Author results

1IQZ
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OXIDIZED [4FE-4S] FERREDOXIN FROM BACILLUS THERMOPROTEOLYTICUS (FORM I)
Descriptor:Ferredoxin, SULFATE ION, IRON/SULFUR CLUSTER
Authors:Fukuyama, K., Okada, T., Kakuta, Y., Takahashi, Y.
Deposit date:2001-08-30
Release date:2002-02-13
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (0.92 Å)
Cite:Atomic resolution structures of oxidized [4Fe-4S] ferredoxin from Bacillus thermoproteolyticus in two crystal forms: systematic distortion of [4Fe-4S] cluster in the protein.
J.Mol.Biol., 315, 2002
1IR0
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OXIDIZED [4FE-4S] FERREDOXIN FROM BACILLUS THERMOPROTEOLYTICUS (FORM II)
Descriptor:Ferredoxin, SULFATE ION, IRON/SULFUR CLUSTER
Authors:Fukuyama, K., Okada, T., Kakuta, Y., Takahashi, Y.
Deposit date:2001-08-30
Release date:2002-02-13
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1 Å)
Cite:Atomic resolution structures of oxidized [4Fe-4S] ferredoxin from Bacillus thermoproteolyticus in two crystal forms: systematic distortion of [4Fe-4S] cluster in the protein.
J.Mol.Biol., 315, 2002
3I94
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CRYSTAL STRUCTURE OF PCYA-BILIVERDIN XIII ALPHA COMPLEX
Descriptor:Phycocyanobilin:ferredoxin oxidoreductase, 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(3-ethenyl-4-methyl-5-oxo-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-2-ylidene]methyl]-5-[(Z)-(3-ethenyl-4-methyl-5-oxo-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-3-yl]propanoic acid, SULFATE ION
Authors:Hagiwara, Y., Sugishima, M., Fukuyama, K.
Deposit date:2009-07-10
Release date:2009-10-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.04 Å)
Cite:Structural insights into vinyl reduction regiospecificity of phycocyanobilin:ferredoxin oxidoreductase (PcyA).
to be published
3I95
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CRYSTAL STRUCTURE OF E76Q MUTANT PCYA-BILIVERDIN COMPLEX
Descriptor:Phycocyanobilin:ferredoxin oxidoreductase, BILIVERDINE IX ALPHA
Authors:Hagiwara, Y., Sugishima, M., Fukuyama, K.
Deposit date:2009-07-10
Release date:2009-10-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Structural insights into vinyl reduction regiospecificity of phycocyanobilin:ferredoxin oxidoreductase (PcyA).
To be Published
1KW3
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CRYSTAL STRUCTURE OF 2,3-DIHYDROXYBIPHENYAL DIOXYGENASE (BPHC) AT 1.45 A RESOLUTION
Descriptor:2,3-Dihydroxybiphenyl dioxygenase, FE (II) ION, (4S)-2-METHYL-2,4-PENTANEDIOL
Authors:Sato, N., Uragami, Y., Nishizaki, T., Takahashi, Y., Sazaki, G., Sugimoto, K., Nonaka, T., Masai, E., Fukuda, M., Senda, T.
Deposit date:2002-01-28
Release date:2003-01-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Crystal Structures of the Reaction Intermediate and its Homologue of an Extradiol-cleaving Catecholic Dioxygenase
J.Mol.Biol., 321, 2002
1KW6
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CRYSTAL STRUCTURE OF 2,3-DIHYDROXYBIPHENYL DIOXYGENASE (BPHC) IN COMPLEX WITH 2,3-DIHYDROXYBIPHENYL AT 1.45 A RESOLUTION
Descriptor:2,3-Dihydroxybiphenyl dioxygenase, FE (II) ION, BIPHENYL-2,3-DIOL, ...
Authors:Sato, N., Uragami, Y., Nishizaki, T., Takahashi, Y., Sazaki, G., Sugimoto, K., Nonaka, T., Masai, E., Fukuda, M., Senda, T.
Deposit date:2002-01-28
Release date:2003-01-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Crystal Structures of the Reaction Intermediate and its Homologue of an Extradiol-cleaving Catecholic Dioxygenase
J.Mol.Biol., 321, 2002
3I8U
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CRYSTAL STRUCTURE OF PCYA-181,182-DIHYDROBILIVERDIN COMPLEX
Descriptor:Phycocyanobilin:ferredoxin oxidoreductase, 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(3-ethenyl-4-methyl-5-oxo-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-2-ylidene]methyl]-5-[(Z)-(4-ethyl-3-methyl-5-oxo-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-3-yl]propanoic acid
Authors:Hagiwara, Y., Sugishima, M., Fukuyama, K.
Deposit date:2009-07-10
Release date:2009-10-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.48 Å)
Cite:Structural insights into vinyl reduction regiospecificity of phycocyanobilin:ferredoxin oxidoreductase (PcyA).
To be Published
2D1E
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CRYSTAL STRUCTURE OF PCYA-BILIVERDIN COMPLEX
Descriptor:Phycocyanobilin:ferredoxin oxidoreductase, SODIUM ION, BILIVERDINE IX ALPHA
Authors:Hagiwara, Y., Sugishima, M., Takahashi, Y., Fukuyama, K.
Deposit date:2005-08-17
Release date:2006-01-24
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (1.51 Å)
Cite:Crystal structure of phycocyanobilin:ferredoxin oxidoreductase in complex with biliverdin IXalpha, a key enzyme in the biosynthesis of phycocyanobilin
Proc.Natl.Acad.Sci.Usa, 103, 2006
1WTF
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CRYSTAL STRUCTURE OF BACILLUS THERMOPROTEOLYTICUS FERREDOXIN VARIANTS CONTAINING UNEXPECTED [3FE-4S] CLUSTER THAT IS LINKED TO COENZYME A AT 1.6 A RESOLUTION
Descriptor:Ferredoxin, SULFATE ION, COENZYME A, ...
Authors:Shirakawa, T., Takahashi, Y., Wada, K., Hirota, J., Takao, T., Ohmori, D., Fukuyama, K.
Deposit date:2004-11-22
Release date:2005-11-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Identification of variant molecules of Bacillus thermoproteolyticus ferredoxin: crystal structure reveals bound coenzyme A and an unexpected [3Fe-4S] cluster associated with a canonical [4Fe-4S] ligand motif
Biochemistry, 44, 2005
2ZHP
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CRYSTAL STRUCTURE OF BLEOMYCIN-BINDING PROTEIN FROM STREPTOALLOTEICHUS HINDUSTANUS COMPLEXED WITH BLEOMYCIN DERIVATIVE
Descriptor:Bleomycin resistance protein, [(2S,3R,4R,5S,6S)-2-[(3R,4R,5R,6R)-2-[(1R,2S)-2-[[6-amino-2-[(1S)-3-amino-1-[(2,3-diamino-3-oxopropyl)amino]-3-oxopropyl]-5-methylpyrimidine-4-carbonyl]amino]-3-[[(2S,3R,4R)-5-[[(2R,3S)-1-[2-[4-[4-[3-[4-(3-aminopropylamino)butylamino]propylcarbamoyl]-1,3-thiazol-2-yl]-1,3-thiazol-2-yl]ethylamino]-3-hydroxy-1-oxobutan-2-yl]amino]-3-hydroxy-4-methyl-5-oxopentan-2-yl]amino]-1-(3H-imidazol-4-yl)-3-oxopropoxy]-4,5-dihydroxy-6-(hydroxymethyl)oxan-3-yl]oxy-3,5-dihydroxy-6-(hydroxymethyl)oxan-4-yl] carbamate, COPPER (II) ION, ...
Authors:Okumura, H., Miyazaki, I., Simizu, S., Osada, H.
Deposit date:2008-02-06
Release date:2009-02-17
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structure-Affinity Relationship Study of Bleomycins and Shble protein Using a Chemical Array
To be Published
3VGW
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CRYSTAL STRUCTURE OF MONOAC-BIOTIN-AVIDIN COMPLEX
Descriptor:Avidin, 5-[(3aS,4S,6aR)-1-acetyl-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoic acid, N-ACETYL-D-GLUCOSAMINE, ...
Authors:Terai, T., Maki, E., Sugiyama, S., Takahashi, Y., Matsumura, H., Mori, Y., Nagano, T.
Deposit date:2011-08-21
Release date:2011-12-28
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Rational development of caged-biotin protein-labeling agents and some applications in live cells
Chem.Biol., 18, 2011
5XXL
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CRYSTAL STRUCTURE OF GH3 BETA-GLUCOSIDASE FROM BACTEROIDES THETAIOTAOMICRON
Descriptor:Periplasmic beta-glucosidase, MAGNESIUM ION, DI(HYDROXYETHYL)ETHER, ...
Authors:Nakajima, M., Ishiguro, R., Tanaka, N., Abe, K., Maeda, T., Miyanaga, A., Takahash, Y., Sugimoto, N., Nakai, H., Taguchi, H.
Deposit date:2017-07-04
Release date:2017-12-13
Last modified:2017-12-27
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Function and structure relationships of a beta-1,2-glucooligosaccharide-degrading beta-glucosidase.
FEBS Lett., 591, 2017
5YSE
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CRYSTAL STRUCTURE OF BETA-1,2-GLUCOOLIGOSACCHARIDE BINDING PROTEIN IN COMPLEX WITH SOPHOROTETRAOSE
Descriptor:Lin1841 protein, (4S)-2-METHYL-2,4-PENTANEDIOL, MAGNESIUM ION, ...
Authors:Abe, K., Nakajima, M., Taguchi, H., Arakawa, T., Fushinobu, S.
Deposit date:2017-11-14
Release date:2018-05-02
Last modified:2018-06-20
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural and thermodynamic insights into beta-1,2-glucooligosaccharide capture by a solute-binding protein inListeria innocua.
J. Biol. Chem., 293, 2018
1I7H
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CRYSTAL STURCUTURE OF FDX
Descriptor:FERREDOXIN, FE2/S2 (INORGANIC) CLUSTER
Authors:Kakuta, Y., Horio, T., Takahashi, Y., Fukuyama, K.
Deposit date:2001-03-09
Release date:2002-03-09
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structure of Escherichia coli Fdx, an adrenodoxin-type ferredoxin involved in the assembly of iron-sulfur clusters.
Biochemistry, 40, 2001
5GZK
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ENDO-BETA-1,2-GLUCANASE FROM CHITINOPHAGA PINENSIS - SOPHOROTRIOSE AND GLUCOSE COMPLEX
Descriptor:Uncharacterized protein, PHOSPHATE ION, POTASSIUM ION, ...
Authors:Abe, K., Nakajima, M., Arakawa, T., Fushinobu, S., Taguchi, H.
Deposit date:2016-09-28
Release date:2017-03-15
Last modified:2017-05-24
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Biochemical and structural analyses of a bacterial endo-beta-1,2-glucanase reveal a new glycoside hydrolase family
J. Biol. Chem., 292, 2017
5XXM
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CRYSTAL STRUCTURE OF GH3 BETA-GLUCOSIDASE FROM BACTEROIDES THETAIOTAOMICRON IN COMPLEX WITH GLUCONOLACTONE
Descriptor:Periplasmic beta-glucosidase, MAGNESIUM ION, (3S,4R,5R,6S)-3,4,5-TRIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-ONE, ...
Authors:Nakajima, M., Ishiguro, R., Tanaka, N., Abe, K., Maeda, T., Miyanaga, A., Takahash, Y., Sugimoto, N., Nakai, H., Taguchi, H.
Deposit date:2017-07-04
Release date:2017-12-13
Last modified:2017-12-27
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Function and structure relationships of a beta-1,2-glucooligosaccharide-degrading beta-glucosidase.
FEBS Lett., 591, 2017
1UJ8
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STRUCTURES OF ORF3 IN TWO CRYSTAL FORMS, A MEMBER OF ISC MACHINERY OF E. COLI INVOLVED IN THE ASSEMBLY OF IRON-SULFUR CLUSTERS
Descriptor:Hypothetical protein yfhJ
Authors:Shimomura, Y., Takahashi, Y., Fukuyama, K.
Deposit date:2003-07-29
Release date:2005-02-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal structure of Escherichia coli YfhJ protein, a member of the ISC machinery involved in assembly of iron-sulfur clusters.
Proteins, 60, 2005
3VHI
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CRYSTAL STRUCTURE OF MONOZ-BIOTIN-AVIDIN COMPLEX
Descriptor:Avidin, 5-{(3aS,4S,6aR)-1-[(benzyloxy)carbonyl]-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl}pentanoic acid, N-ACETYL-D-GLUCOSAMINE, ...
Authors:Terai, T., Maki, E., Sugiyama, S., Takahashi, Y., Matsumura, H., Mori, Y., Nagano, T.
Deposit date:2011-08-25
Release date:2011-12-28
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.76 Å)
Cite:Rational development of caged-biotin protein-labeling agents and some applications in live cells
Chem.Biol., 18, 2011
4ZOC
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CRYSTAL STRUCTURE OF MUTANT (D270A) BETA-GLUCOSIDASE FROM LISTERIA INNOCUA IN COMPLEX WITH SOPHOROTRIOSE
Descriptor:Lin1840 protein, GLYCEROL, MAGNESIUM ION, ...
Authors:Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.
Deposit date:2015-05-06
Release date:2016-05-18
Last modified:2016-06-01
Method:X-RAY DIFFRACTION (1.79 Å)
Cite:Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua
Plos One, 11, 2016
3VOT
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CRYSTAL STRUCTURE OF L-AMINO ACID LIGASE FROM BACILLUS LICHENIFORMIS
Descriptor:L-amino acid ligase, BL00235, ADENOSINE-5'-DIPHOSPHATE, ...
Authors:Suzuki, M., Takahashi, Y., Noguchi, A., Arai, T., Yagasaki, M., Kino, K., Saito, J.
Deposit date:2012-02-08
Release date:2012-11-07
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:The structure of L-amino-acid ligase from Bacillus licheniformis
Acta Crystallogr.,Sect.D, 68, 2012
4ZOE
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CRYSTAL STRUCTURE OF BETA-GLUCOSIDASE FROM LISTERIA INNOCUA
Descriptor:Lin1840 protein, MAGNESIUM ION, GLYCEROL
Authors:Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.
Deposit date:2015-05-06
Release date:2016-05-18
Last modified:2016-06-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua
Plos One, 11, 2016
5AVE
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THE LIGAND BINDING DOMAIN OF MLP37 WITH SERINE
Descriptor:Methyl-accepting chemotaxis (MCP) signaling domain protein, SERINE
Authors:Takahashi, Y., Sumita, K., Uchida, Y., Nishiyama, S., Kawagishi, I., Imada, K.
Deposit date:2015-06-15
Release date:2016-03-02
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Identification of a Vibrio cholerae chemoreceptor that senses taurine and amino acids as attractants
Sci Rep, 6, 2016
5GZH
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ENDO-BETA-1,2-GLUCANASE FROM CHITINOPHAGA PINENSIS - LIGAND FREE FORM
Descriptor:Endo-beta-1,2-glucanase, TREHALOSE, IODIDE ION
Authors:Abe, K., Nakajima, M., Arakawa, T., Fushinobu, S., Taguchi, H.
Deposit date:2016-09-28
Release date:2017-03-15
Last modified:2017-05-24
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Biochemical and structural analyses of a bacterial endo-beta-1,2-glucanase reveal a new glycoside hydrolase family
J. Biol. Chem., 292, 2017
5X9A
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CRYSTAL STRUCTURE OF CALAXIN WITH CALCIUM
Descriptor:Calaxin, CALCIUM ION, 1,2-ETHANEDIOL
Authors:Shojima, T., Hou, F., Takahashi, Y., Okai, M., Mizuno, K., Inaba, K., Miyakawa, T., Tanokura, M.
Deposit date:2017-03-06
Release date:2018-03-14
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Crystal structure of a Ca2+-dependent regulator of flagellar motility reveals the open-closed structural transition
Sci Rep, 8, 2018
5WT5
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L-HOMOCYSTEINE-BOUND NIFS FROM HELICOBACTER PYLORI
Descriptor:Cysteine desulfurase IscS, ISOPROPYL ALCOHOL, 2-AMINO-4-MERCAPTO-BUTYRIC ACID
Authors:Fujishiro, T., Takahashi, Y.
Deposit date:2016-12-09
Release date:2017-12-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural snapshot of cysteine desulfurase NifS with L-cysteine in initiation of catalysis
to be published