7EXE
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7E62
| Mouse TAB2 NZF in complex with Lys6-linked diubiquitin | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, TGF-beta-activated kinase 1 and MAP3K7-binding protein 2, Ubiquitin, ... | Authors: | Sato, Y, Li, Y, Okatsu, K, Fukai, S. | Deposit date: | 2021-02-21 | Release date: | 2021-08-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.99 Å) | Cite: | Structural basis for specific recognition of K6-linked polyubiquitin chains by the TAB2 NZF domain. Biophys.J., 120, 2021
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1VFG
| Crystal structure of tRNA nucleotidyltransferase complexed with a primer tRNA and an incoming ATP analog | Descriptor: | DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, RNA (75-MER), poly A polymerase | Authors: | Tomita, K, Fukai, S, Ishitani, R, Ueda, T, Takeuchi, N, Vassylyev, D.G, Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2004-04-13 | Release date: | 2004-08-10 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Structural basis for template-independent RNA polymerization. Nature, 430, 2004
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5XWS
| Crystal structure of SALM5 LRR-Ig | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Leucine-rich repeat and fibronectin type-III domain-containing protein 5 | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2017-06-30 | Release date: | 2018-06-06 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (3.084 Å) | Cite: | Structural basis of trans-synaptic interactions between PTP delta and SALMs for inducing synapse formation. Nat Commun, 9, 2018
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5XWT
| Crystal structure of PTPdelta Ig1-Fn1 in complex with SALM5 LRR-Ig | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2017-06-30 | Release date: | 2018-06-06 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (4.178 Å) | Cite: | Structural basis of trans-synaptic interactions between PTP delta and SALMs for inducing synapse formation. Nat Commun, 9, 2018
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5XGC
| Crystal structure of SmgGDS-558 | Descriptor: | Rap1 GTPase-GDP dissociation stimulator 1 | Authors: | Shimizu, H, Toma-Fukai, S, Shimizu, T. | Deposit date: | 2017-04-13 | Release date: | 2017-06-28 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structure-based analysis of the guanine nucleotide exchange factor SmgGDS reveals armadillo-repeat motifs and key regions for activity and GTPase binding J. Biol. Chem., 292, 2017
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5Y31
| Crystal structure of human LGI1-ADAM22 complex | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Disintegrin and metalloproteinase domain-containing protein 22, ... | Authors: | Yamagata, A, Fukai, S. | Deposit date: | 2017-07-27 | Release date: | 2018-05-02 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (7.125 Å) | Cite: | Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22. Nat Commun, 9, 2018
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5Y30
| Crystal structure of LGI1 LRR domain | Descriptor: | Leucine-rich glioma-inactivated protein 1 | Authors: | Yamagata, A, Fukai, S. | Deposit date: | 2017-07-27 | Release date: | 2018-05-02 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.781 Å) | Cite: | Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22. Nat Commun, 9, 2018
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5Y2Z
| Crystal structure of human LGI1 EPTP-ADAM22 complex | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Yamagata, A, Fukai, S. | Deposit date: | 2017-07-27 | Release date: | 2018-05-02 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.67 Å) | Cite: | Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22. Nat Commun, 9, 2018
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5YJ9
| Crystal structure of Tribolium castaneum PINK1 kinase domain in complex with AMP-PNP | Descriptor: | MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, Serine/threonine-protein kinase PINK1, ... | Authors: | Okatsu, K, Sato, Y, Fukai, S. | Deposit date: | 2017-10-09 | Release date: | 2018-07-25 | Method: | X-RAY DIFFRACTION (2.53 Å) | Cite: | Structural insights into ubiquitin phosphorylation by PINK1. Sci Rep, 8, 2018
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5Z8X
| Crystal structure of human LRRTM2 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Leucine-rich repeat transmembrane neuronal protein 2 | Authors: | Yamagata, A, Fukai, S. | Deposit date: | 2018-02-01 | Release date: | 2018-10-10 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.15 Å) | Cite: | Structural insights into modulation and selectivity of transsynaptic neurexin-LRRTM interaction. Nat Commun, 9, 2018
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5Z8Y
| Crystal structure of human LRRTM2 in complex with Neurexin 1beta | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... | Authors: | Yamagata, A, Fukai, S. | Deposit date: | 2018-02-01 | Release date: | 2018-10-10 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | Structural insights into modulation and selectivity of transsynaptic neurexin-LRRTM interaction. Nat Commun, 9, 2018
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6A6I
| Crystal structure of the winged-helix domain of Cockayne syndrome group B protein in complex with ubiquitin | Descriptor: | CHLORIDE ION, Excision repair cross-complementing rodent repair deficiency, complementation group 6 variant, ... | Authors: | Takahashi, T.S, Sato, Y, Fukai, S. | Deposit date: | 2018-06-28 | Release date: | 2019-02-13 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Structural basis of ubiquitin recognition by the winged-helix domain of Cockayne syndrome group B protein. Nucleic Acids Res., 47, 2019
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6IXF
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6IXE
| Crystal structure of SeMet apo SH3BP5 (I41) | Descriptor: | SH3 domain-binding protein 5, SUCCINIC ACID | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2018-12-10 | Release date: | 2019-03-20 | Last modified: | 2019-03-27 | Method: | X-RAY DIFFRACTION (3.35 Å) | Cite: | Structural basis of guanine nucleotide exchange for Rab11 by SH3BP5. Life Sci Alliance, 2, 2019
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6IXV
| Crystal structure of SH3BP5-Rab11a | Descriptor: | PHOSPHATE ION, Ras-related protein Rab-11A, SH3 domain-binding protein 5 | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2018-12-12 | Release date: | 2019-03-20 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (3.8 Å) | Cite: | Structural basis of guanine nucleotide exchange for Rab11 by SH3BP5. Life Sci Alliance, 2, 2019
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6J6X
| Crystal structure of apo GGTaseIII | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, Geranylgeranyl transferase type-2 subunit beta, MAGNESIUM ION, ... | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2019-01-16 | Release date: | 2020-01-22 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.962 Å) | Cite: | Crystal structure of apo GGTaseIII To Be Published
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6J74
| Complex of GGTaseIII and full-length Ykt6 | Descriptor: | Geranylgeranyl transferase type-2 subunit beta, PHOSPHATE ION, Protein prenyltransferase alpha subunit repeat-containing protein 1, ... | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2019-01-16 | Release date: | 2020-01-22 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.212 Å) | Cite: | Complex of GGTaseIII and full-length Ykt6 To Be Published
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6J7F
| Complex of GGTaseIII, farnesyl-Ykt6 (C-terminal methylated), and GGPP | Descriptor: | DIPHOSPHATE, FARNESYL, GERAN-8-YL GERAN, ... | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2019-01-18 | Release date: | 2020-01-22 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.883 Å) | Cite: | Complex of GGTaseIII, farnesyl-Ykt6 (C-terminal methylated), and GGPP To Be Published
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6IXG
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6J7X
| Complex of GGTaseIII, farnesyl-Ykt6, and GGPP | Descriptor: | FORMIC ACID, GERANYLGERANYL DIPHOSPHATE, Geranylgeranyl transferase type-2 subunit beta, ... | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | Deposit date: | 2019-01-18 | Release date: | 2020-01-22 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | Complex of GGTaseIII, farnesyl-Ykt6 (C-terminal methylated), and GGPP To Be Published
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7W86
| Crystal structure of the DYW domain of DYW1 | Descriptor: | 1,2-ETHANEDIOL, ACETATE ION, GLYCEROL, ... | Authors: | Sawada, Y, Shimizu, H, Toma-Fukai, S, Shimizu, T. | Deposit date: | 2021-12-07 | Release date: | 2022-12-14 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Structural insight into the activation of an Arabidopsis organellar C-to-U RNA editing enzyme by active site complementation. Plant Cell, 35, 2023
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6KIP
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3WWQ
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3VU8
| Metionyl-tRNA synthetase from Thermus thermophilus complexed with methionyl-adenylate analogue | Descriptor: | Methionine--tRNA ligase, N-[METHIONYL]-N'-[ADENOSYL]-DIAMINOSULFONE, ZINC ION | Authors: | Konno, M, Kato-Murayama, M, Toma-Fukai, S, Uchikawa, E, Nureki, O, Yokoyama, S. | Deposit date: | 2012-06-22 | Release date: | 2013-06-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | The modeling of structures of specific conformation of homosysteine-AMP leading to thiolactone-formation on class Ia aminoacyl-tRNA synthetases To be Published
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