4YFD
 
 | | Crystal structure PTP delta Ig1-Fn2 in complex with IL-1RAcP | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Interleukin-1 receptor accessory protein, Receptor-type tyrosine-protein phosphatase delta | | Authors: | Yamagata, A, Fukai, S. | | Deposit date: | 2015-02-25 | | Release date: | 2015-05-06 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.253 Å) | | Cite: | Mechanisms of splicing-dependent trans-synaptic adhesion by PTP delta-IL1RAPL1/IL-1RAcP for synaptic differentiation.
Nat Commun, 6, 2015
|
|
4YH7
 | | Crystal structure of PTPdelta ectodomain in complex with IL1RAPL1 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Interleukin-1 receptor accessory protein-like 1, ... | | Authors: | Yamagata, A, Fukai, S. | | Deposit date: | 2015-02-27 | | Release date: | 2015-05-06 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (4.4 Å) | | Cite: | Mechanisms of splicing-dependent trans-synaptic adhesion by PTP delta-IL1RAPL1/IL-1RAcP for synaptic differentiation.
Nat Commun, 6, 2015
|
|
4YFE
 | | Crystal structure of PTP delta Fn1-Fn2 | | Descriptor: | Receptor-type tyrosine-protein phosphatase delta | | Authors: | Yamagata, A, Fukai, S. | | Deposit date: | 2015-02-25 | | Release date: | 2015-05-06 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.972 Å) | | Cite: | Mechanisms of splicing-dependent trans-synaptic adhesion by PTP delta-IL1RAPL1/IL-1RAcP for synaptic differentiation.
Nat Commun, 6, 2015
|
|
1UDZ
 | | Isoleucyl-tRNA synthetase editing domain | | Descriptor: | Isoleucyl-tRNA synthetase | | Authors: | Fukunaga, R, Fukai, S, Ishitani, R, Nureki, O, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-05-08 | | Release date: | 2004-03-23 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal structures of the CP1 domain from Thermus thermophilus isoleucyl-tRNA synthetase and its complex with L-valine.
J.Biol.Chem., 279, 2004
|
|
1UE0
 | | Isoleucyl-tRNA synthetase editing domain complexed with L-Valine | | Descriptor: | Isoleucyl-tRNA synthetase, VALINE | | Authors: | Fukunaga, R, Fukai, S, Ishitani, R, Nureki, O, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-05-08 | | Release date: | 2004-03-23 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structures of the CP1 domain from Thermus thermophilus isoleucyl-tRNA synthetase and its complex with L-valine.
J.Biol.Chem., 279, 2004
|
|
1V2X
 | | TrmH | | Descriptor: | PHOSPHATE ION, S-ADENOSYLMETHIONINE, tRNA (Gm18) methyltransferase | | Authors: | Nureki, O, Watanabe, K, Fukai, S, Ishii, R, Endo, Y, Hori, H, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-10-17 | | Release date: | 2004-05-04 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Deep Knot Structure for Construction of Active Site and Cofactor Binding Site of tRNA Modification Enzyme
STRUCTURE, 12, 2004
|
|
5WQJ
 | |
5WQK
 | |
1IT7
 | | Crystal structure of archaeosine tRNA-guanine transglycosylase complexed with guanine | | Descriptor: | Archaeosine tRNA-guanine transglycosylase, GUANINE, MAGNESIUM ION, ... | | Authors: | Ishitani, R, Nureki, O, Fukai, S, Kijimoto, T, Nameki, N, Watanabe, M, Kondo, H, Sekine, M, Okada, N, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-01-11 | | Release date: | 2002-05-22 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal structure of archaeosine tRNA-guanine transglycosylase.
J.Mol.Biol., 318, 2002
|
|
1IT8
 | | Crystal structure of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii complexed with archaeosine precursor, preQ0 | | Descriptor: | 2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONITRILE, MAGNESIUM ION, ZINC ION, ... | | Authors: | Ishitani, R, Nureki, O, Fukai, S, Kijimoto, T, Nameki, N, Watanabe, M, Kondo, H, Sekine, M, Okada, N, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-01-11 | | Release date: | 2002-05-22 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Crystal structure of archaeosine tRNA-guanine transglycosylase.
J.Mol.Biol., 318, 2002
|
|
4Y61
 | | Crystal structure of the complex between Slitrk2 LRR1 and PTP delta Ig1-Fn1 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Receptor-type tyrosine-protein phosphatase delta, SLIT and NTRK-like protein 2 | | Authors: | Yamgata, A, Sato, Y, Goto-Ito, S, Uemura, T, Maeda, A, Shiroshima, T, Yoshida, T, Fukai, S. | | Deposit date: | 2015-02-12 | | Release date: | 2015-06-03 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.358 Å) | | Cite: | Structure of Slitrk2-PTP delta complex reveals mechanisms for splicing-dependent trans-synaptic adhesion.
Sci Rep, 5, 2015
|
|
1IQ8
 | | Crystal Structure of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii | | Descriptor: | ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE, MAGNESIUM ION, ZINC ION | | Authors: | Ishitani, R, Nureki, O, Fukai, S, Kijimoto, T, Nameki, N, Watanabe, M, Kondo, H, Sekine, M, Okada, N, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-07-09 | | Release date: | 2002-05-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of archaeosine tRNA-guanine transglycosylase.
J.Mol.Biol., 318, 2002
|
|
7CQF
 | |
5B86
 | | Crystal structure of M-Sec | | Descriptor: | Tumor necrosis factor alpha-induced protein 2 | | Authors: | Yamashita, M, Sato, Y, Yamagata, A, Fukai, S. | | Deposit date: | 2016-06-12 | | Release date: | 2016-10-12 | | Last modified: | 2020-02-26 | | Method: | X-RAY DIFFRACTION (3.017 Å) | | Cite: | Distinct Roles for the N- and C-terminal Regions of M-Sec in Plasma Membrane Deformation during Tunneling Nanotube Formation.
Sci Rep, 6, 2016
|
|
3JSV
 | | Crystal structure of mouse NEMO CoZi in complex with Lys63-linked di-ubiquitin | | Descriptor: | NF-kappa-B essential modulator, Ubiquitin | | Authors: | Yoshikawa, A, Sato, Y, Mimura, H, Yamashita, M, Yamagata, A, Fukai, S. | | Deposit date: | 2009-09-11 | | Release date: | 2009-10-27 | | Last modified: | 2021-11-10 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Crystal structure of the NEMO ubiquitin-binding domain in complex with Lys 63-linked di-ubiquitin
Febs Lett., 583, 2009
|
|
1IVO
 | | Crystal Structure of the Complex of Human Epidermal Growth Factor and Receptor Extracellular Domains. | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Epidermal Growth Factor Receptor, ... | | Authors: | Ogiso, H, Ishitani, R, Nureki, O, Fukai, S, Yamanaka, M, Kim, J.H, Saito, K, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-03-28 | | Release date: | 2002-10-16 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Crystal Structure of the Complex of Human Epidermal Growth Factor and Receptor Extracellular Domains.
Cell(Cambridge,Mass.), 110, 2002
|
|
1KN0
 | | Crystal Structure of the human Rad52 protein | | Descriptor: | Rad52 | | Authors: | Kagawa, W, Kurumizaka, H, Ishitani, R, Fukai, S, Nureki, O, Shibata, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-12-18 | | Release date: | 2002-09-04 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Crystal structure of the homologous-pairing domain from the human Rad52 recombinase in the undecameric form.
Mol.Cell, 10, 2002
|
|
1ILE
 | | ISOLEUCYL-TRNA SYNTHETASE | | Descriptor: | ISOLEUCYL-TRNA SYNTHETASE, ZINC ION | | Authors: | Nureki, O, Vassylyev, D.G, Tateno, M, Shimada, A, Nakama, T, Fukai, S, Konno, M, Schimmel, P, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 1998-02-24 | | Release date: | 1999-04-13 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Enzyme structure with two catalytic sites for double-sieve selection of substrate.
Science, 280, 1998
|
|
5XIS
 | | Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form I | | Descriptor: | E3 ubiquitin-protein ligase RNF168, MAGNESIUM ION, Ubiquitin-40S ribosomal protein S27a, ... | | Authors: | Takahashi, T.S, Sato, Y, Fukai, S. | | Deposit date: | 2017-04-27 | | Release date: | 2018-03-07 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.78 Å) | | Cite: | Structural insights into two distinct binding modules for Lys63-linked polyubiquitin chains in RNF168.
Nat Commun, 9, 2018
|
|
5XIU
 | | Crystal structure of RNF168 UDM2 in complex with Lys63-linked diubiquitin | | Descriptor: | 1,2-ETHANEDIOL, E3 ubiquitin-protein ligase RNF168, Ubiquitin-40S ribosomal protein S27a | | Authors: | Takahashi, T.S, Sato, Y, Fukai, S. | | Deposit date: | 2017-04-27 | | Release date: | 2018-03-07 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural insights into two distinct binding modules for Lys63-linked polyubiquitin chains in RNF168.
Nat Commun, 9, 2018
|
|
5Y32
 | | Crystal structure of PTP delta Ig1-Ig2 in complex with IL1RAPL1 | | 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: | 2017-08-16 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.701 Å) | | Cite: | Mechanisms of splicing-dependent trans-synaptic adhesion by PTP delta-IL1RAPL1/IL-1RAcP for synaptic differentiation.
Nat Commun, 6, 2015
|
|
5YDK
 | | Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, tetrameric form | | Descriptor: | E3 ubiquitin-protein ligase RNF168, GLYCEROL, Ubiquitin-40S ribosomal protein S27a | | Authors: | Takahashi, T.S, Sato, Y, Fukai, S. | | Deposit date: | 2017-09-13 | | Release date: | 2018-03-07 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.505 Å) | | Cite: | Structural insights into two distinct binding modules for Lys63-linked polyubiquitin chains in RNF168
Nat Commun, 9, 2018
|
|
5ZNM
 | | Colicin D Central Domain and C-terminal tRNase domain | | Descriptor: | Colicin-D, GLYCEROL, SULFATE ION | | Authors: | Chang, J.W, Sato, Y, Ogawa, T, Arakawa, T, Fukai, S, Fushinobu, S, Masaki, H. | | Deposit date: | 2018-04-10 | | Release date: | 2018-08-29 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Crystal structure of the central and the C-terminal RNase domains of colicin D implicated its translocation pathway through inner membrane of target cell
J. Biochem., 164, 2018
|
|
6KC5
 | | HOIP-HOIPIN1 complex | | Descriptor: | 2-[3-(2-methoxyphenyl)-3-oxidanylidene-propyl]benzoic acid, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, E3 ubiquitin-protein ligase RNF31, ... | | Authors: | Sato, Y, Fukai, S. | | Deposit date: | 2019-06-27 | | Release date: | 2020-04-15 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.543 Å) | | Cite: | Molecular bases for HOIPINs-mediated inhibition of LUBAC and innate immune responses.
Commun Biol, 3, 2020
|
|
6KC6
 | | HOIP-HOIPIN8 complex | | Descriptor: | 2-[3-[2,6-bis(fluoranyl)-4-(1~{H}-pyrazol-4-yl)phenyl]-3-oxidanylidene-propyl]-4-(1-methylpyrazol-4-yl)benzoic acid, CHLORIDE ION, E3 ubiquitin-protein ligase RNF31, ... | | Authors: | Sato, Y, Fukai, S. | | Deposit date: | 2019-06-27 | | Release date: | 2020-04-15 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.123 Å) | | Cite: | Molecular bases for HOIPINs-mediated inhibition of LUBAC and innate immune responses.
Commun Biol, 3, 2020
|
|
