Author results

2DLC
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CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF YEAST TYROSYL-TRNA SYNTHETASE
Descriptor:T-RNA (76-MER), Tyrosyl-tRNA synthetase, cytoplasmic, ...
Authors:Tsunoda, M., Kusakabe, Y., Tanaka, N., Nakamura, K.T.
Deposit date:2006-04-18
Release date:2007-06-12
Last modified:2017-07-12
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for recognition of cognate tRNA by tyrosyl-tRNA synthetase from three kingdoms.
Nucleic Acids Res., 35, 2007
1G75
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MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATF5UCGCG): 5-FORMYLURIDINE/ ADENOSINE BASE-PAIRS IN B-DNA
Descriptor:5'-D(*CP*GP*CP*GP*AP*AP*TP*(UFR)P*CP*GP*CP*G)-3', POTASSIUM ION, MAGNESIUM ION
Authors:Tsunoda, M., Karino, N., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2000-11-09
Release date:2001-02-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.57 Å)
Cite:Crystallization and preliminary X-ray analysis of a DNA dodecamer containing 2'-deoxy-5-formyluridine; what is the role of magnesium cation in crystallization of Dickerson-type DNA dodecamers?
Acta Crystallogr.,Sect.D, 57, 2001
1G8N
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MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATF5UCGCG):5-FORMYLURIDINE/ ADENOSINE BASE-PAIRS IN B-DNA
Descriptor:5'-D(*CP*GP*CP*GP*AP*AP*TP*(UFR)P*CP*GP*CP*G)-3', MAGNESIUM ION
Authors:Tsunoda, M., Karino, N., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2000-11-20
Release date:2001-02-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Crystallization and preliminary X-ray analysis of a DNA dodecamer containing 2'-deoxy-5-formyluridine; what is the role of magnesium cation in crystallization of Dickerson-type DNA dodecamers?
Acta Crystallogr.,Sect.D, 57, 2001
1G8U
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MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATF5UCGCG):5-FORMYLURIDINE/ ADENOSINE BASE-PAIRS IN B-DNA
Descriptor:5'-D(*CP*GP*CP*GP*AP*AP*TP*(UFR)P*CP*GP*CP*G)-3'
Authors:Tsunoda, M., Karino, N., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2000-11-21
Release date:2001-02-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Crystallization and preliminary X-ray analysis of a DNA dodecamer containing 2'-deoxy-5-formyluridine; what is the role of magnesium cation in crystallization of Dickerson-type DNA dodecamers?
Acta Crystallogr.,Sect.D, 57, 2001
1G8V
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MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATF5UCGCG):5-FORMYLURIDINE/ ADENOSINE BASE-PAIRS IN B-DNA
Descriptor:5'-D(*CP*GP*CP*GP*AP*AP*TP*(UFR)P*CP*GP*CP*G)-3'
Authors:Tsunoda, M., Karino, N., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2000-11-21
Release date:2001-02-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystallization and preliminary X-ray analysis of a DNA dodecamer containing 2'-deoxy-5-formyluridine; what is the role of magnesium cation in crystallization of Dickerson-type DNA dodecamers?
Acta Crystallogr.,Sect.D, 57, 2001
1WTA
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CRYSTAL STRUCTURE OF 5'-DEOXY-5'-METHYLTHIOADENOSINE FROM AEROPYRUM PERNIX (R32 FORM)
Descriptor:5'-methylthioadenosine phosphorylase, PHOSPHATE ION, ADENINE
Authors:Tsunoda, M., Murakami, Y., Nakamura, K.T.
Deposit date:2004-11-18
Release date:2006-02-07
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (1.78 Å)
Cite:Crystal Structure of 5'-Deoxy-5'-methylthioadenosine from Aeropyrum pernix (R32 form)
To be Published
3AJJ
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CRYSTAL STRUCTURE OF D(CGCGGATF5UCGCG): 5-FORMYLURIDINE/GUANOSINE BASE-PAIR IN B-DNA
Descriptor:5'-D(*CP*GP*CP*GP*GP*AP*TP*(UFR)P*CP*GP*CP*G)-3'
Authors:Tsunoda, M., Sakaue, T., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2010-06-07
Release date:2011-04-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.02 Å)
Cite:Insights into the structures of DNA damaged by hydroxyl radical: crystal structures of DNA duplexes containing 5-formyluracil
J Nucleic Acids, 2010, 2010
3AJK
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CRYSTAL STRUCTURE OF D(CGCGGATF5UCGCG): 5-FORMYLURIDINE:GUANOSINE BASE-PAIR IN B-DNA WITH HOECHST33258
Descriptor:5'-D(*CP*GP*CP*GP*GP*AP*TP*(UFR)P*CP*GP*CP*G*)-3', 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE, MAGNESIUM ION
Authors:Tsunoda, M., Sakaue, T., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2010-06-07
Release date:2011-04-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Insights into the structures of DNA damaged by hydroxyl radical: crystal structures of DNA duplexes containing 5-formyluracil
J Nucleic Acids, 2010, 2010
3AJL
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CRYSTAL STRUCTURE OF D(CGCGGATF5UCGCG): 5-FORMYLURIDINE:GUANOSINE BASE-PAIR IN B-DNA WITH DAPI
Descriptor:5'-D(*CP*GP*CP*GP*GP*AP*TP*(UFR)P*CP*GP*CP*G)-3', 6-AMIDINE-2-(4-AMIDINO-PHENYL)INDOLE, MAGNESIUM ION
Authors:Tsunoda, M., Sakaue, T., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2010-06-07
Release date:2011-04-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Insights into the structures of DNA damaged by hydroxyl radical: crystal structures of DNA duplexes containing 5-formyluracil
J Nucleic Acids, 2010, 2010
3A07
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CRYSTAL STRUCTURE OF ACTINOHIVIN; POTENT ANTI-HIV PROTEIN
Descriptor:Actinohivin, SODIUM ION
Authors:Tsunoda, M., Suzuki, K., Sagara, T., Takenaka, A.
Deposit date:2009-03-04
Release date:2009-08-25
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (1.19 Å)
Cite:Mechanism by which the lectin actinohivin blocks HIV infection of target cells
Proc.Natl.Acad.Sci.USA, 106, 2009
1WRJ
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CRYSTAL STRUCTURE OF O6-METHYLGUANINE METHYLTRANSFERASE FROM SULFOLOBUS TOKODAII
Descriptor:Methylated-DNA--protein-cysteine methyltransferase
Authors:Kuroda, M., Tsunoda, M., Nakamura, K.T.
Deposit date:2004-10-18
Release date:2005-12-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of O6-methylguanine methyltransferase from Sulfolobus tokodaii
To be Published
2LMK
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SOLUTION STRUCTURE OF MOUSE PHEROMONE ESP1
Descriptor:Exocrine gland-secreting peptide 1
Authors:Yoshinaga, S., Sato, T., Hirakane, M., Esaki, K., Hamaguchi, T., Haga-Yamanaka, S., Tsunoda, M., Kimoto, H., Shimada, I., Touhara, K., Terasawa, H.
Deposit date:2011-12-06
Release date:2013-04-17
Last modified:2013-04-24
Method:SOLUTION NMR
Cite:Structure of the Mouse Sex Peptide Pheromone ESP1 Reveals a Molecular Basis for Specific Binding to the Class-C G-Protein-Coupled Vomeronasal Receptor
J.Biol.Chem., 2013
6AIG
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CRYSTAL STRUCTURE OF PCNA1 FROM AEROPYRUM PERNIX
Descriptor:DNA polymerase sliding clamp 1
Authors:Yamauchi, T., Kikuchi, M., Tsunoda, M.
Deposit date:2018-08-23
Release date:2018-09-26
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of PCNA1 from Aeropyrum pernix
To Be Published
3A31
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CRYSTAL STRUCTURE OF PUTATIVE THREONYL-TRNA SYNTHETASE THRRS-1 FROM AEROPYRUM PERNIX (SELENOMETHIONINE DERIVATIVE)
Descriptor:Probable threonyl-tRNA synthetase 1, SULFATE ION, ZINC ION
Authors:Shimizu, S., Juan, E.C.M., Miyashita, Y., Sato, Y., Hoque, M.M., Suzuki, K., Yogiashi, M., Tsunoda, M., Dock-Bregeon, A.-C., Moras, D., Sekiguchi, T., Takenaka, A.
Deposit date:2009-06-07
Release date:2009-10-27
Last modified:2013-11-20
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Two complementary enzymes for threonylation of tRNA in crenarchaeota: crystal structure of Aeropyrum pernix threonyl-tRNA synthetase lacking a cis-editing domain
J.Mol.Biol., 394, 2009
3A32
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CRYSTAL STRUCTURE OF PUTATIVE THREONYL-TRNA SYNTHETASE THRRS-1 FROM AEROPYRUM PERNIX
Descriptor:Probable threonyl-tRNA synthetase 1, SULFATE ION, ZINC ION
Authors:Shimizu, S., Juan, E.C.M., Miyashita, Y., Sato, Y., Hoque, M.M., Suzuki, K., Yogiashi, M., Tsunoda, M., Dock-Bregeon, A.-C., Moras, D., Sekiguchi, T., Takenaka, A.
Deposit date:2009-06-07
Release date:2009-10-27
Last modified:2013-11-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Two complementary enzymes for threonylation of tRNA in crenarchaeota: crystal structure of Aeropyrum pernix threonyl-tRNA synthetase lacking a cis-editing domain
J.Mol.Biol., 394, 2009
1I47
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MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATT(MO4)CGCG): THE WATSON-CRICK TYPE AND WOBBLE N4-METHOXYCYTIDINE/GUANOSINE BASE PAIRS IN B-DNA
Descriptor:5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(C45)P*GP*CP*GP)-3', MAGNESIUM ION
Authors:Hossain, M.T., Hikima, T., Chatake, T., Tsunoda, M., Sunami, T., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2001-02-20
Release date:2003-02-11
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystallographic studies on damaged DNAs: III. N(4)-methoxycytosine can form both Watson-Crick type and wobbled base pairs in a B-form duplex
J.Biochem.(Tokyo), 130, 2001
1J8L
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MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCAAATTMO4CGCG): THE WATSON-CRICK TYPE N4-METHOXYCYTIDINE/ADENOSINE BASE PAIR IN B-DNA
Descriptor:DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*(C45)P*GP*CP*G)-3'), MAGNESIUM ION
Authors:Hossain, M.T., Sunami, T., Tsunoda, M., Hikima, T., Chatake, T., Ueno, Y., Matsuda, A., Takenaka, A.
Deposit date:2001-05-22
Release date:2001-09-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystallographic studies on damaged DNAs IV. N(4)-methoxycytosine shows a second face for Watson-Crick base-pairing, leading to purine transition mutagenesis.
Nucleic Acids Res., 29, 2001
1V53
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THE CRYSTAL STRUCTURE OF 3-ISOPROPYLMALATE DEHYDROGENASE FROM BACILLUS COAGULANS
Descriptor:3-isopropylmalate dehydrogenase
Authors:Fujita, K., Minami, H., Suzuki, K., Tsunoda, M., Sekiguchi, T., Mizui, R., Tsuzaki, S., Nakamura, S., Takenaka, A.
Deposit date:2003-11-20
Release date:2005-02-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:The crystal structure of 3-isopropylmalate dehydrogenase from Bacillus coagulans
To be Published
1V59
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CRYSTAL STRUCTURE OF YEAST LIPOAMIDE DEHYDROGENASE COMPLEXED WITH NAD+
Descriptor:Dihydrolipoamide dehydrogenase, PHOSPHATE ION, FLAVIN-ADENINE DINUCLEOTIDE, ...
Authors:Adachi, W., Suzuki, K., Tsunoda, M., Sekiguchi, T., Reed, L.J., Takenaka, A.
Deposit date:2003-11-21
Release date:2005-02-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of yeast lipoamide dehydrogenase complexed with NAD+
To be Published
1V5B
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THE STRUCTURE OF THE MUTANT, S225A AND E251L, OF 3-ISOPROPYLMALATE DEHYDROGENASE FROM BACILLUS COAGULANS
Descriptor:3-isopropylmalate dehydrogenase, SULFATE ION
Authors:Fujita, K., Minami, H., Suzuki, K., Tsunoda, M., Sekiguchi, T., Mizui, R., Tsuzaki, S., Nakamura, S., Takenaka, A.
Deposit date:2003-11-22
Release date:2005-02-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.95 Å)
Cite:Crystal structure of a highly thermo-stabilized mutant of 3-isopropylmalate dehydrogenase from Bacillus coagulans: An evaluation of local packing density in the hydrophobic core
To be Published
3VDR
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CRYSTAL STRUCTURE OF D-3-HYDROXYBUTYRATE DEHYDROGENASE, PREPARED IN THE PRESENCE OF THE SUBSTRATE D-3-HYDROXYBUTYRATE AND NAD(+)
Descriptor:D-3-hydroxybutyrate dehydrogenase, CALCIUM ION, CHLORIDE ION, ...
Authors:Hoque, M.M., Shimizu, S., Juan, E.C.M., Sato, Y., Hossain, M.T., Yamamoto, T., Imamura, S., Amano, H., Suzuki, K., Sekiguchi, T., Tsunoda, M., Takenaka, A.
Deposit date:2012-01-06
Release date:2012-02-08
Method:X-RAY DIFFRACTION (3 Å)
Cite:Structure of D-3-hydroxybutyrate dehydrogenase prepared in the presence of the substrate D-3-hydroxybutyrate and NAD+.
Acta Crystallogr.,Sect.F, 65, 2009
3W8D
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CRYSTAL STRUCTURE OF D-3-HYDROXYBUTYRATE DEHYDROGENASE FROM ALCALIGENES FAECALIS COMPLEXED WITH NAD+ AND AN INHIBITOR METHYLMALONATE
Descriptor:D-3-hydroxybutyrate dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, METHYLMALONIC ACID, ...
Authors:Kanazawa, H., Tsunoda, M., Hoque, M.M., Suzuki, K., Yamamoto, T., Takenaka, A.
Deposit date:2013-03-12
Release date:2014-03-12
Method:X-RAY DIFFRACTION (1.37 Å)
Cite:X-ray diffraction of D-3-hydroxybutyrate dehydrogenase from Alcaligenes faecalis complexed with NAD+ and methylmalonate
To be Published
3W8E
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CRYSTAL STRUCTURE OF D-3-HYDROXYBUTYRATE DEHYDROGENASE FROM ALCALIGENES FAECALIS COMPLEXED WITH NAD+ AND A SUBSTRATE D-3-HYDROXYBUTYRATE
Descriptor:D-3-hydroxybutyrate dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, (3R)-3-hydroxybutanoic acid, ...
Authors:Kanazawa, H., Tsunoda, M., Hoque, M.M., Suzuki, K., Yamamoto, T., Takenaka, A.
Deposit date:2013-03-12
Release date:2014-03-12
Method:X-RAY DIFFRACTION (1.24 Å)
Cite:High resolution X-ray diffraction of D-3-hydroxybutyrate dehydrogenase from Alcaligenes faecalis complexed with NAD+ and D-3-hydroxybutyrate
To be Published
3W8F
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CRYSTAL STRUCTURE OF D-3-HYDROXYBUTYRATE DEHYDROGENASE FROM ALCALIGENES FAECALIS COMPLEXED WITH NAD+ AND AN INHIBITOR MALONATE
Descriptor:D-3-hydroxybutyrate dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, MALONIC ACID, ...
Authors:Kanazawa, H., Tsunoda, M., Hoque, M.M., Suzuki, K., Yamamoto, T., Takenaka, A.
Deposit date:2013-03-12
Release date:2014-03-12
Last modified:2015-04-29
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:X-ray diffraction of D-3-hydroxybutyrate dehydrogenase from Alcaligenes faecalis complexed with NAD+ and malonate
To be Published
4DEN
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STRUCTURAL INSIGHTSINTO POTENT, SPECIFIC ANTI-HIV PROPERTY OF ACTINOHIVIN; CRYSTAL STRUCTURE OF ACTINOHIVIN IN COMPLEX WITH ALPHA(1-2) MANNOBIOSE MOIETY OF HIGH-MANNOSE TYPE GLYCAN OF GP120
Descriptor:Actinohivin, 2-O-alpha-D-mannopyranosyl-alpha-D-mannopyranose, POTASSIUM ION
Authors:Hoque, M.M., Suzuki, K., Tsunoda, M., Jiang, J., Zhang, F., Takahashi, A., Naomi, O., Zhang, X., Sekiguchi, T., Tanaka, H., Omura, S., Takenaka, A.
Deposit date:2012-01-20
Release date:2012-11-28
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural insights into the specific anti-HIV property of actinohivin: structure of its complex with the alpha(1–2)mannobiose moiety of gp120
Acta Crystallogr.,Sect.D, 68, 2012
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