Author results

2RQR
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THE SOLUTION STRUCTURE OF HUMAN DOCK2 SH3 DOMAIN - ELMO1 PEPTIDE CHIMERA COMPLEX
Descriptor:Engulfment and cell motility protein 1, linker, Dedicator of cytokinesis protein 2
Authors:Yokoyama, S., Tochio, N., Koshiba, S., Kigawa, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2009-10-21
Release date:2010-10-27
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:The solution structure of human DOCK2 SH3 domain - ELMO1 peptide chimera complex
To be Published
2DVW
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STRUCTURE OF THE ONCOPROTEIN GANKYRIN IN COMPLEX WITH S6 ATPASE OF THE 26S PROTEASOME
Descriptor:26S proteasome non-ATPase regulatory subunit 10, 26S protease regulatory subunit 6B
Authors:Yokoyama, S., Padmanabhan, B., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2006-08-01
Release date:2007-03-13
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structure of the Oncoprotein Gankyrin in Complex with S6 ATPase of the 26S Proteasome
Structure, 15, 2007
2DZN
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CRYSTAL STRUCTURE ANALYSIS OF YEAST NAS6P COMPLEXED WITH THE PROTEASOME SUBUNIT, RPT3
Descriptor:Probable 26S proteasome regulatory subunit p28, 26S protease regulatory subunit 6B homolog
Authors:Yokoyama, S., Padmanabhan, B., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2006-09-29
Release date:2007-07-17
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for the recognition between the regulatory particles Nas6 and Rpt3 of the yeast 26S proteasome
Biochem.Biophys.Res.Commun., 359, 2007
3GQB
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CRYSTAL STRUCTURE OF THE A3B3 COMPLEX FROM V-ATPASE
Descriptor:V-type ATP synthase alpha chain, V-type ATP synthase beta chain
Authors:Meher, M., Akimoto, S., Iwata, M., Nagata, K., Hori, Y., Yoshida, M., Yokoyama, S., Iwata, S., Yokoyama, K.
Deposit date:2009-03-24
Release date:2009-11-24
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of A(3)B(3) complex of V-ATPase from Thermus thermophilus.
Embo J., 28, 2009
2EF1
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CRYSTAL STRUCTURE OF THE EXTRACELLULAR DOMAIN OF HUMAN CD38
Descriptor:ADP-ribosyl cyclase 1, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
Authors:Kukimoto-Niino, M., Nureki, O., Murayama, K., Shirouzu, M., Katada, T., Hara-Yokoyama, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2007-02-20
Release date:2007-02-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of the extracellular domain of human CD38
To be Published
2EG9
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CRYSTAL STRUCTURE OF THE TRUNCATED EXTRACELLULAR DOMAIN OF MOUSE CD38
Descriptor:ADP-ribosyl cyclase 1
Authors:Kukimoto-Niino, M., Mishima, C., Wakiyama, M., Terada, T., Shirouzu, M., Hara-Yokoyama, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2007-02-28
Release date:2008-03-11
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of the truncated extracellular domain of mouse CD38
To be Published
1J09
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CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH ATP AND GLU
Descriptor:Glutamyl-tRNA synthetase, MAGNESIUM ION, GLUTAMIC ACID, ...
Authors:Sekine, S., Nureki, O., Dubois, D.Y., Bernier, S., Chenevert, R., Lapointe, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-12
Release date:2003-02-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
1N75
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CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH ATP.
Descriptor:Glutamyl-tRNA synthetase, MAGNESIUM ION, ADENOSINE-5'-TRIPHOSPHATE
Authors:Sekine, S., Nureki, O., Dubois, D.Y., Bernier, S., Chenevert, R., Lapointe, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-12
Release date:2003-02-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
1N77
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CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(GLU) AND ATP.
Descriptor:tRNA(Glu), Glutamyl-tRNA synthetase, MAGNESIUM ION, ...
Authors:Sekine, S., Nureki, O., Dubois, D.Y., Bernier, S., Chenevert, R., Lapointe, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-13
Release date:2003-02-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
1N78
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CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(GLU) AND GLUTAMOL-AMP.
Descriptor:tRNA(Glu), Glutamyl-tRNA synthetase, MAGNESIUM ION, ...
Authors:Sekine, S., Nureki, O., Dubois, D.Y., Bernier, S., Chenevert, R., Lapointe, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-13
Release date:2003-02-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
3VA2
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CRYSTAL STRUCTURE OF HUMAN INTERLEUKIN-5 IN COMPLEX WITH ITS ALPHA RECEPTOR
Descriptor:Interleukin-5, Interleukin-5 receptor subunit alpha
Authors:Kusano, S., Kukimoto-Niino, M., Shirouzu, M., Yokoyama, S.
Deposit date:2011-12-28
Release date:2012-07-25
Method:X-RAY DIFFRACTION (2.703 Å)
Cite:Structural basis of interleukin-5 dimer recognition by its alpha receptor
Protein Sci., 21, 2012
1S0V
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STRUCTURAL BASIS FOR SUBSTRATE SELECTION BY T7 RNA POLYMERASE
Descriptor:5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3', 5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3', 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3', ...
Authors:Temiakov, D., Patlan, V., Anikin, M., McAllister, W.T., Yokoyama, S., Vassylyev, D.G., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-01-05
Release date:2004-02-24
Last modified:2018-04-04
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structural basis for substrate selection by t7 RNA polymerase.
Cell(Cambridge,Mass.), 116, 2004
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
1WQU
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SOLUTION STRUCTURE OF THE HUMAN FES SH2 DOMAIN
Descriptor:Proto-oncogene tyrosine-protein kinase FES/FPS
Authors:Scott, A., Pantoja-Uceda, D., Koshiba, S., Inoue, M., Kigawa, T., Terada, T., Shirouzu, M., Tanaka, A., Sugano, S., Yokoyama, S., Guntert, P., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-10-02
Release date:2005-06-14
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Solution structure of the Src homology 2 domain from the human feline sarcoma oncogene Fes
J.Biomol.NMR, 31, 2005
1VDY
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NMR STRUCTURE OF THE HYPOTHETICAL ENTH-VHS DOMAIN AT3G16270 FROM ARABIDOPSIS THALIANA
Descriptor:hypothetical protein (RAFL09-17-B18)
Authors:Lopez-Mendez, B., Pantoja-Uceda, D., Tomizawa, T., Koshiba, S., Kigawa, T., Shirouzu, M., Terada, T., Inoue, M., Yabuki, T., Aoki, M., Seki, E., Matsuda, T., Hirota, H., Yoshida, M., Tanaka, A., Osanai, T., Seki, M., Shinozaki, K., Yokoyama, S., Guntert, P., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-03-25
Release date:2005-05-03
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Solution structure of the hypothetical ENTH-VHS domain AT3G16270 from arabidopsis thaliana
To be Published
1VEE
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NMR STRUCTURE OF THE HYPOTHETICAL RHODANESE DOMAIN AT4G01050 FROM ARABIDOPSIS THALIANA
Descriptor:proline-rich protein family
Authors:Pantoja-Uceda, D., Lopez-Mendez, B., Koshiba, S., Inoue, M., Kigawa, T., Terada, T., Shirouzu, M., Tanaka, A., Seki, M., Shinozaki, K., Yokoyama, S., Guntert, P., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-03-30
Release date:2005-01-25
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Solution structure of the rhodanese homology domain At4g01050(175-295) from Arabidopsis thaliana
Protein Sci., 14, 2005
2DB3
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STRUCTURAL BASIS FOR RNA UNWINDING BY THE DEAD-BOX PROTEIN DROSOPHILA VASA
Descriptor:5'-R(*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3', ATP-dependent RNA helicase vasa, MAGNESIUM ION, ...
Authors:Sengoku, T., Nureki, O., Nakamura, A., Kobayashi, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-12-14
Release date:2006-05-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa.
Cell(Cambridge,Mass.), 125, 2006
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
3GEZ
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CRYSTAL STRUCTURE OF THE HYPOTHETICAL EGULATOR FROM SULFOLOBUS TOKODAII 7
Descriptor:146aa long hypothetical transcriptional regulator, CALCIUM ION
Authors:Kumarevel, T., Tanaka, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2009-02-26
Release date:2009-08-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators.
Nucleic Acids Res., 37, 2009
3GF2
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CRYSTAL STRUCTURE OF THE HYPOTHETICAL REGULATOR ST1710 COMPLEXED WITH SODIUM SALICYLATE
Descriptor:146aa long hypothetical transcriptional regulator, 2-HYDROXYBENZOIC ACID
Authors:Kumarevel, T., Tanaka, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2009-02-26
Release date:2009-08-25
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators.
Nucleic Acids Res., 37, 2009
3GFJ
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CRYSTAL STRUCTURE OF THE ST1710 MUTANT (R89A) PROTEIN
Descriptor:146aa long hypothetical transcriptional regulator, CALCIUM ION
Authors:Kumarevel, T., Tanaka, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2009-02-27
Release date:2009-08-25
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators.
Nucleic Acids Res., 37, 2009
3GFL
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CRYSTAL STRUCTURE OF THE ST1710 MUTANT (R90A) PROTEIN
Descriptor:146aa long hypothetical transcriptional regulator, CALCIUM ION
Authors:Kumarevel, T., Tanaka, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2009-02-27
Release date:2009-08-25
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators.
Nucleic Acids Res., 37, 2009
3GFM
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CRYSTAL STRUCTURE OF THE ST1710 MUTANT (K91A) PROTEIN
Descriptor:146aa long hypothetical transcriptional regulator, CALCIUM ION
Authors:Kumarevel, T., Tanaka, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2009-02-27
Release date:2009-08-25
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators.
Nucleic Acids Res., 37, 2009
3VQV
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CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF PYRROLYSYL-TRNA SYNTHETASE IN COMPLEX WITH AMPPNP (RE-REFINED)
Descriptor:Pyrrolysine--tRNA ligase, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, MAGNESIUM ION
Authors:Yanagisawa, T., Sumida, T., Ishii, R., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2012-04-01
Release date:2013-01-02
Last modified:2013-09-04
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:A novel crystal form of pyrrolysyl-tRNA synthetase reveals the pre- and post-aminoacyl-tRNA synthesis conformational states of the adenylate and aminoacyl moieties and an asparagine residue in the catalytic site
Acta Crystallogr.,Sect.D, 69, 2013
1FL0
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CRYSTAL STRUCTURE OF THE EMAP2/RNA-BINDING DOMAIN OF THE P43 PROTEIN FROM HUMAN AMINOACYL-TRNA SYNTHETASE COMPLEX
Descriptor:ENDOTHELIAL-MONOCYTE ACTIVATING POLYPEPTIDE II
Authors:Renault, L., Kerjan, P., Pasqualato, S., Menetrey, J., Robinson, J.-C., Kawaguchi, S., Vassylyev, D.G., Yokoyama, S., Mirande, M., Cherfils, J.
Deposit date:2000-08-11
Release date:2000-12-06
Last modified:2017-02-08
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Structure of the EMAPII domain of human aminoacyl-tRNA synthetase complex reveals evolutionary dimer mimicry.
EMBO J., 20, 2001