Author results

1C53
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S-CLASS CYTOCHROMES C HAVE A VARIETY OF FOLDING PATTERNS: STRUCTURE OF CYTOCHROME C-553 FROM DESULFOVIBRIO VULGARIS DETERMINED BY THE MULTI-WAVELENGTH ANOMALOUS DISPERSION METHOD
Descriptor:CYTOCHROME C553, PROTOPORPHYRIN IX CONTAINING FE
Authors:Nakagawa, A., Higuchi, Y., Yasuoka, N., Katsube, Y., Yaga, T.
Deposit date:1991-08-26
Release date:1993-10-31
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:S-class cytochromes c have a variety of folding patterns: structure of cytochrome c-553 from Desulfovibrio vulgaris determined by the multi-wavelength anomalous dispersion method.
J.Biochem.(Tokyo), 108, 1990
1RL2
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RIBOSOMAL PROTEIN L2 RNA-BINDING DOMAIN FROM BACILLUS STEAROTHERMOPHILUS
Descriptor:PROTEIN (RIBOSOMAL PROTEIN L2)
Authors:Nakagawa, A., Hosaka, H., Nakashima, T., Tanaka, I.
Deposit date:1999-03-25
Release date:1999-04-02
Last modified:2018-01-24
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:The three-dimensional structure of the RNA-binding domain of ribosomal protein L2; a protein at the peptidyl transferase center of the ribosome.
EMBO J., 18, 1999
1UF2
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THE ATOMIC STRUCTURE OF RICE DWARF VIRUS (RDV)
Descriptor:Core protein P3, Outer capsid protein P8, Structural protein P7
Authors:Nakagawa, A., Miyazaki, N., Taka, J., Naitow, H., Ogawa, A., Fujimoto, Z., Mizuno, H., Higashi, T., Watanabe, Y., Omura, T., Cheng, R.H., Tsukihara, T.
Deposit date:2003-05-23
Release date:2003-10-14
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (3.5 Å)
Cite:The atomic structure of rice dwarf virus reveals the self-assembly mechanism of component proteins.
Structure, 11, 2003
1BK7
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RIBONUCLEASE MC1 FROM THE SEEDS OF BITTER GOURD
Descriptor:PROTEIN (RIBONUCLEASE MC1)
Authors:Nakagawa, A., Tanaka, I.
Deposit date:1998-07-15
Release date:1999-07-23
Last modified:2018-04-04
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal structure of a ribonuclease from the seeds of bitter gourd (Momordica charantia) at 1.75 A resolution.
Biochim.Biophys.Acta, 1433, 1999
4NI0
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QUATERNARY R3 CO-LIGANDED HEMOGLOBIN STRUCTURE IN COMPLEX WITH A THIOL CONTAINING COMPOUND
Descriptor:Hemoglobin subunit alpha, Hemoglobin subunit beta, CARBON MONOXIDE, ...
Authors:Safo, M.K., Meadows, J., Ko, T.-P., Nakagawa, A., Zapol, W.
Deposit date:2013-11-05
Release date:2014-08-20
Last modified:2014-10-29
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Identification of a Small Molecule that Increases Hemoglobin Oxygen Affinity and Reduces SS Erythrocyte Sickling.
Acs Chem.Biol., 9, 2014
4NI1
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QAUTERNARY R CO-LIGANDED HEMOGLOBIN STRUCTURE IN COMPLEX WITH A THIOL CONTAINING COMPOUND
Descriptor:Hemoglobin subunit alpha, Hemoglobin subunit beta, CARBON MONOXIDE, ...
Authors:Safo, M.K., Meadows, J., Ko, T.-P., Nakagawa, A., Zapol, W.
Deposit date:2013-11-05
Release date:2014-09-17
Last modified:2014-10-29
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Identification of a Small Molecule that Increases Hemoglobin Oxygen Affinity and Reduces SS Erythrocyte Sickling.
Acs Chem.Biol., 9, 2014
1DPT
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D-DOPACHROME TAUTOMERASE
Descriptor:D-DOPACHROME TAUTOMERASE
Authors:Sugimoto, H., Taniguchi, M., Nakagawa, A., Tanaka, I.
Deposit date:1998-05-11
Release date:1999-03-30
Last modified:2018-06-06
Method:X-RAY DIFFRACTION (1.54 Å)
Cite:Crystal structure of human D-dopachrome tautomerase, a homologue of macrophage migration inhibitory factor, at 1.54 A resolution.
Biochemistry, 38, 1999
1FIM
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MACROPHAGE MIGRATION INHIBITORY FACTOR
Descriptor:MACROPHAGE MIGRATION INHIBITORY FACTOR
Authors:Suzuki, M., Sugimoto, H., Nakagawa, A., Tanaka, I.
Deposit date:1996-01-31
Release date:1996-07-11
Last modified:2017-11-29
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of the macrophage migration inhibitory factor from rat liver.
Nat.Struct.Biol., 3, 1996
1HUS
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RIBOSOMAL PROTEIN S7
Descriptor:RIBOSOMAL PROTEIN S7
Authors:Hosaka, H., Nakagawa, A., Tanaka, I.
Deposit date:1997-08-08
Release date:1998-01-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Ribosomal protein S7: a new RNA-binding motif with structural similarities to a DNA architectural factor.
Structure, 5, 1997
1QSH
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MAGNESIUM(II)-AND ZINC(II)-PROTOPORPHYRIN IX'S STABILIZE THE LOWEST OXYGEN AFFINITY STATE OF HUMAN HEMOGLOBIN EVEN MORE STRONGLY THAN DEOXYHEME
Descriptor:PROTEIN (HEMOGLOBIN ALPHA CHAIN), PROTEIN (HEMOGLOBIN BETA CHAIN), PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Miyazaki, G., Morimoto, H., Yun, K.-M., Park, S.-Y., Nakagawa, A., Minagawa, H., Shibayama, N.
Deposit date:1999-06-22
Release date:1999-07-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Magnesium(II) and zinc(II)-protoporphyrin IX's stabilize the lowest oxygen affinity state of human hemoglobin even more strongly than deoxyheme.
J.Mol.Biol., 292, 1999
1QSI
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MAGNESIUM(II)-AND ZINC(II)-PROTOPORPHYRIN IX'S STABILIZE THE LOWEST OXYGEN AFFINITY STATE OF HUMAN HEMOGLOBIN EVEN MORE STRONGLY THAN DEOXYHEME
Descriptor:PROTEIN (HEMOGLOBIN ALPHA CHAIN), PROTEIN (HEMOGLOBIN BETA CHAIN), PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Miyazaki, G., Morimoto, H., Yun, K.-M., Park, S.-Y., Nakagawa, A., Minagawa, H., Shibayama, N.
Deposit date:1999-06-22
Release date:1999-07-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Magnesium(II) and zinc(II)-protoporphyrin IX's stabilize the lowest oxygen affinity state of human hemoglobin even more strongly than deoxyheme.
J.Mol.Biol., 292, 1999
2D1X
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THE CRYSTAL STRUCTURE OF THE CORTACTIN-SH3 DOMAIN AND AMAP1-PEPTIDE COMPLEX
Descriptor:cortactin isoform a, proline rich region from development and differentiation enhancing factor 1, SULFATE ION
Authors:Hashimoto, S., Hirose, M., Hashimoto, A., Morishige, M., Yamada, A., Hosaka, H., Akagi, K., Ogawa, E., Oneyama, C., Agatsuma, T., Okada, M., Kobayashi, H., Wada, H., Nakano, H., Ikegami, T., Nakagawa, A., Sabe, H.
Deposit date:2005-09-01
Release date:2006-04-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Targeting AMAP1 and cortactin binding bearing an atypical src homology 3/proline interface for prevention of breast cancer invasion and metastasis.
Proc.Natl.Acad.Sci.Usa, 103, 2006
4P76
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CELLULAR RESPONSE TO A CRYSTAL-FORMING PROTEIN
Descriptor:Photoconvertible fluorescent protein, SODIUM ION
Authors:Tsutsui, H., Jinno, Y., Shoda, K., Tomita, A., Matsuda, M., Yamashita, E., Katayama, H., Nakagawa, A., Miyawaki, A.
Deposit date:2014-03-26
Release date:2015-04-29
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:A diffraction-quality protein crystal processed as an autophagic cargo
Mol.Cell, 58, 2015
5X6U
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CRYSTAL STRUCTURE OF HUMAN HETEROPENTAMERIC COMPLEX
Descriptor:Ragulator complex protein LAMTOR3, Ragulator complex protein LAMTOR2, Ragulator complex protein LAMTOR5, ...
Authors:Yonehara, R., Nada, S., Nakai, T., Nakai, M., Kitamura, A., Ogawa, A., Nakatsumi, H., Nakayama, K.I., Li, S., Standley, D.M., Yamashita, E., Nakagawa, A., Okada, M.
Deposit date:2017-02-23
Release date:2017-12-06
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the assembly of the Ragulator-Rag GTPase complex.
Nat Commun, 8, 2017
5X6V
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CRYSTAL STRUCTURE OF HUMAN HETEROHEPTAMERIC COMPLEX
Descriptor:Ragulator complex protein LAMTOR3, Ragulator complex protein LAMTOR2, Ragulator complex protein LAMTOR5, ...
Authors:Yonehara, R., Nada, S., Nakai, T., Nakai, M., Kitamura, A., Ogawa, A., Nakatsumi, H., Nakayama, K.I., Li, S., Standley, D.M., Yamashita, E., Nakagawa, A., Okada, M.
Deposit date:2017-02-23
Release date:2017-12-06
Method:X-RAY DIFFRACTION (2.02 Å)
Cite:Structural basis for the assembly of the Ragulator-Rag GTPase complex.
Nat Commun, 8, 2017
1F2D
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1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE
Descriptor:1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE, SULFATE ION, PYRIDOXAL-5'-PHOSPHATE
Authors:Yao, M., Ose, T., Sugimoto, H., Horiuchi, A., Nakagawa, A., Yokoi, D., Murakami, T., Honma, M., Wakatsuki, S., Tanaka, I.
Deposit date:2000-05-24
Release date:2000-12-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of 1-aminocyclopropane-1-carboxylate deaminase from Hansenula saturnus.
J.Biol.Chem., 275, 2000
1K9A
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CRYSTAL STRUCTURE ANALYSIS OF FULL-LENGTH CARBOXYL-TERMINAL SRC KINASE AT 2.5 A RESOLUTION
Descriptor:Carboxyl-terminal Src kinase
Authors:Ogawa, A., Takayama, Y., Nagata, A., Chong, K.T., Takeuchi, S., Sakai, H., Nakagawa, A., Nada, S., Okada, M., Tsukihara, T.
Deposit date:2001-10-28
Release date:2002-03-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure of the carboxyl-terminal Src kinase, Csk.
J.Biol.Chem., 277, 2002
1O5W
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THE STRUCTURE BASIS OF SPECIFIC RECOGNITIONS FOR SUBSTRATES AND INHIBITORS OF RAT MONOAMINE OXIDASE A
Descriptor:Amine oxidase [flavin-containing] A, FLAVIN-ADENINE DINUCLEOTIDE, N-[3-(2,4-DICHLOROPHENOXY)PROPYL]-N-METHYL-N-PROP-2-YNYLAMINE
Authors:Ma, J., Yoshimura, M., Yamashita, E., Nakagawa, A., Ito, A., Tsukihara, T.
Deposit date:2003-10-06
Release date:2004-04-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structure of rat monoamine oxidase a and its specific recognitions for substrates and inhibitors.
J.Mol.Biol., 338, 2004
2DE0
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CRYSTAL STRUCTURE OF HUMAN ALPHA 1,6-FUCOSYLTRANSFERASE, FUT8
Descriptor:Alpha-(1,6)-fucosyltransferase
Authors:Taniguchi, N., Ihara, H., Nakagawa, A.
Deposit date:2006-02-07
Release date:2006-12-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.61 Å)
Cite:Crystal structure of mammalian {alpha}1,6-fucosyltransferase, FUT8
Glycobiology, 17, 2007
2DRE
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CRYSTAL STRUCTURE OF WATER-SOLUBLE CHLOROPHYLL PROTEIN FROM LEPIDIUM VIRGINICUM AT 2.00 ANGSTROM RESOLUTION
Descriptor:Water-soluble chlorophyll protein, CHLOROPHYLL A
Authors:Horigome, D., Satoh, H., Itoh, N., Mitsunaga, K., Oonishi, I., Nakagawa, A., Uchida, A.
Deposit date:2006-06-08
Release date:2006-12-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural mechanism and photoprotective function of water-soluble chlorophyll-binding protein.
J.Biol.Chem., 282, 2007
2ZZQ
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CRYSTAL STRUCTURE ANALYSIS OF THE HEV CAPSID PROTEIN, PORF2
Descriptor:Protein ORF3, Capsid protein
Authors:Miyazaki, N., Xing, L., Wang, C.-Y., Li, T.-C., Takeda, N., Higashiura, A., Nakagawa, A., Tsukihara, T., Miyamura, T., Cheng, R.H.
Deposit date:2009-02-23
Release date:2010-03-09
Last modified:2017-08-09
Method:X-RAY DIFFRACTION (3.81 Å)
Cite:Role of protein domain-modularity in designating capsid assembly and antigenicity
To be Published
3A7A
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CRYSTAL STRUCTURE OF E. COLI LIPOATE-PROTEIN LIGASE A IN COMPLEX WITH OCTYL-AMP AND APOH-PROTEIN
Descriptor:Lipoate-protein ligase A, Glycine cleavage system H protein, N-OCTANE, ...
Authors:Fujiwara, K., Hosaka, H., Nakagawa, A.
Deposit date:2009-09-20
Release date:2010-01-19
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Global conformational change associated with the two-step reaction catalyzed by Escherichia coli lipoate-protein ligase A.
J.Biol.Chem., 285, 2010
3A7U
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CRYSTAL STRUCTURE OF THE BOVINE LIPOYLTRANSFERASE IN ITS UNLIGANDED FORM
Descriptor:Lipoyltransferase 1, mitochondrial
Authors:Fujiwara, K., Hosaka, H., Nakagawa, A.
Deposit date:2009-10-05
Release date:2010-01-19
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.44 Å)
Cite:Global conformational change associated with the two-step reaction catalyzed by Escherichia coli lipoate-protein ligase A.
J.Biol.Chem., 285, 2010
3ALP
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CELL ADHESION PROTEIN
Descriptor:Poliovirus receptor-related protein 1, CITRIC ACID, HEXANE-1,6-DIOL
Authors:Narita, H., Nakagawa, A., Suzuki, M.
Deposit date:2010-08-05
Release date:2011-02-16
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.804 Å)
Cite:Crystal Structure of the cis-Dimer of Nectin-1: implications for the architecture of cell-cell junctions
J.Biol.Chem., 286, 2011
3KLR
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BOVINE H-PROTEIN AT 0.88 ANGSTROM RESOLUTION
Descriptor:Glycine cleavage system H protein, SULFATE ION, GLYCEROL
Authors:Higashiura, A., Kurakane, T., Matsuda, M., Suzuki, M., Inaka, K., Sato, M., Tanaka, H., Fujiwara, K., Nakagawa, A.
Deposit date:2009-11-09
Release date:2010-06-09
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (0.88 Å)
Cite:High-resolution X-ray crystal structure of bovine H-protein at 0.88 A resolution
Acta Crystallogr.,Sect.D, 66, 2010