7YU8
 
 | | Human Lysophosphatidic Acid Receptor 1-Gi complex bound to ONO-0740556, state4 | | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(i) subunit alpha-1, ... | | Authors: | Akasaka, H, Shihoya, W, Nureki, O. | | Deposit date: | 2022-08-16 | | Release date: | 2022-10-05 | | Method: | ELECTRON MICROSCOPY (4.5 Å) | | Cite: | Structure of the active G i -coupled human lysophosphatidic acid receptor 1 complexed with a potent agonist.
Nat Commun, 13, 2022
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1GAX
 | | CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE | | Descriptor: | N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, TRNA(VAL), VALYL-TRNA SYNTHETASE, ... | | Authors: | Fukai, S, Nureki, O, Sekine, S, Shimada, A, Tao, J, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2000-06-23 | | Release date: | 2000-12-06 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Structural basis for double-sieve discrimination of L-valine from L-isoleucine and L-threonine by the complex of tRNA(Val) and valyl-tRNA synthetase.
Cell(Cambridge,Mass.), 103, 2000
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1G59
 | | GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(GLU). | | Descriptor: | GLUTAMYL-TRNA SYNTHETASE, TRNA(GLU) | | Authors: | Sekine, S, Nureki, O, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2000-10-31 | | Release date: | 2001-09-01 | | Last modified: | 2023-08-02 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Structural basis for anticodon recognition by discriminating glutamyl-tRNA synthetase.
Nat.Struct.Biol., 8, 2001
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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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1HLV
 | | CRYSTAL STRUCTURE OF CENP-B(1-129) COMPLEXED WITH THE CENP-B BOX DNA | | Descriptor: | CENP-B BOX DNA, MAJOR CENTROMERE AUTOANTIGEN B | | Authors: | Tanaka, Y, Nureki, O, Kurumizaka, H, Fukai, S, Kawaguchi, S, Ikuta, M, Iwahara, J, Okazaki, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2000-12-04 | | Release date: | 2002-01-11 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Crystal structure of the CENP-B protein-DNA complex: the DNA-binding domains of CENP-B induce kinks in the CENP-B box DNA.
EMBO J., 20, 2001
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1HZD
 | | CRYSTAL STRUCTURE OF HUMAN AUH PROTEIN, AN RNA-BINDING HOMOLOGUE OF ENOYL-COA HYDRATASE | | Descriptor: | AU-BINDING PROTEIN/ENOYL-COA HYDRATASE | | Authors: | Kurimoto, K, Fukai, S, Nureki, O, Muto, Y, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-01-24 | | Release date: | 2001-12-12 | | Last modified: | 2023-08-09 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of human AUH protein, a single-stranded RNA binding homolog of enoyl-CoA hydratase.
Structure, 9, 2001
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1IU3
 | | CRYSTAL STRUCTURE OF THE E.COLI SEQA PROTEIN COMPLEXED WITH HEMIMETHYLATED DNA | | Descriptor: | 5'-D(*AP*AP*GP*GP*AP*TP*CP*CP*AP*A)-3', 5'-D(*TP*TP*GP*GP*AP*TP*CP*CP*TP*T)-3', SeqA protein | | Authors: | Fujikawa, N, Kurumizaka, H, Nureki, O, Tanaka, Y, Yamazoe, M, Hiraga, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-02-26 | | Release date: | 2003-06-17 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structural and biochemical analyses of hemimethylated DNA binding by the SeqA protein.
Nucleic Acids Res., 32, 2004
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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
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1IYW
 | | Preliminary Structure of Thermus thermophilus Ligand-Free Valyl-tRNA Synthetase | | Descriptor: | Valyl-tRNA Synthetase | | Authors: | Fukai, S, Nureki, O, Sekine, S, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-09-10 | | Release date: | 2003-06-17 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (4 Å) | | Cite: | Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase
RNA, 9, 2003
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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
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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
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1IUG
 | | The crystal structure of aspartate aminotransferase which belongs to subgroup IV from Thermus thermophilus | | Descriptor: | PHOSPHATE ION, putative aspartate aminotransferase | | Authors: | Katsura, Y, Shirouzu, M, Yamaguchi, H, Ishitani, R, Nureki, O, Kuramitsu, S, Hayashi, H, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-03-04 | | Release date: | 2003-11-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of a putative aspartate aminotransferase belonging to subgroup IV.
Proteins, 55, 2004
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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
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1J1V
 | | Crystal structure of DnaA domainIV complexed with DnaAbox DNA | | Descriptor: | 5'-D(*CP*CP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*A)-3', 5'-D(*TP*GP*TP*TP*AP*TP*CP*CP*AP*CP*AP*GP*G)-3', Chromosomal replication initiator protein dnaA | | Authors: | Fujikawa, N, Kurumizaka, H, Nureki, O, Terada, T, Shirouzu, M, Katayama, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-12-18 | | Release date: | 2003-04-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structural basis of replication origin recognition by the DnaA protein
NUCLEIC ACIDS RES., 31, 2003
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1J3E
 | | Crystal Structure of the E.coli SeqA protein complexed with N6-methyladenine- guanine mismatch DNA | | Descriptor: | 5'-D(*AP*AP*GP*GP*(6MA)P*TP*CP*CP*AP*A)-3', 5'-D(*TP*TP*GP*GP*AP*GP*CP*CP*TP*T)-3', SeqA protein | | Authors: | Fujikawa, N, Kurumizaka, H, Nureki, O, Tanaka, Y, Yamazoe, M, Hiraga, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-01-24 | | Release date: | 2004-05-18 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural and biochemical analyses of hemimethylated DNA binding by the SeqA protein
Nucleic Acids Res., 32, 2004
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1IQ0
 | | THERMUS THERMOPHILUS ARGINYL-TRNA SYNTHETASE | | Descriptor: | ARGINYL-TRNA SYNTHETASE | | Authors: | Shimada, A, Nureki, O, Goto, M, Takahashi, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-05-24 | | Release date: | 2001-11-28 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Structural and mutational studies of the recognition of the arginine tRNA-specific major identity element, A20, by arginyl-tRNA synthetase.
Proc.Natl.Acad.Sci.USA, 98, 2001
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1J2B
 | | Crystal Structure Of Archaeosine tRNA-Guanine Transglycosylase Complexed With lambda-form tRNA(Val) | | Descriptor: | Archaeosine tRNA-guanine transglycosylase, MAGNESIUM ION, ZINC ION, ... | | Authors: | Ishitani, R, Nureki, O, Nameki, N, Okada, N, Nishimura, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-12-29 | | Release date: | 2003-05-27 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Alternative Tertiary Structure of tRNA for Recognition by a Posttranscriptional Modification Enzyme
Cell(Cambridge,Mass.), 113, 2003
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1J1U
 | | Crystal structure of archaeal tyrosyl-tRNA synthetase complexed with tRNA(Tyr) and L-tyrosine | | Descriptor: | MAGNESIUM ION, TYROSINE, Tyrosyl-tRNA synthetase, ... | | Authors: | Kobayashi, T, Nureki, O, Ishitani, R, Tukalo, M, Cusack, S, Sakamoto, K, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-12-17 | | Release date: | 2003-06-03 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | Structural basis for orthogonal tRNA specificities of tyrosyl-tRNA synthetases for genetic code expansion
NAT.STRUCT.BIOL., 10, 2003
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5X2G
 | | Crystal structure of Campylobacter jejuni Cas9 in complex with sgRNA and target DNA (AGAAACC PAM) | | Descriptor: | 1,2-ETHANEDIOL, CRISPR-associated endonuclease Cas9, Non-target DNA strand, ... | | Authors: | Yamada, M, Watanabe, Y, Hirano, H, Nakane, T, Ishitani, R, Nishimasu, H, Nureki, O. | | Deposit date: | 2017-01-31 | | Release date: | 2017-03-29 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems
Mol. Cell, 65, 2017
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5X2H
 | | Crystal structure of Campylobacter jejuni Cas9 in complex with sgRNA and target DNA (AGAAACA PAM) | | Descriptor: | 1,2-ETHANEDIOL, CRISPR-associated endonuclease Cas9, Non-target DNA strand, ... | | Authors: | Yamada, M, Watanabe, Y, Hirano, H, Nakane, T, Ishitani, R, Nishimasu, H, Nureki, O. | | Deposit date: | 2017-01-31 | | Release date: | 2017-03-29 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems
Mol. Cell, 65, 2017
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5WZY
 | | Crystal structure of the P2X4 receptor from zebrafish in the presence of CTP at 2.8 Angstroms | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CYTIDINE-5'-TRIPHOSPHATE, GLYCEROL, ... | | Authors: | Kasuya, G, Hattori, M, Nureki, O. | | Deposit date: | 2017-01-19 | | Release date: | 2017-04-05 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (2.799 Å) | | Cite: | Structural insights into the nucleotide base specificity of P2X receptors
Sci Rep, 7, 2017
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5X93
 | | Human endothelin receptor type-B in complex with antagonist K-8794 | | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 3-[6-[(4-tert-butylphenyl)sulfonylamino]-5-(2-methoxyphenoxy)-2-pyrimidin-2-yl-pyrimidin-4-yl]oxy-N-(2,6-dimethylphenyl)propanamide, CHOLESTEROL, ... | | Authors: | Shihoya, W, Nishizawa, T, Yamashita, K, Hirata, K, Okuta, A, Tani, K, Fujiyoshi, Y, Doi, T, Nureki, O. | | Deposit date: | 2017-03-05 | | Release date: | 2017-08-16 | | Last modified: | 2017-11-15 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | X-ray structures of endothelin ETB receptor bound to clinical antagonist bosentan and its analog
Nat. Struct. Mol. Biol., 24, 2017
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5X9H
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5X9G
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5XPR
 | | Human endothelin receptor type-B in complex with antagonist bosentan | | Descriptor: | 4-tert-butyl-N-[6-(2-hydroxyethyloxy)-5-(2-methoxyphenoxy)-2-pyrimidin-2-yl-pyrimidin-4-yl]benzenesulfonamide, Endothelin B receptor,Endolysin,Endothelin B receptor, SULFATE ION | | Authors: | Shihoya, W, Nishizawa, T, Yamashita, K, Hirata, K, Okuta, A, Tani, K, Fujiyoshi, Y, Doi, T, Nureki, O. | | Deposit date: | 2017-06-04 | | Release date: | 2017-08-16 | | Last modified: | 2017-11-15 | | Method: | X-RAY DIFFRACTION (3.6 Å) | | Cite: | X-ray structures of endothelin ETB receptor bound to clinical antagonist bosentan and its analog
Nat. Struct. Mol. Biol., 24, 2017
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