3AZV
| Crystal structure of the receptor binding domain | Descriptor: | D/C mosaic neurotoxin, SULFATE ION | Authors: | Nuemket, N, Tanaka, Y, Tsukamoto, K, Tsuji, T, Nakamura, K, Kozaki, S, Yao, M, Tanaka, I. | Deposit date: | 2011-06-02 | Release date: | 2011-12-28 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Structural and mutational analyses of the receptor binding domain of botulinum D/C mosaic neurotoxin: insight into the ganglioside binding mechanism Biochem.Biophys.Res.Commun., 411, 2011
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3AZW
| Crystal structure of the receptor binding domain | Descriptor: | D/C mosaic neurotoxin, SULFATE ION | Authors: | Nuemket, N, Tanaka, Y, Tsukamoto, K, Tsuji, T, Nakamura, K, Kozaki, S, Yao, M, Tanaka, I. | Deposit date: | 2011-06-02 | Release date: | 2011-12-28 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.99 Å) | Cite: | Structural and mutational analyses of the receptor binding domain of botulinum D/C mosaic neurotoxin: insight into the ganglioside binding mechanism Biochem.Biophys.Res.Commun., 411, 2011
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5B5P
| Crystal structure of the catalytic domain of MMP-13 complexed with 4-oxo-N-(3-(2-(1H-1,2,4-triazol-3-ylsulfanyl)ethoxy)benzyl)-3,4-dihydroquinazoline-2-carboxamide | Descriptor: | 4-oxo-N-{3-[2-(1H-1,2,4-triazol-3-ylsulfanyl)ethoxy]benzyl}-3,4-dihydroquinazoline-2-carboxamide, CALCIUM ION, Collagenase 3, ... | Authors: | Oki, H, Tanaka, Y. | Deposit date: | 2016-05-13 | Release date: | 2017-01-18 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Discovery of Novel, Highly Potent, and Selective Matrix Metalloproteinase (MMP)-13 Inhibitors with a 1,2,4-Triazol-3-yl Moiety as a Zinc Binding Group Using a Structure-Based Design Approach J. Med. Chem., 60, 2017
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2P6O
| Crystal structure of TTHB049 from Thermus thermophilus HB8 | Descriptor: | Alpha-ribazole-5'-phosphate phosphatase | Authors: | Yamamoto, H, Taketa, M, Tanaka, Y, Matsuura, Y, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-03-19 | Release date: | 2007-09-25 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Crystal structure of TTHB049 from Thermus thermophilus HB8 To be Published
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3WVV
| Crystal Structure of RuCO/apo-E45C_C48AFr | Descriptor: | 1,2-ETHANEDIOL, CADMIUM ION, Ferritin light chain, ... | Authors: | Fujita, K, Tanaka, Y, Abe, S, Hikage, T, Kuchimaru, T, Kizaka-Kondoh, S, Ueno, T. | Deposit date: | 2014-06-09 | Release date: | 2015-07-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.82 Å) | Cite: | Intracellular CO release from composite of ferritin and ruthenium carbonyl complexes. J.Am.Chem.Soc., 136, 2014
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3WVU
| Crystal Structure of RuCO/apo-R52CFr | Descriptor: | 1,2-ETHANEDIOL, CADMIUM ION, Ferritin light chain, ... | Authors: | Fujita, K, Tanaka, Y, Abe, S, Hikage, T, Kuchimaru, T, Kizaka-Kondoh, S, Ueno, T. | Deposit date: | 2014-06-09 | Release date: | 2015-07-15 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.92 Å) | Cite: | Intracellular CO release from composite of ferritin and ruthenium carbonyl complexes. J.Am.Chem.Soc., 136, 2014
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3WVW
| Crystal structure of RuCO/apo-WTFr | Descriptor: | 1,2-ETHANEDIOL, CADMIUM ION, Ferritin light chain, ... | Authors: | Fujita, K, Tanaka, Y, Abe, S, Hikage, T, Kuchimaru, T, Kizaka-Kondoh, S, Ueno, T. | Deposit date: | 2014-06-09 | Release date: | 2015-07-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Intracellular CO release from composite of ferritin and ruthenium carbonyl complexes. J.Am.Chem.Soc., 136, 2014
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1V6Q
| Crystal Structures of Collagen Model Peptides with Pro-Hyp-Gly Sequence at 1.3 A | Descriptor: | Collagen like peptide | Authors: | Okuyama, K, Hongo, C, Fukushima, R, Wu, G, Narita, H, Noguchi, K, Tanaka, Y, Nishino, N. | Deposit date: | 2003-12-03 | Release date: | 2004-08-03 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.25 Å) | Cite: | Crystal structures of collagen model peptides with Pro-Hyp-Gly repeating sequence at 1.26 A resolution: implications for proline ring puckering Biopolymers, 76, 2004
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1V4F
| Crystal structures of collagen model peptides with pro-hyp-gly sequence at 1.3A | Descriptor: | collagen like peptide | Authors: | Okuyama, K, Hongo, C, Fukushima, R, Wu, G, Noguchi, K, Tanaka, Y, Nishino, N. | Deposit date: | 2003-11-13 | Release date: | 2004-08-03 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.26 Å) | Cite: | Crystal structures of collagen model peptides with Pro-Hyp-Gly repeating sequence at 1.26 A resolution: implications for proline ring puckering Biopolymers, 76, 2004
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1V7H
| Crystal Structures of Collagen Model Peptides with Pro-Hyp-Gly Sequence at 1.26 A | Descriptor: | Collagen like peptide | Authors: | Okuyama, K, Hongo, C, Fukushima, R, Wu, G, Narita, H, Noguchi, K, Tanaka, Y, Nishino, N. | Deposit date: | 2003-12-17 | Release date: | 2004-08-03 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.25 Å) | Cite: | Crystal structures of collagen model peptides with Pro-Hyp-Gly repeating sequence at 1.26 A resolution: implications for proline ring puckering Biopolymers, 76, 2004
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3AXG
| Structure of 6-aminohexanoate-oligomer hydrolase | Descriptor: | Endotype 6-aminohexanoat-oligomer hydrolase, SODIUM ION | Authors: | Negoro, S, Shibata, N, Tanaka, Y, Yasuhira, K, Shibata, H, Hashimoto, H, Lee, Y.H, Ohshima, S, Santa, R, Mochiji, K, Goto, Y, Ikegami, T, Nagai, K, Kato, D, Takeo, M, Higuchi, Y. | Deposit date: | 2011-04-04 | Release date: | 2011-12-21 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Three-dimensional structure of nylon hydrolase and mechanism of nylon-6 hydrolysis J.Biol.Chem., 287, 2012
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2EL2
| Structural study of Project ID PH0725 from Pyrococcus horikoshii OT3 (L185M) | Descriptor: | S-ADENOSYL-L-HOMOCYSTEINE, SODIUM ION, diphthine synthase | Authors: | Asada, Y, Tanaka, Y, Pampa, K, Matsuura, Y, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-03-26 | Release date: | 2007-10-02 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural study of Project ID PH0725 from Pyrococcus horikoshii OT3 (L185M) To be Published
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3VVB
| Crystal Structure of Capsular Polysaccharide Synthesizing Enzyme CapE from Staphylococcus aureus in apo form | Descriptor: | CapE, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | Authors: | Miyafusa, T, Caaveiro, J.M, Tanaka, Y, Tsumoto, K. | Deposit date: | 2012-07-18 | Release date: | 2013-06-12 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal structure of the capsular polysaccharide synthesizing protein CapE of Staphylococcus aureus. Biosci.Rep., 33, 2013
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3VVC
| Crystal Structure of Capsular Polysaccharide Synthesizing Enzyme CapE , K126E, in apo form | Descriptor: | Capsular polysaccharide synthesis enzyme Cap8E, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, SULFATE ION | Authors: | Miyafusa, T, Caaveiro, J.M, Tanaka, Y, Tsumoto, K. | Deposit date: | 2012-07-18 | Release date: | 2013-06-12 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structure of the capsular polysaccharide synthesizing protein CapE of Staphylococcus aureus. Biosci.Rep., 33, 2013
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2EK2
| Structural study of Project ID PH0725 from Pyrococcus horikoshii OT3 (E140M) | Descriptor: | S-ADENOSYL-L-HOMOCYSTEINE, SODIUM ION, diphthine synthase | Authors: | Asada, Y, Matsuura, Y, Tanaka, Y, Nakamoto, T, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-03-22 | Release date: | 2007-09-25 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Structural study of Project ID PH0725 from Pyrococcus horikoshii OT3 (E140M) To be Published
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2EKB
| Structural study of Project ID TTHB049 from Thermus thermophilus HB8 (L19M) | Descriptor: | Alpha-ribazole-5'-phosphate phosphatase, SODIUM ION | Authors: | Asada, Y, Taketa, M, Tanaka, Y, Matsuura, Y, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-03-22 | Release date: | 2007-09-25 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural study of Project ID TTHB049 from Thermus thermophilus HB8 (L19M) To be Published
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2E8H
| Crystal structure of PH0725 from Pyrococcus horikoshii OT3 | Descriptor: | Probable diphthine synthase, S-ADENOSYL-L-HOMOCYSTEINE, SODIUM ION | Authors: | Sugahara, M, Taketa, M, Tanaka, Y, Matsuura, Y, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-01-19 | Release date: | 2007-07-24 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystal structure of PH0725 from Pyrococcus horikoshii OT3 To be Published
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3BIK
| Crystal Structure of the PD-1/PD-L1 Complex | Descriptor: | GLYCEROL, Programmed cell death 1 ligand 1, Programmed cell death protein 1 | Authors: | Lin, D.Y, Tanaka, Y, Iwasaki, M, Gittis, A.G, Su, H.P, Mikami, B, Okazaki, T, Honjo, T, Minato, N, Garboczi, D.N. | Deposit date: | 2007-11-30 | Release date: | 2008-02-26 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.65 Å) | Cite: | The PD-1/PD-L1 complex resembles the antigen-binding Fv domains of antibodies and T cell receptors. Proc.Natl.Acad.Sci.Usa, 105, 2008
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5B5O
| Crystal structure of the catalytic domain of MMP-13 complexed with N-phenyl-4-((4H-1,2,4-triazol-3-ylsulfanyl)methyl)-1,3-thiazol-2-amine | Descriptor: | 1,2-ETHANEDIOL, CALCIUM ION, Collagenase 3, ... | Authors: | Oki, H, Tanaka, Y. | Deposit date: | 2016-05-13 | Release date: | 2017-01-18 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Discovery of Novel, Highly Potent, and Selective Matrix Metalloproteinase (MMP)-13 Inhibitors with a 1,2,4-Triazol-3-yl Moiety as a Zinc Binding Group Using a Structure-Based Design Approach J. Med. Chem., 60, 2017
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3BIS
| Crystal Structure of the PD-L1 | Descriptor: | Programmed cell death 1 ligand 1 | Authors: | Lin, D.Y, Tanaka, Y, Iwasaki, M, Gittis, A.G, Su, H.P, Mikami, B, Okazaki, T, Honjo, T, Minato, N, Garboczi, D.N. | Deposit date: | 2007-11-30 | Release date: | 2008-02-26 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.64 Å) | Cite: | The PD-1/PD-L1 complex resembles the antigen-binding Fv domains of antibodies and T cell receptors. Proc.Natl.Acad.Sci.Usa, 105, 2008
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3VV6
| Crystal Structure of beta secetase in complex with 2-amino-3-methyl-6-((1S, 2R)-2-phenylcyclopropyl)pyrimidin-4(3H)-one | Descriptor: | 2-amino-3-methyl-6-[(1S,2R)-2-phenylcyclopropyl]pyrimidin-4(3H)-one, Beta-secretase 1, GLYCEROL, ... | Authors: | Yonezawa, S, Yamamoto, T, Yamakawa, H, Muto, C, Hosono, M, Hattori, K, Higashino, K, Sakagami, M, Togame, H, Tanaka, Y, Nakano, T, Takemoto, H, Arisawa, M, Shuto, S. | Deposit date: | 2012-07-17 | Release date: | 2012-10-24 | Last modified: | 2017-11-22 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Conformational restriction approach to beta-secretase (BACE1) inhibitors: effect of a cyclopropane ring to induce an alternative binding mode J.Med.Chem., 55, 2012
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3VV8
| Crystal structure of beta secetase in complex with 2-amino-3-methyl-6-((1S,2R)-2-(3'-methylbiphenyl-4-yl)cyclopropyl)pyrimidin-4(3H)-one | Descriptor: | 2-amino-3-methyl-6-[(1S,2R)-2-(3'-methylbiphenyl-4-yl)cyclopropyl]pyrimidin-4(3H)-one, Beta-secretase 1, GLYCEROL | Authors: | Yonezawa, S, Yamamoto, T, Yamakawa, H, Muto, C, Hosono, M, Hattori, K, Higashino, K, Sakagami, M, Togame, H, Tanaka, Y, Nakano, T, Takemoto, H, Arisawa, M, Shuto, S. | Deposit date: | 2012-07-17 | Release date: | 2012-10-24 | Last modified: | 2013-09-04 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Conformational restriction approach to beta-secretase (BACE1) inhibitors: effect of a cyclopropane ring to induce an alternative binding mode. J.Med.Chem., 55, 2012
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3VV7
| Crystal Structure of beta secetase in complex with 2-amino-6-((1S,2R)-2-(3'-methoxybiphenyl-3-yl)cyclopropyl)-3-methylpyrimidin-4(3H)-one | Descriptor: | 2-amino-6-[(1S,2R)-2-(3'-methoxybiphenyl-3-yl)cyclopropyl]-3-methylpyrimidin-4(3H)-one, Beta-secretase 1, GLYCEROL, ... | Authors: | Yonezawa, S, Yamamoto, T, Yamakawa, H, Muto, C, Hosono, M, Hattori, K, Higashino, K, Sakagami, M, Togame, H, Tanaka, Y, Nakano, T, Takemoto, H, Arisawa, M, Shuto, S. | Deposit date: | 2012-07-17 | Release date: | 2012-10-24 | Last modified: | 2013-09-04 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Conformational restriction approach to beta-secretase (BACE1) inhibitors: effect of a cyclopropane ring to induce an alternative binding mode. J.Med.Chem., 55, 2012
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3W1V
| Crystal Structure of Capsular Polysaccharide Synthesizing Enzyme CapE from Staphylococcus aureus in complex with inihibitor | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, Capsular polysaccharide synthesis enzyme Cap8E, SODIUM ION, ... | Authors: | Miyafusa, T, Caaveiro, J.M, Tanaka, Y, Tsumoto, K. | Deposit date: | 2012-11-21 | Release date: | 2013-06-12 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystal structure of the capsular polysaccharide synthesizing protein CapE of Staphylococcus aureus. Biosci.Rep., 33, 2013
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2E27
| Crystal structure of Fv fragment of anti-ciguatoxin antibody complexed with ABC-ring of ciguatoxin | Descriptor: | 3,7:6,10:9,14-TRIANHYDRO-2,5,11,12,13-PENTADEOXY-4-O-(METHOXYMETHYL)-L-ARABINO-L-ALLO-TETRADEC-12-ENONIC ACID, DIMETHYL SULFOXIDE, GLYCEROL, ... | Authors: | Yokota, A, Tanaka, Y, Tsumoto, K. | Deposit date: | 2006-11-08 | Release date: | 2007-11-13 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Critical contribution of aromatic rings to specific recognition of polyether rings. The case of ciguatoxin CTX3C-ABC and its specific antibody 1C49. J.Biol.Chem., 283, 2008
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