Author results

1IVS
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CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE
Descriptor:tRNA (Val), Valyl-tRNA synthetase, N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE
Authors:Fukai, S., Nureki, O., Sekine, S.-I., Shimada, A., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-03-29
Release date:2003-02-11
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase
RNA, 9, 2003
1GAX
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CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE
Descriptor:TRNA(VAL), VALYL-TRNA SYNTHETASE, ZINC ION, ...
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:2011-07-13
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
1IYW
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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:2018-02-07
Method:X-RAY DIFFRACTION (4 Å)
Cite:Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase
RNA, 9, 2003
1UAD
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CRYSTAL STRUCTURE OF THE RALA-GPPNHP-SEC5 RAL-BINDING DOMAIN COMPLEX
Descriptor:Ras-related protein Ral-A, Exocyst complex component Sec5, MAGNESIUM ION, ...
Authors:Fukai, S., Matern, H.T., Scheller, R.H., Brunger, A.T.
Deposit date:2003-03-09
Release date:2003-07-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structural basis of the interaction between RalA and Sec5, a subunit of the Sec6/8 complex
EMBO J., 22, 2003
2E7S
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CRYSTAL STRUCTURE OF THE YEAST SEC2P GEF DOMAIN
Descriptor:Rab guanine nucleotide exchange factor SEC2
Authors:Fukai, S., Sato, Y., Nureki, O.
Deposit date:2007-01-12
Release date:2007-02-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3 Å)
Cite:Asymmetric Coiled-Coil Structure with Guanine Nucleotide Exchange Activity
Structure, 15, 2007
1HLV
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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:2011-07-13
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
1IQ8
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CRYSTAL STRUCTURE OF ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE FROM PYROCOCCUS HORIKOSHII
Descriptor:ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE, ZINC ION, 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:2001-07-09
Release date:2002-05-22
Last modified:2018-01-31
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of archaeosine tRNA-guanine transglycosylase.
J.Mol.Biol., 318, 2002
1IT7
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CRYSTAL STRUCTURE OF ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE COMPLEXED WITH GUANINE
Descriptor:Archaeosine tRNA-guanine transglycosylase, ZINC ION, 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:2018-02-07
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structure of archaeosine tRNA-guanine transglycosylase.
J.Mol.Biol., 318, 2002
1IT8
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CRYSTAL STRUCTURE OF ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE FROM PYROCOCCUS HORIKOSHII COMPLEXED WITH ARCHAEOSINE PRECURSOR, PREQ0
Descriptor:archaeosine tRNA-guanine transglycosylase, ZINC ION, 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:2018-02-07
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of archaeosine tRNA-guanine transglycosylase.
J.Mol.Biol., 318, 2002
3VU8
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METIONYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS COMPLEXED WITH METHIONYL-ADENYLATE ANALOGUE
Descriptor:Methionine--tRNA ligase, ZINC ION, N-[METHIONYL]-N'-[ADENOSYL]-DIAMINOSULFONE
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
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
3WWQ
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CRYSTAL STRUCTURE OF FAAP20 UBZ DOMAIN IN COMPLEX WITH LYS63-LINKED DIUBIQUITIN
Descriptor:Ubiquitin, Fanconi anemia-associated protein of 20 kDa, ZINC ION
Authors:Sato, Y., Fukai, S.
Deposit date:2014-06-23
Release date:2015-05-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural Basis for Ubiquitin Recognition by Ubiquitin-Binding Zinc Finger of FAAP20
Plos One, 10, 2015
1HZD
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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:2011-07-13
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
1ILE
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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
1IVO
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CRYSTAL STRUCTURE OF THE COMPLEX OF HUMAN EPIDERMAL GROWTH FACTOR AND RECEPTOR EXTRACELLULAR DOMAINS.
Descriptor:Epidermal Growth Factor Receptor, Epidermal growth factor, N-ACETYL-D-GLUCOSAMINE
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:2011-07-13
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
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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:2011-07-13
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
1UDZ
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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:2011-07-13
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
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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:2011-07-13
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
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TRMH
Descriptor:tRNA (Gm18) methyltransferase, PHOSPHATE ION, S-ADENOSYLMETHIONINE
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:2013-06-26
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
2Z6E
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CRYSTAL STRUCTURE OF HUMAN DAAM1 FH2
Descriptor:Disheveled-associated activator of morphogenesis 1
Authors:Yamashita, M., Higashi, T., Sato, Y., Shirakawa, R., Kita, T., Horiuchi, H., Fukai, S., Nureki, O.
Deposit date:2007-07-31
Release date:2008-05-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of human DAAM1 formin homology 2 domain
Genes Cells, 12, 2007
3B2E
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CRYSTAL STRUCTURE OF S. CEREVISIAE GET3 IN THE OPEN CONFORMATION IN COMPLEX WITH GET1 CYTOSOLIC DOMAIN
Descriptor:ATPase GET3, Golgi to ER traffic protein 1, ADENOSINE-5'-DIPHOSPHATE
Authors:Kubota, K., Yamagata, A., Fukai, S.
Deposit date:2011-07-30
Release date:2012-06-27
Last modified:2013-06-19
Method:X-RAY DIFFRACTION (3 Å)
Cite:Get1 stabilizes an open dimer conformation of get3 ATPase by binding two distinct interfaces
J.Mol.Biol., 422, 2012
3VLC
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CRYSTAL STRUCTURE OF S. CEREVISIAE GET3 IN THE SEMI OPEN CONFORMATION IN COMPLEX WITH GET1 CYTOSOLIC DOMAIN AT 4.5 ANGSTROM RESOLUTION
Descriptor:ATPase GET3, Golgi to ER traffic protein 1, ADENOSINE-5'-DIPHOSPHATE
Authors:Kubota, K., Yamagata, A., Fukai, S.
Deposit date:2011-11-30
Release date:2012-06-20
Last modified:2013-06-19
Method:X-RAY DIFFRACTION (4.5 Å)
Cite:Get1 stabilizes an open dimer conformation of get3 ATPase by binding two distinct interfaces
J.Mol.Biol., 422, 2012
3VON
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CRYSTALSTRUCTURE OF THE UBIQUITIN PROTEASE
Descriptor:Ubiquitin thioesterase OTUB1, Ubiquitin-conjugating enzyme E2 variant 2, Ubiquitin-conjugating enzyme E2 N
Authors:Sato, Y., Fukai, S.
Deposit date:2012-01-30
Release date:2012-05-30
Method:X-RAY DIFFRACTION (3.15 Å)
Cite:Molecular basis of K63-linked polyubiquitination inhibition by the interaction between human deubiquitinating enzyme OTUB1 and ubiquitin-conjugating enzyme UBC13
To be Published
3WXE
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CRYSTAL STRUCTURE OF CYLD USP DOMAIN (C596S) IN COMPLEX WITH MET1-LINKED DIUBIQUITIN
Descriptor:Uncharacterized protein, Ubiquitin
Authors:Sato, Y., Fukai, S.
Deposit date:2014-07-30
Release date:2015-02-11
Last modified:2017-08-16
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structures of CYLD USP with Met1- or Lys63-linked diubiquitin reveal mechanisms for dual specificity
Nat.Struct.Mol.Biol., 2015
3WXF
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CRYSTAL STRUCTURE OF CYLD USP DOMAIN (C596S E674Q) IN COMPLEX WITH MET1-LINKED DIUBIQUITIN
Descriptor:Uncharacterized protein, Ubiquitin, SULFATE ION
Authors:Sato, Y., Fukai, S.
Deposit date:2014-07-30
Release date:2015-02-11
Last modified:2017-08-16
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structures of CYLD USP with Met1- or Lys63-linked diubiquitin reveal mechanisms for dual specificity
Nat.Struct.Mol.Biol., 2015
3WXG
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CRYSTAL STRUCTURE OF CYLD USP DOMAIN (C596A) IN COMPLEX WITH LYS63-LINKED DIUBIQUITIN
Descriptor:Uncharacterized protein, Ubiquitin
Authors:Sato, Y., Fukai, S.
Deposit date:2014-07-30
Release date:2015-02-11
Last modified:2017-08-16
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Structures of CYLD USP with Met1- or Lys63-linked diubiquitin reveal mechanisms for dual specificity
Nat.Struct.Mol.Biol., 2015