | 公開日 | 2016-07-20 | 最終更新日 | 2024-01-10 | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | 主引用文献 | Identification of HcgC as a SAM-Dependent Pyridinol Methyltransferase in [Fe]-Hydrogenase Cofactor Biosynthesis. Angew.Chem.Int.Ed.Engl., 55, 2016
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5D5T
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5D5P
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1MBH
| MOUSE C-MYB DNA-BINDING DOMAIN REPEAT 2 | 分子名称: | C-MYB | 著者 | Ogata, K, Morikawa, S, Nakamura, H, Hojo, H, Yoshimura, S, Zhang, R, Aimoto, S, Ametani, Y, Hirata, Z, Sarai, A, Ishii, S, Nishimura, Y. | 登録日 | 1995-05-19 | 公開日 | 1995-09-15 | 最終更新日 | 2024-06-05 | 実験手法 | SOLUTION NMR | 主引用文献 | Comparison of the free and DNA-complexed forms of the DNA-binding domain from c-Myb. Nat.Struct.Biol., 2, 1995
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1MBF
| MOUSE C-MYB DNA-BINDING DOMAIN REPEAT 1 | 分子名称: | MYB PROTO-ONCOGENE PROTEIN | 著者 | Ogata, K, Morikawa, S, Nakamura, H, Hojo, H, Yoshimura, S, Zhang, R, Aimoto, S, Ametani, Y, Hirata, Z, Sarai, A, Ishii, S, Nishimura, Y. | 登録日 | 1995-05-19 | 公開日 | 1995-07-31 | 最終更新日 | 2024-06-05 | 実験手法 | SOLUTION NMR | 主引用文献 | Comparison of the free and DNA-complexed forms of the DNA-binding domain from c-Myb. Nat.Struct.Biol., 2, 1995
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6KPL
| Crystal Structure of endo-beta-N-acetylglucosaminidase from Cordyceps militaris in apo form | 分子名称: | Chitinase, DI(HYDROXYETHYL)ETHER, TRIETHYLENE GLYCOL | 著者 | Seki, H, Arakawa, T, Yamada, C, Takegawa, K, Fushinobu, S. | 登録日 | 2019-08-15 | 公開日 | 2019-10-02 | 最終更新日 | 2019-11-20 | 実験手法 | X-RAY DIFFRACTION (1.75 Å) | 主引用文献 | Structural basis for the specific cleavage of core-fucosylatedN-glycans by endo-beta-N-acetylglucosaminidase from the fungusCordyceps militaris. J.Biol.Chem., 294, 2019
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1MT4
| Structure of 23S ribosomal RNA hairpin 35 | 分子名称: | 23S ribosomal Hairpin 35 | 著者 | Lebars, I, Yoshizawa, S, Stenholm, A.R, Guittet, E, Douthwaite, S, Fourmy, D. | 登録日 | 2002-09-20 | 公開日 | 2003-01-14 | 最終更新日 | 2024-05-22 | 実験手法 | SOLUTION NMR | 主引用文献 | Structure of 23S rRNA hairpin 35 and its interaction with the tylosin-resistance methyltransferase RlmAII Embo J., 22, 2003
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6KPM
| Crystal Structure of endo-beta-N-acetylglucosaminidase from Cordyceps militaris in complex with L-fucose | 分子名称: | Chitinase, DI(HYDROXYETHYL)ETHER, TRIETHYLENE GLYCOL, ... | 著者 | Seki, H, Arakawa, T, Yamada, C, Takegawa, K, Fushinobu, S. | 登録日 | 2019-08-15 | 公開日 | 2019-10-02 | 最終更新日 | 2020-07-29 | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | 主引用文献 | Structural basis for the specific cleavage of core-fucosylatedN-glycans by endo-beta-N-acetylglucosaminidase from the fungusCordyceps militaris. J.Biol.Chem., 294, 2019
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1WQ3
| Escherichia coli tyrosyl-tRNA synthetase mutant complexed with 3-iodo-L-tyrosine | 分子名称: | 3-IODO-TYROSINE, Tyrosyl-tRNA synthetase | 著者 | Kobayashi, T, Sakamoto, K, Nureki, O, Takimura, T, Kamata, K, Sekine, R, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2004-09-20 | 公開日 | 2005-01-25 | 最終更新日 | 2024-04-03 | 実験手法 | X-RAY DIFFRACTION (2 Å) | 主引用文献 | Structural basis of nonnatural amino acid recognition by an engineered aminoacyl-tRNA synthetase for genetic code expansion Proc.Natl.Acad.Sci.USA, 102, 2005
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6IOS
| The ligand binding domain of Mlp24 with proline | 分子名称: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ACETATE ION, CALCIUM ION, ... | 著者 | Takahashi, Y, Sumita, K, Nishiyama, S, Kawagishi, I, Imada, K. | 登録日 | 2018-10-31 | 公開日 | 2019-03-06 | 最終更新日 | 2024-03-27 | 実験手法 | X-RAY DIFFRACTION (2.35 Å) | 主引用文献 | Calcium Ions Modulate Amino Acid Sensing of the Chemoreceptor Mlp24 ofVibrio cholerae. J. Bacteriol., 201, 2019
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1WQ4
| Escherichia coli tyrosyl-tRNA synthetase mutant complexed with L-tyrosine | 分子名称: | TYROSINE, Tyrosyl-tRNA synthetase | 著者 | Kobayashi, T, Sakamoto, K, Nureki, O, Takimura, T, Kamata, K, Sekine, R, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2004-09-20 | 公開日 | 2005-01-25 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (2 Å) | 主引用文献 | Structural basis of nonnatural amino acid recognition by an engineered aminoacyl-tRNA synthetase for genetic code expansion Proc.Natl.Acad.Sci.USA, 102, 2005
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2RQJ
| Quadruplex structure of an RNA aptamer against bovine prion protein | 分子名称: | RNA (5'-R(*GP*GP*AP*GP*GP*AP*GP*GP*AP*GP*GP*A)-3') | 著者 | Katahira, M, Mashima, T, Matsugami, A, Nishikawa, F, Nishikawa, S. | 登録日 | 2009-07-18 | 公開日 | 2009-11-17 | 最終更新日 | 2024-05-29 | 実験手法 | SOLUTION NMR | 主引用文献 | Unique quadruplex structure and interaction of an RNA aptamer against bovine prion protein Nucleic Acids Res., 37, 2009
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6IOP
| The ligand binding domain of Mlp24 | 分子名称: | ACETATE ION, ALANINE, CALCIUM ION, ... | 著者 | Sumita, K, Takahashi, Y, Nishiyama, S, Kawagishi, I, Imada, K. | 登録日 | 2018-10-31 | 公開日 | 2019-03-20 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | 主引用文献 | Calcium Ions Modulate Amino Acid Sensing of the Chemoreceptor Mlp24 ofVibrio cholerae. J. Bacteriol., 201, 2019
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6IOV
| The ligand binding domain of Mlp37 with arginine | 分子名称: | ARGININE, Methyl-accepting chemotaxis (MCP) signaling domain protein | 著者 | Takahashi, Y, Sumita, K, Nishiyama, S, Kawagishi, I, Imada, K. | 登録日 | 2018-10-31 | 公開日 | 2019-11-06 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (2.351 Å) | 主引用文献 | Structural basis of the binding affinity of chemoreceptors Mlp24p and Mlp37p for various amino acids. Biochem.Biophys.Res.Commun., 523, 2020
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2RSK
| RNA aptamer against prion protein in complex with the partial binding peptide | 分子名称: | RNA (5'-R(*GP*GP*AP*GP*GP*AP*GP*GP*AP*GP*GP*A)-3'), partial binding peptide of Major prion protein | 著者 | Mashima, T, Nishikawa, F, Kamatari, Y.O, Fujiwara, H, Nishikawa, S, Kuwata, K, Katahira, M. | 登録日 | 2012-03-08 | 公開日 | 2013-02-13 | 最終更新日 | 2024-05-15 | 実験手法 | SOLUTION NMR | 主引用文献 | Anti-prion activity of an RNA aptamer and its structural basis Nucleic Acids Res., 41, 2013
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6IOQ
| The ligand binding domain of Mlp24 with glycine | 分子名称: | CALCIUM ION, GLYCINE, Methyl-accepting chemotaxis protein | 著者 | Takahashi, Y, Sumita, K, Nishiyama, S, Kawagishi, I, Imada, K. | 登録日 | 2018-10-31 | 公開日 | 2019-03-06 | 最終更新日 | 2024-03-27 | 実験手法 | X-RAY DIFFRACTION (2.143 Å) | 主引用文献 | Calcium Ions Modulate Amino Acid Sensing of the Chemoreceptor Mlp24 ofVibrio cholerae. J. Bacteriol., 201, 2019
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6IOU
| The ligand binding domain of Mlp24 with serine | 分子名称: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, CALCIUM ION, Methyl-accepting chemotaxis protein, ... | 著者 | Takahashi, Y, Sumita, K, Nishiyama, S, Kawagishi, I, Imada, K. | 登録日 | 2018-10-31 | 公開日 | 2019-03-06 | 最終更新日 | 2024-03-27 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | Calcium Ions Modulate Amino Acid Sensing of the Chemoreceptor Mlp24 ofVibrio cholerae. J. Bacteriol., 201, 2019
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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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1X8X
| Tyrosyl t-RNA Synthetase from E.coli Complexed with Tyrosine | 分子名称: | SULFATE ION, TYROSINE, Tyrosyl-tRNA synthetase | 著者 | Kobayashi, T, Takimura, T, Sekine, R, Kelly, V.P, Kamata, K, Sakamoto, K, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2004-08-19 | 公開日 | 2005-01-25 | 最終更新日 | 2024-03-13 | 実験手法 | X-RAY DIFFRACTION (2 Å) | 主引用文献 | Structural Snapshots of the KMSKS Loop Rearrangement for Amino Acid Activation by Bacterial Tyrosyl-tRNA Synthetase J.MOL.BIOL., 346, 2005
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5YGY
| Crystal Structure of BACE1 in complex with (S)-N-(3-(2-amino-6-(fluoromethyl)-4 -methyl-4H-1,3-oxazin-4-yl)-4-fluorophenyl)-5-cyanopicolinamide | 分子名称: | Beta-secretase 1, GLYCEROL, IODIDE ION, ... | 著者 | Fuchino, K, Mitsuoka, Y, Masui, M, Kurose, N, Yoshida, S, Komano, K, Yamamoto, T, Ogawa, M, Unemura, C, Hosono, M, Ito, H, Sakaguchi, G, Ando, S, Ohnishi, S, Kido, Y, Fukushima, T, Miyajima, H, Hiroyama, S, Koyabu, K, Dhuyvetter, D, Borghys, H, Gijsen, H, Yamano, Y, Iso, Y, Kusakabe, K. | 登録日 | 2017-09-27 | 公開日 | 2018-05-23 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | 主引用文献 | Rational Design of Novel 1,3-Oxazine Based beta-Secretase (BACE1) Inhibitors: Incorporation of a Double Bond To Reduce P-gp Efflux Leading to Robust A beta Reduction in the Brain J. Med. Chem., 61, 2018
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