1WNI | | CRYSTAL STRUCTURE OF H2-PROTEINASE | | Descriptor: | Trimerelysin II, ZINC ION | | Authors: | Kumasaka, T., Yamamoto, M., Moriyama, H., Tanaka, N., Sato, M., Katsube, Y., Yamakawa, Y., Omori-Satoh, T., Iwanaga, S., Ueki, T. | | Deposit date: | 2004-08-04 | | Release date: | 2004-08-17 | | Last modified: | 2019-10-09 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of H2-proteinase from the venom of Trimeresurus flavoviridis.
J.Biochem., 119, 1996
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2CZT | | LIPOCALIN-TYPE PROSTAGLANDIN D SYNTHASE | | Descriptor: | Prostaglandin-H2 D-isomerase | | Authors: | Kumasaka, T., Irikura, D., Ago, H., Aritake, K., Yamamoto, M., Inoue, T., Miyano, M., Urade, Y., Hayaishi, O., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-07-17 | | Release date: | 2006-10-03 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structural basis of the catalytic mechanism operating in open-closed conformers of lipocalin type prostaglandin D synthase.
J.Biol.Chem., 284, 2009
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2CZU | | LIPOCALIN-TYPE PROSTAGLANDIN D SYNTHASE | | Descriptor: | Prostaglandin-H2 D-isomerase | | Authors: | Kumasaka, T., Irikura, D., Ago, H., Aritake, K., Yamamoto, M., Inoue, T., Miyano, M., Urade, Y., Hayaishi, O., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-07-17 | | Release date: | 2006-10-03 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structural basis of the catalytic mechanism operating in open-closed conformers of lipocalin type prostaglandin D synthase.
J.Biol.Chem., 284, 2009
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1WN5 | | CRYSTAL STRUCTURE OF BLASTICIDIN S DEAMINASE (BSD) COMPLEXED WITH CACODYLIC ACID | | Descriptor: | Blasticidin-S deaminase, ZINC ION, CACODYLATE ION | | Authors: | Kumasaka, T., Yamamoto, M., Furuichi, M., Nakasako, M., Kimura, M., Yamaguchi, I., Ueki, T. | | Deposit date: | 2004-07-27 | | Release date: | 2005-10-25 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc
J.Biol.Chem., 282, 2007
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1WN6 | | CRYSTAL STRUCTURE OF BLASTICIDIN S DEAMINASE (BSD) COMPLEXED WITH TETRAHEDRAL INTERMEDIATE OF BLASTICIDIN S | | Descriptor: | Blasticidin-S deaminase, ZINC ION, 6-(4-AMINO-4-HYDROXY-2-OXO-3,4-DIHYDRO-2H-PYRIMIDIN-1-YL)-3-[3-AMINO-5-(N-METHYL-GUANIDINO)-PENT ANOYLAMINO]-3,6-DIHYDRO-2H-PYRAN-2-CARBOXYLIC ACID, ... | | Authors: | Kumasaka, T., Yamamoto, M., Furuichi, M., Nakasako, M., Kimura, M., Yamaguchi, I., Ueki, T. | | Deposit date: | 2004-07-27 | | Release date: | 2005-10-25 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc
J.Biol.Chem., 282, 2007
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2Z3G | | CRYSTAL STRUCTURE OF BLASTICIDIN S DEAMINASE (BSD) | | Descriptor: | Blasticidin-S deaminase, alpha-D-glucopyranose-(1-1)-alpha-D-glucopyranose, ZINC ION | | Authors: | Kumasaka, T., Yamamoto, M., Furuichi, M., Nakasako, M., Kimura, M., Yamaguchi, I., Ueki, T. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc
J.Biol.Chem., 282, 2007
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2Z3H | | CRYSTAL STRUCTURE OF BLASTICIDIN S DEAMINASE (BSD) COMPLEXED WITH DEAMINOHYDROXY BLASTICIDIN S | | Descriptor: | Blasticidin-S deaminase, ZINC ION, 1-(4-{[(3R)-3-AMINO-5-{[(Z)-AMINO(IMINO)METHYL](METHYL)AMINO}PENTANOYL]AMINO}-2,3,4-TRIDEOXY-D-ERYTHRO-HEX-2-ENOPYRANURONOSYL)-4-HYDROXYPYRIMIDIN-2(1H)-ONE | | Authors: | Kumasaka, T., Yamamoto, M., Furuichi, M., Nakasako, M., Kimura, M., Yamaguchi, I., Ueki, T. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc
J.Biol.Chem., 282, 2007
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2Z3I | | CRYSTAL STRUCTURE OF BLASTICIDIN S DEAMINASE (BSD) MUTANT E56Q COMPLEXED WITH SUBSTRATE | | Descriptor: | Blasticidin-S deaminase, BLASTICIDIN S, ZINC ION, ... | | Authors: | Kumasaka, T., Yamamoto, M., Furuichi, M., Nakasako, M., Kimura, M., Yamaguchi, I., Ueki, T. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc
J.Biol.Chem., 282, 2007
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3AH7 | | CRYSTAL STRUCTURE OF THE ISC-LIKE [2FE-2S] FERREDOXIN (FDXB) FROM PSEUDOMONAS PUTIDA JCM 20004 | | Descriptor: | [2Fe-2S]ferredoxin, FE2/S2 (INORGANIC) CLUSTER, SODIUM ION, ... | | Authors: | Kumasaka, T., Shimizu, N., Ohmori, D., Iwasaki, T. | | Deposit date: | 2010-04-20 | | Release date: | 2011-04-20 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of the ISC-like [2Fe-2S] ferredoxin (FdxB) from Pseudomonas putida JCM 20004
To be Published
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2Z3J | | CRYSTAL STRUCTURE OF BLASTICIDIN S DEAMINASE (BSD) R90K MUTANT | | Descriptor: | Blasticidin-S deaminase, ZINC ION, CACODYLATE ION, ... | | Authors: | Teh, A.H., Kumasaka, T., Yamamoto, M., Furuichi, M., Nakasako, M., Kimura, M., Yamaguchi, I., Ueki, T. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Crystal structures of blasticidin S deaminase (BSD): implications for dynamic properties of catalytic zinc
J.Biol.Chem., 282, 2007
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5B2Z | | H-RAS WT IN COMPLEX WITH GPPNHP (STATE 2*) BEFORE STRUCTURAL TRANSITION BY HUMIDITY CONTROL | | Descriptor: | GTPase HRas, PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER, CALCIUM ION, ... | | Authors: | Kumasaka, T., Miyano, N., Baba, S., Matsumoto, S., Kataoka, T., Shima, F. | | Deposit date: | 2016-02-07 | | Release date: | 2016-06-01 | | Last modified: | 2020-02-26 | | Method: | X-RAY DIFFRACTION (1.56 Å) | | Cite: | Molecular Mechanism for Conformational Dynamics of Ras-GTP Elucidated from In-Situ Structural Transition in Crystal
Sci Rep, 6, 2016
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5B30 | | H-RAS WT IN COMPLEX WITH GPPNHP (STATE 1) AFTER STRUCTURAL TRANSITION BY HUMIDITY CONTROL | | Descriptor: | GTPase HRas, PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER, MAGNESIUM ION, ... | | Authors: | Kumasaka, T., Miyano, N., Baba, S., Matsumoto, S., Kataoka, T., Shima, F. | | Deposit date: | 2016-02-08 | | Release date: | 2016-06-01 | | Last modified: | 2020-02-26 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Molecular Mechanism for Conformational Dynamics of Ras-GTP Elucidated from In-Situ Structural Transition in Crystal
Sci Rep, 6, 2016
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5B4S | | CRYSTAL STRUCTURE OF GH80 CHITOSANASE FROM MITSUARIA CHITOSANITABIDA | | Descriptor: | Chitosanase | | Authors: | Kumasaka, T., Yorinaga, Y., Yamamoto, M., Hamada, K., Kawamukai, M. | | Deposit date: | 2016-04-19 | | Release date: | 2017-02-01 | | Last modified: | 2020-02-26 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Crystal structure of a family 80 chitosanase from Mitsuaria chitosanitabida
FEBS Lett., 591, 2017
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1EE8 | | CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8 | | Descriptor: | MUTM (FPG) PROTEIN, ZINC ION | | Authors: | Sugahara, M., Mikawa, T., Kumasaka, T., Yamamoto, M., Kato, R., Fukuyama, K., Inoue, Y., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2000-01-31 | | Release date: | 2001-01-31 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus HB8.
EMBO J., 19, 2000
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1VBR | | CRYSTAL STRUCTURE OF COMPLEX XYLANASE 10B FROM THERMOTOGA MARITIMA WITH XYLOBIOSE | | Descriptor: | endo-1,4-beta-xylanase B, alpha-D-xylopyranose-(1-4)-beta-D-xylopyranose, ACETIC ACID | | Authors: | Ihsanawati, Kumasaka, T., Kaneko, T., Nakamura, S., Tanaka, N. | | Deposit date: | 2004-03-02 | | Release date: | 2005-06-28 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8
Proteins, 61, 2005
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1VBU | | CRYSTAL STRUCTURE OF NATIVE XYLANASE 10B FROM THERMOTOGA MARITIMA | | Descriptor: | endo-1,4-beta-xylanase B, SULFATE ION, ACETIC ACID, ... | | Authors: | Ihsanawati, Kumasaka, T., Kaneko, T., Nakamura, S., Tanaka, N. | | Deposit date: | 2004-03-02 | | Release date: | 2005-06-28 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8
Proteins, 61, 2005
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3AHU | | CRYSTAL STRUCTURE OF YMAH (HFQ) FROM BACILLUS SUBTILIS IN COMPLEX WITH AN RNA APTAMER. | | Descriptor: | Protein hfq, 5'-R(*AP*GP*AP*GP*AP*G)-3' | | Authors: | Baba, S., Someya, T., Kumasaka, T., Kawai, G., Nakamura, K. | | Deposit date: | 2010-04-29 | | Release date: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of YmaH (Hfq) from Bacillus subtilis in complex with an RNA aptamer.
To be Published
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3HSB | | CRYSTAL STRUCTURE OF YMAH (HFQ) FROM BACILLUS SUBTILIS IN COMPLEX WITH AN RNA APTAMER | | Descriptor: | Protein hfq, RNA (5'-R(*AP*GP*AP*GP*AP*GP*A)-3') | | Authors: | Baba, S., Someya, T., Kumasaka, T., Kawai, G., Nakamura, K. | | Deposit date: | 2009-06-10 | | Release date: | 2010-06-23 | | Last modified: | 2012-10-03 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of Hfq from Bacillus subtilis in complex with SELEX-derived RNA aptamer: insight into RNA-binding properties of bacterial Hfq
Nucleic Acids Res., 40, 2012
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2HYK | | THE CRYSTAL STRUCTURE OF AN ENDO-BETA-1,3-GLUCANASE FROM ALKALIPHILIC NOCARDIOPSIS SP.STRAIN F96 | | Descriptor: | Beta-1,3-glucanase, SULFATE ION, CALCIUM ION, ... | | Authors: | Fibriansah, G., Nakamura, S., Kumasaka, T. | | Deposit date: | 2006-08-07 | | Release date: | 2007-10-02 | | Last modified: | 2017-10-18 | | Method: | X-RAY DIFFRACTION (1.3 Å) | | Cite: | The 1.3 A crystal structure of a novel endo-beta-1,3-glucanase of glycoside hydrolase family 16 from alkaliphilic Nocardiopsis sp. strain F96.
Proteins, 69, 2007
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1ERZ | | CRYSTAL STRUCTURE OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE WITH A NOVEL CATALYTIC FRAMEWORK COMMON TO AMIDOHYDROLASES | | Descriptor: | N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE | | Authors: | Nakai, T., Hasegawa, T., Yamashita, E., Yamamoto, M., Kumasaka, T., Ueki, T., Nanba, H., Ikenaka, Y., Takahashi, S., Sato, M., Tsukihara, T. | | Deposit date: | 2000-04-06 | | Release date: | 2001-04-06 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel catalytic framework common to amidohydrolases.
Structure Fold.Des., 8, 2000
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1UIR | | CRYSTAL STRUCTURE OF POLYAMINE AMINOPROPYLTRANSFEASE FROM THERMUS THERMOPHILUS | | Descriptor: | Polyamine Aminopropyltransferase | | Authors: | Ganbe, T., Ohnuma, M., Sato, T., Kumasaka, T., Oshima, T., Tanaka, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-07-18 | | Release date: | 2003-08-05 | | Last modified: | 2014-01-29 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structures and enzymatic properties of a triamine/agmatine aminopropyltransferase from Thermus thermophilus
J.Mol.Biol., 408, 2011
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1UJ0 | | CRYSTAL STRUCTURE OF STAM2 SH3 DOMAIN IN COMPLEX WITH A UBPY-DERIVED PEPTIDE | | Descriptor: | signal transducing adaptor molecule (SH3 domain and ITAM motif) 2, deubiquitinating enzyme UBPY, PHOSPHATE ION | | Authors: | Kaneko, T., Kumasaka, T., Ganbe, T., Sato, T., Miyazawa, K., Kitamura, N., Tanaka, N. | | Deposit date: | 2003-07-24 | | Release date: | 2003-12-23 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Structural insight into modest binding of a non-PXXP ligand to the signal transducing adaptor molecule-2 Src homology 3 domain.
J.Biol.Chem., 278, 2003
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1V3T | | CRYSTAL STRUCTURE OF LEUKOTRIENE B4 12-HYDROXYDEHYDROGENASE/15-OXO-PROSTAGLANDIN 13-REDUCTASE | | Descriptor: | leukotriene b4 12-hydroxydehydrogenase/prostaglandin 15-keto reductase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | | Authors: | Hori, T., Yokomizo, T., Ago, H., Sugahara, M., Ueno, G., Yamamoto, M., Kumasaka, T., Shimizu, T., Miyano, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-11-05 | | Release date: | 2004-07-13 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-Oxo-prostaglandin 13-reductase catalytic mechanism and a possible Src homology 3 domain binding loop
J.Biol.Chem., 279, 2004
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1V3U | | CRYSTAL STRUCTURE OF LEUKOTRIENE B4 12-HYDROXYDEHYDROGENASE/15-OXO-PROSTAGLANDIN 13-REDUCTASE IN APO FORM | | Descriptor: | leukotriene b4 12-hydroxydehydrogenase/prostaglandin 15-keto reductase, CHLORIDE ION | | Authors: | Hori, T., Yokomizo, T., Ago, H., Sugahara, M., Ueno, G., Yamamoto, M., Kumasaka, T., Shimizu, T., Miyano, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-11-05 | | Release date: | 2004-07-13 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-Oxo-prostaglandin 13-reductase catalytic mechanism and a possible Src homology 3 domain binding loop
J.Biol.Chem., 279, 2004
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1V3V | | CRYSTAL STRUCTURE OF LEUKOTRIENE B4 12-HYDROXYDEHYDROGENASE/15-OXO-PROSTAGLANDIN 13-REDUCTASE COMPLEXED WITH NADP AND 15-OXO-PGE2 | | Descriptor: | leukotriene b4 12-hydroxydehydrogenase/prostaglandin 15-keto reductase, CHLORIDE ION, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ... | | Authors: | Hori, T., Yokomizo, T., Ago, H., Sugahara, M., Ueno, G., Yamamoto, M., Kumasaka, T., Shimizu, T., Miyano, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-11-06 | | Release date: | 2004-07-13 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-Oxo-prostaglandin 13-reductase catalytic mechanism and a possible Src homology 3 domain binding loop
J.Biol.Chem., 279, 2004
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