5H7G
| Crystal structure of the BCL6 BTB domain in complex with F1324 | Descriptor: | B-cell lymphoma 6 protein, F1324 peptide, SULFATE ION | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2016-11-18 | Release date: | 2016-12-07 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | Discovery of high-affinity BCL6-binding peptide and its structure-activity relationship. Biochem. Biophys. Res. Commun., 482, 2017
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7CNQ
| Crystal structure of Agrobacterium tumefaciens aconitase X (holo-form) | Descriptor: | (2~{S},3~{R})-3-oxidanylpyrrolidine-2-carboxylic acid, FE2/S2 (INORGANIC) CLUSTER, cis-3-hydroxy-L-proline dehydratase | Authors: | Murase, Y, Watanabe, Y, Watanabe, S. | Deposit date: | 2020-08-03 | Release date: | 2021-06-16 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structures of aconitase X enzymes from bacteria and archaea provide insights into the molecular evolution of the aconitase superfamily. Commun Biol, 4, 2021
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7CNR
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7CNP
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7CNS
| Crystal structure of Thermococcus kodakaraensis aconitase X (holo-form) | Descriptor: | (3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC ACID, DUF521 domain-containing protein, FE3-S4 CLUSTER, ... | Authors: | Murase, Y, Watanabe, Y, Watanabe, S. | Deposit date: | 2020-08-03 | Release date: | 2021-06-16 | Last modified: | 2022-12-28 | Method: | X-RAY DIFFRACTION (1.902 Å) | Cite: | Crystal structures of aconitase X enzymes from bacteria and archaea provide insights into the molecular evolution of the aconitase superfamily. Commun Biol, 4, 2021
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7D2R
| Crystal structure of Agrobacterium tumefaciens aconitase X mutant - S449C/C510V | Descriptor: | FE2/S2 (INORGANIC) CLUSTER, GLYCEROL, SODIUM ION, ... | Authors: | Murase, Y, Watanabe, Y, Watanabe, S. | Deposit date: | 2020-09-17 | Release date: | 2021-06-16 | Last modified: | 2022-12-28 | Method: | X-RAY DIFFRACTION (2.005 Å) | Cite: | Crystal structures of aconitase X enzymes from bacteria and archaea provide insights into the molecular evolution of the aconitase superfamily. Commun Biol, 4, 2021
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6IGG
| Crystal structure of FT condition 1 | Descriptor: | 1,2-ETHANEDIOL, Protein FLOWERING LOCUS T | Authors: | Watanabe, S, Nakamura, Y, Kanehara, K, Inaba, K. | Deposit date: | 2018-09-25 | Release date: | 2019-12-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1 Å) | Cite: | High-Resolution Crystal Structure of Arabidopsis FLOWERING LOCUS T Illuminates Its Phospholipid-Binding Site in Flowering. Iscience, 21, 2019
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6IGJ
| Crystal structure of FT condition 4 | Descriptor: | MAGNESIUM ION, Protein FLOWERING LOCUS T | Authors: | Watanabe, S, Nakamura, Y, Kanehara, K, Inaba, K. | Deposit date: | 2018-09-25 | Release date: | 2019-12-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.501 Å) | Cite: | High-Resolution Crystal Structure of Arabidopsis FLOWERING LOCUS T Illuminates Its Phospholipid-Binding Site in Flowering. Iscience, 21, 2019
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6IGH
| Crystal structure of FT condition3 | Descriptor: | 1,2-ETHANEDIOL, Protein FLOWERING LOCUS T | Authors: | Watanabe, S, Nakamura, Y, Kanehara, K, Inaba, K. | Deposit date: | 2018-09-25 | Release date: | 2019-12-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.01 Å) | Cite: | High-Resolution Crystal Structure of Arabidopsis FLOWERING LOCUS T Illuminates Its Phospholipid-Binding Site in Flowering. Iscience, 21, 2019
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6IGI
| Crystal structure of FT condition 2 | Descriptor: | 1,2-ETHANEDIOL, Protein FLOWERING LOCUS T | Authors: | Watanabe, S, Nakamura, Y, Kanehara, K, Inaba, K. | Deposit date: | 2018-09-25 | Release date: | 2019-12-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.33 Å) | Cite: | High-Resolution Crystal Structure of Arabidopsis FLOWERING LOCUS T Illuminates Its Phospholipid-Binding Site in Flowering. Iscience, 21, 2019
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1JRH
| COMPLEX (ANTIBODY/ANTIGEN) | Descriptor: | ANTIBODY A6, INTERFERON-GAMMA RECEPTOR ALPHA CHAIN | Authors: | Winkler, F.K, Sogabe, S. | Deposit date: | 1997-09-23 | Release date: | 1998-03-25 | Last modified: | 2023-08-09 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Neutralizing epitopes on the extracellular interferon gamma receptor (IFNgammaR) alpha-chain characterized by homolog scanning mutagenesis and X-ray crystal structure of the A6 fab-IFNgammaR1-108 complex. J.Mol.Biol., 273, 1997
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5X4N
| Crystal structure of the BCL6 BTB domain in complex with Compound 4 | Descriptor: | 1,2-ETHANEDIOL, 5-chloro-N4-phenylpyrimidine-2,4-diamine, B-cell lymphoma 6 protein | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-02-13 | Release date: | 2017-05-24 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.94 Å) | Cite: | Discovery of a B-Cell Lymphoma 6 Protein-Protein Interaction Inhibitor by a Biophysics-Driven Fragment-Based Approach J. Med. Chem., 60, 2017
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5X4O
| Crystal structure of the BCL6 BTB domain in complex with Compound 5 | Descriptor: | B-cell lymphoma 6 protein, N-methyl-N-{3-[({2-[(2-oxo-2,3-dihydro-1H-indol-5-yl)amino]-5-(trifluoromethyl)pyrimidin-4-yl}amino)methyl]pyridin-2-yl}methanesulfonamide | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-02-13 | Release date: | 2017-05-24 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Discovery of a B-Cell Lymphoma 6 Protein-Protein Interaction Inhibitor by a Biophysics-Driven Fragment-Based Approach J. Med. Chem., 60, 2017
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5X4M
| Crystal structure of the BCL6 BTB domain in complex with Compound 1 | Descriptor: | B-cell lymphoma 6 protein, N-phenyl-1,3,5-triazine-2,4-diamine | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-02-13 | Release date: | 2017-05-24 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Discovery of a B-Cell Lymphoma 6 Protein-Protein Interaction Inhibitor by a Biophysics-Driven Fragment-Based Approach J. Med. Chem., 60, 2017
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5X4Q
| Crystal structure of the BCL6 BTB domain in complex with Compound 7 | Descriptor: | 1,2-ETHANEDIOL, 5-[[5-chloranyl-2-(pyridin-3-ylmethylamino)pyrimidin-4-yl]amino]-1,3-dihydroindol-2-one, B-cell lymphoma 6 protein, ... | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-02-13 | Release date: | 2017-05-24 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Discovery of a B-Cell Lymphoma 6 Protein-Protein Interaction Inhibitor by a Biophysics-Driven Fragment-Based Approach J. Med. Chem., 60, 2017
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5X9P
| Crystal structure of the BCL6 BTB domain in complex with Compound 5 | Descriptor: | 3-[[4-chloranyl-2-nitro-5-[(2-oxidanylidene-1,3-dihydrobenzimidazol-5-yl)amino]phenyl]amino]propanoic acid, B-cell lymphoma 6 protein | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-03-08 | Release date: | 2017-08-16 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.86 Å) | Cite: | Discovery of a novel B-cell lymphoma 6 (BCL6)-corepressor interaction inhibitor by utilizing structure-based drug design Bioorg. Med. Chem., 25, 2017
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5AYL
| Crystal structure of ERdj5 form II | Descriptor: | 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE, DnaJ homolog subfamily C member 10 | Authors: | Watanabe, S, Maegawa, K, Inaba, K. | Deposit date: | 2015-08-22 | Release date: | 2017-02-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Highly dynamic nature of ERdj5 is essential for enhancement of the ER associated degradation To Be Published
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5X4P
| Crystal structure of the BCL6 BTB domain in complex with Compound 6 | Descriptor: | 5-[(5-chloranylpyrimidin-4-yl)amino]-1,3-dihydroindol-2-one, B-cell lymphoma 6 protein | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-02-13 | Release date: | 2017-05-24 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.06 Å) | Cite: | Discovery of a B-Cell Lymphoma 6 Protein-Protein Interaction Inhibitor by a Biophysics-Driven Fragment-Based Approach J. Med. Chem., 60, 2017
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5AZZ
| Crystal structure of seleno-insulin | Descriptor: | Insulin A chain, Insulin B chain | Authors: | Watanabe, S, Okumura, M, Arai, K, Takei, T, Asahina, Y, Hojo, H, Iwaoka, M, Inaba, K. | Deposit date: | 2015-10-23 | Release date: | 2017-05-03 | Last modified: | 2017-06-14 | Method: | X-RAY DIFFRACTION (1.45 Å) | Cite: | Preparation of Selenoinsulin as a Long-Lasting Insulin Analogue. Angew. Chem. Int. Ed. Engl., 56, 2017
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5AYK
| Crystal structure of ERdj5 form I | Descriptor: | 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE, CHLORIDE ION, DnaJ homolog subfamily C member 10 | Authors: | Watanabe, S, Maegawa, K, Inaba, K. | Deposit date: | 2015-08-22 | Release date: | 2017-02-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.25 Å) | Cite: | Highly dynamic nature of ERdj5 is essential for enhancement of the ER associated degradation To Be Published
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5X9O
| Crystal structure of the BCL6 BTB domain in complex with Compound 1a | Descriptor: | 1,2-ETHANEDIOL, 5-[(2-chloranyl-4-nitro-phenyl)amino]-1,3-dihydrobenzimidazol-2-one, B-cell lymphoma 6 protein, ... | Authors: | Sogabe, S, Ida, K, Lane, W, Snell, G. | Deposit date: | 2017-03-08 | Release date: | 2017-08-16 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.58 Å) | Cite: | Discovery of a novel B-cell lymphoma 6 (BCL6)-corepressor interaction inhibitor by utilizing structure-based drug design Bioorg. Med. Chem., 25, 2017
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7DBJ
| Crystal structure of human LDHB in complex with NADH, oxamate, and AXKO-0046 | Descriptor: | 1,2-ETHANEDIOL, 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, L-lactate dehydrogenase B chain, ... | Authors: | Sogabe, S, Miwa, M. | Deposit date: | 2020-10-20 | Release date: | 2021-10-20 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.551 Å) | Cite: | Identification of the first highly selective inhibitor of human lactate dehydrogenase B. Sci Rep, 11, 2021
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7DBK
| Crystal structure of human LDHB in complex with NADH | Descriptor: | 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, GLYCEROL, L-lactate dehydrogenase B chain | Authors: | Sogabe, S, Miwa, M. | Deposit date: | 2020-10-20 | Release date: | 2021-10-20 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.802 Å) | Cite: | Identification of the first highly selective inhibitor of human lactate dehydrogenase B. Sci Rep, 11, 2021
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3WFF
| Mineralocorticoid receptor ligand-binding domain with compound 2b | Descriptor: | 6-[4-(2,4-difluorophenyl)-5-oxo-2,5-dihydrofuran-3-yl]-2H-1,4-benzoxazin-3(4H)-one, Mineralocorticoid receptor, PHOSPHATE ION | Authors: | Sogabe, S, Habuka, N. | Deposit date: | 2013-07-19 | Release date: | 2013-08-21 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Design, synthesis, and structure-activity relationships of dihydrofuran-2-one and dihydropyrrol-2-one derivatives as novel benzoxazin-3-one-based mineralocorticoid receptor antagonists. Bioorg.Med.Chem., 21, 2013
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7F3O
| Crystal structure of the GluA2o LBD in complex with glutamate and TAK-653 | Descriptor: | 7-(4-cyclohexyloxyphenyl)-9-methyl-4$l^{6}-thia-1$l^{4},5,8-triazabicyclo[4.4.0]deca-1(10),6,8-triene 4,4-dioxide, ACETATE ION, GLUTAMIC ACID, ... | Authors: | Sogabe, S, Igaki, S, Hirokawa, A, Zama, Y, Lane, W, Snell, G. | Deposit date: | 2021-06-16 | Release date: | 2021-07-28 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.44 Å) | Cite: | Strictly regulated agonist-dependent activation of AMPA-R is the key characteristic of TAK-653 for robust synaptic responses and cognitive improvement. Sci Rep, 11, 2021
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