Author results

5AX7
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YEAST PYRUVYLTRANSFERASE PVG1P
Descriptor:Pyruvyl transferase 1, ZINC ION
Authors:Kanekiyo, M., Yoritsune, K., Yoshinaga, S., Higuchi, Y., Takegawa, K., Kakuta, Y.
Deposit date:2015-07-16
Release date:2016-06-08
Method:X-RAY DIFFRACTION (2.46 Å)
Cite:A rationally engineered yeast pyruvyltransferase Pvg1p introduces sialylation-like properties in neo-human-type complex oligosaccharide
Sci Rep, 6, 2016
2ZXC
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CERAMIDASE COMPLEXED WITH C2
Descriptor:Neutral ceramidase, ZINC ION, N-[(1R,2R,3E)-2-hydroxy-1-(hydroxymethyl)heptadec-3-en-1-yl]acetamide, ...
Authors:Okano, H., Inoue, T., Okino, N., Kakuta, Y., Matsumura, H., Ito, M.
Deposit date:2008-12-22
Release date:2009-02-03
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Mechanistic insights into the hydrolysis and synthesis of ceramide by neutral ceramidase.
J.Biol.Chem., 284, 2009
5WRI
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CRYSTAL STRUCTURE OF HUMAN TYROSYLPROTEIN SULFOTRANSFERASE-1 COMPLEXED WITH PAP AND C4 PEPTIDE
Descriptor:Protein-tyrosine sulfotransferase 1, ASP-PHE-GLU-ASP-TYR-GLU-PHE-ASP, ADENOSINE-3'-5'-DIPHOSPHATE, ...
Authors:Tanaka, S., Nishiyori, T., Kojo, H., Otsubo, R., Kakuta, Y.
Deposit date:2016-12-02
Release date:2017-09-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural basis for the broad substrate specificity of the human tyrosylprotein sulfotransferase-1.
Sci Rep, 7, 2017
5WRJ
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CRYSTAL STRUCTURE OF HUMAN TYROSYLPROTEIN SULFOTRANSFERASE-1 COMPLEXED WITH PAP AND GASTRIN PEPTIDE
Descriptor:Protein-tyrosine sulfotransferase 1, gastrin peptide, ADENOSINE-3'-5'-DIPHOSPHATE, ...
Authors:Tanaka, S., Nishiyori, T., Kojo, H., Otsubo, R., Kakuta, Y.
Deposit date:2016-12-02
Release date:2017-09-06
Method:X-RAY DIFFRACTION (2.31 Å)
Cite:Structural basis for the broad substrate specificity of the human tyrosylprotein sulfotransferase-1.
Sci Rep, 7, 2017
1CJM
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HUMAN SULT1A3 WITH SULFATE BOUND
Descriptor:PROTEIN (ARYL SULFOTRANSFERASE), SULFATE ION
Authors:Bidwell, L.M., Mcmanus, M.E., Gaedigk, A., Kakuta, Y., Negishi, M., Pedersen, L., Martin, J.L.
Deposit date:1999-04-18
Release date:1999-11-10
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of human catecholamine sulfotransferase.
J.Mol.Biol., 293, 1999
1IYB
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CRYSTAL STRUCTURE OF THE NICOTIANA GLUTINOSA RIBONUCLEASE NW
Descriptor:Ribonuclease, GUANOSINE-5'-MONOPHOSPHATE
Authors:Kawano, S., Kakuta, Y., Kimura, M.
Deposit date:2002-08-05
Release date:2003-08-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Guanine binding site of the Nicotiana glutinosa ribonuclease NW revealed by X-ray crystallography
Biochemistry, 41, 2002
1UAX
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CRYSTAL STRUCTURE OF THE RIBONUCLEASE H2 FROM PYROCOCCUS HORIKOSHII OT3
Descriptor:Ribonuclease HII
Authors:Hata, T., Numata, T., Kakuta, Y., Kimura, M.
Deposit date:2003-03-24
Release date:2004-06-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of the ribonuclease H2 from Pyrococcus horikoshii OT3
To be published
1V76
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CRYSTAL STRUCTURE OF ARCHAEAL RIBONUCLEASE P PROTEIN PH1771P FROM PYROCOCCUS HORIKOSHII OT3
Descriptor:RNase P protein Ph1771p, SULFATE ION
Authors:Numata, T., Kakuta, Y., Kimura, M.
Deposit date:2003-12-12
Release date:2004-10-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of archaeal ribonuclease P protein Ph1771p from Pyrococcus horikoshii OT3: an archaeal homolog of eukaryotic ribonuclease P protein Rpp29
Rna, 10, 2004
1V77
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CRYSTAL STRUCTURE OF THE PH1877 PROTEIN
Descriptor:hypothetical protein PH1877
Authors:Takagi, H., Numata, T., Kakuta, Y., Kimura, M.
Deposit date:2003-12-12
Release date:2004-08-31
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of the ribonuclease P protein Ph1877p from hyperthermophilic archaeon Pyrococcus horikoshii OT3
Biochem.Biophys.Res.Commun., 319, 2004
1V9H
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CRYSTAL STRUCTURE OF THE RNASE MC1 MUTANT Y101A IN COMPLEX WITH 5'-UMP
Descriptor:Ribonuclease MC, SULFATE ION, URIDINE-5'-MONOPHOSPHATE
Authors:Kimura, K., Numata, T., Kakuta, Y., Kimura, M.
Deposit date:2004-01-26
Release date:2004-10-05
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (2 Å)
Cite:Amino acids conserved at the C-terminal half of the ribonuclease t2 family contribute to protein stability of the enzymes
Biosci.Biotechnol.Biochem., 68, 2004
1VCZ
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CRYSTAL STRUCTURE OF THE RNASE NT IN COMPLEX WITH 5'-GMP
Descriptor:RNase NGR3, GUANOSINE-5'-MONOPHOSPHATE
Authors:Kawano, S., Kakuta, Y., Kimura, M.
Deposit date:2004-03-17
Release date:2005-04-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal Structure of the Nicotiana glutinosa Ribonuclease NT in Complex with Nucleotide Monophosphates
to be published
1VD1
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CRYSTAL STRUCTURE OF RNASE NT IN COMPLEX WITH 5'-AMP
Descriptor:RNase NGR3, ADENOSINE MONOPHOSPHATE
Authors:Kawano, S., Kakuta, Y., Kimura, M.
Deposit date:2004-03-17
Release date:2005-04-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal Structure of the Nicotiana glutinosa Ribonuclease NT in Complex with Nucleotide Monophosphates
to be published
1VD3
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RIBONUCLEASE NT IN COMPLEX WITH 2'-UMP
Descriptor:RNase NGR3, PHOSPHORIC ACID MONO-[2-(2,4-DIOXO-3,4-DIHYDRO-2H-PYRIMIDIN-1-YL)-4-HYDROXY-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3-YL] ESTER
Authors:Kawano, S., Kakuta, Y., Kimura, M.
Deposit date:2004-03-18
Release date:2005-04-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal Structure of the Nicotiana glutinosa Ribonuclease NT in Complex with Nucleotide Monophosphates
to be published
1WMI
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CRYSTAL STRUCTURE OF ARCHAEAL RELE-RELB COMPLEX FROM PYROCOCCUS HORIKOSHII OT3
Descriptor:hypothetical protein PHS013, hypothetical protein PHS014
Authors:Takagi, H., Kakuta, Y., Kamachi, R., Yao, M., Tanaka, I., Kimura, M.
Deposit date:2004-07-09
Release date:2005-03-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structure of archaeal toxin-antitoxin RelE-RelB complex with implications for toxin activity and antitoxin effects
Nat.Struct.Mol.Biol., 12, 2005
2CZV
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CRYSTAL STRUCTURE OF ARCHEAL RNASE P PROTEIN PH1481P IN COMPLEX WITH PH1877P
Descriptor:Ribonuclease P protein component 3, Ribonuclease P protein component 2, B-OCTYLGLUCOSIDE, ...
Authors:Kawano, S., Kakuta, Y., Nakashima, T., Tanaka, I., Kimura, M.
Deposit date:2005-07-19
Release date:2006-06-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of protein Ph1481p in complex with protein Ph1877p of archaeal RNase P from Pyrococcus horikoshii OT3: implication of dimer formation of the holoenzyme
J.Mol.Biol., 357, 2006
2CZW
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CRYSTAL STRUCTURE ANALYSIS OF PROTEIN COMPONENT PH1496P OF P.HORIKOSHII RIBONUCLEASE P
Descriptor:50S ribosomal protein L7Ae
Authors:Fukuhara, H., Kifusa, M., Watanabe, M., Terada, A., Honda, T., Numata, T., Kakuta, Y., Kimura, M.
Deposit date:2005-07-19
Release date:2006-04-25
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3
Biochem.Biophys.Res.Commun., 343, 2006
2Z41
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CRYSTAL STRUCTURE ANALYSIS OF THE SKI2-TYPE RNA HELICASE
Descriptor:putative ski2-type helicase, MAGNESIUM ION
Authors:Nakashima, T., Zhang, X., Kakuta, Y., Yao, M., Tanaka, I., Kimura, M.
Deposit date:2007-06-12
Release date:2008-04-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.51 Å)
Cite:Crystal structure of an archaeal Ski2p-like protein from Pyrococcus horikoshii OT3
Protein Sci., 17, 2008
2Z7C
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CRYSTAL STRUCTURE OF CHROMATIN PROTEIN ALBA FROM HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS HORIKOSHII
Descriptor:DNA/RNA-binding protein Alba, ARGININE
Authors:Hada, K., Nakashima, T., Osawa, T., Shimada, H., Kakuta, Y., Kimura, M.
Deposit date:2007-08-17
Release date:2008-08-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure and functional analysis of an archaeal chromatin protein Alba from the hyperthermophilic archaeon Pyrococcus horikoshii OT3.
Biosci.Biotechnol.Biochem., 72, 2008
2Z86
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CRYSTAL STRUCTURE OF CHONDROITIN POLYMERASE FROM ESCHERICHIA COLI STRAIN K4 (K4CP) COMPLEXED WITH UDP-GLCUA AND UDP
Descriptor:Chondroitin synthase, URIDINE-5'-DIPHOSPHATE-GLUCURONIC ACID, MANGANESE (II) ION, ...
Authors:Osawa, T., Sugiura, N., Shimada, H., Hirooka, R., Tsuji, A., Kimura, M., Kimata, K., Kakuta, Y.
Deposit date:2007-09-03
Release date:2008-09-16
Last modified:2018-01-17
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of chondroitin polymerase from Escherichia coli K4.
Biochem. Biophys. Res. Commun., 378, 2009
2Z87
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CRYSTAL STRUCTURE OF CHONDROITIN POLYMERASE FROM ESCHERICHIA COLI STRAIN K4 (K4CP) COMPLEXED WITH UDP-GALNAC AND UDP
Descriptor:Chondroitin synthase, URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE, URIDINE-5'-DIPHOSPHATE, ...
Authors:Osawa, T., Sugiura, N., Shimada, H., Hirooka, R., Tsuji, A., Kimura, M., Kimata, K., Kakuta, Y.
Deposit date:2007-09-03
Release date:2008-09-16
Last modified:2018-01-17
Method:X-RAY DIFFRACTION (3 Å)
Cite:Crystal structure of chondroitin polymerase from Escherichia coli K4.
Biochem. Biophys. Res. Commun., 378, 2009
2ZAE
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CRYSTAL STRUCTURE OF PROTEIN PH1601P IN COMPLEX WITH PROTEIN PH1771P OF ARCHAEAL RIBONUCLEASE P FROM PYROCOCCUS HORIKOSHII OT3
Descriptor:Ribonuclease P protein component 1, Ribonuclease P protein component 4, NITRATE ION, ...
Authors:Honda, T., Kakuta, Y., Kimura, M.
Deposit date:2007-10-04
Release date:2008-10-14
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:Structure of an archaeal homolog of the human protein complex Rpp21-Rpp29 that is a key core component for the assembly of active ribonuclease P.
J.Mol.Biol., 384, 2008
2ZPO
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CRYSTAL STRUCTURE OF GREEN TURTLE EGG WHITE RIBONUCLEASE
Descriptor:Ribonuclease, SULFATE ION, GLYCEROL
Authors:Katekaew, S., Kakuta, Y., Torikata, T., Kimura, M., Yoneda, K., Araki, T.
Deposit date:2008-07-25
Release date:2008-08-19
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal Structure of Newly Found Green Turtle Egg White Ribonuclease
To be Published
2ZQ5
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CRYSTAL STRUCTURE OF SULFOTRANSFERASE STF1 FROM MYCOBACTERIUM TUBERCULOSIS H37RV (TYPE1 FORM)
Descriptor:Putative uncharacterized protein
Authors:Tanaka, S., Kimura, M., Kakuta, Y.
Deposit date:2008-08-06
Release date:2009-09-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of sulfotransferase STF1 from Mycobacterium tuberculosis H37Rv
To be Published
3VU2
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STRUCTURE OF THE STARCH BRANCHING ENZYME I (BEI) COMPLEXED WITH MALTOPENTAOSE FROM ORYZA SATIVA L
Descriptor:1,4-alpha-glucan-branching enzyme, chloroplastic/amyloplastic, BETA-D-GLUCOSE, ...
Authors:Chaen, K., Kakuta, Y., Kimura, M.
Deposit date:2012-06-14
Release date:2013-05-08
Method:X-RAY DIFFRACTION (2.23 Å)
Cite:Crystal structure of the rice branching enzyme I (BEI) in complex with maltopentaose.
Biochem.Biophys.Res.Commun., 424, 2012
3WYZ
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ON ARCHAEAL HOMOLOGS OF THE HUMAN RNASE P PROTEIN RPP30 IN THE HYPERTHERMOPHILIC ARCHAEON THERMOCOCCUS KODAKARENSIS
Descriptor:Ribonuclease P protein component 3, GLYCEROL
Authors:Suematsu, K., Ueda, T., Nakashima, T., Kakuta, Y., Kimura, M.
Deposit date:2014-09-11
Release date:2015-09-16
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis.
Biosci.Biotechnol.Biochem., 79, 2015