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1WMB
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BU of 1wmb by Molmil
Crystal structure of NAD dependent D-3-hydroxybutylate dehydrogenase
Descriptor: CACODYLATE ION, D(-)-3-hydroxybutyrate dehydrogenase, MAGNESIUM ION
Authors:Ito, K, Nakajima, Y, Ichihara, E, Ogawa, K, Yoshimoto, T.
Deposit date:2004-07-06
Release date:2005-09-06
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:d-3-Hydroxybutyrate Dehydrogenase from Pseudomonas fragi: Molecular Cloning of the Enzyme Gene and Crystal Structure of the Enzyme
J.Mol.Biol., 355, 2006
1X1T
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BU of 1x1t by Molmil
Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase from Pseudomonas fragi Complexed with NAD+
Descriptor: CACODYLATE ION, D(-)-3-hydroxybutyrate dehydrogenase, MAGNESIUM ION, ...
Authors:Ito, K, Nakajima, Y, Ichihara, E, Ogawa, K, Yoshimoto, T.
Deposit date:2005-04-13
Release date:2006-01-10
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.52 Å)
Cite:d-3-Hydroxybutyrate Dehydrogenase from Pseudomonas fragi: Molecular Cloning of the Enzyme Gene and Crystal Structure of the Enzyme
J.Mol.Biol., 355, 2006
1V4B
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BU of 1v4b by Molmil
The crystal structure of AzoR (Azo Reductase) from Escherichia coli: Oxidized form
Descriptor: 1,2-ETHANEDIOL, FLAVIN MONONUCLEOTIDE, ISOPROPYL ALCOHOL, ...
Authors:Ito, K, Tanokura, M.
Deposit date:2003-11-12
Release date:2005-01-18
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Three-dimensional structure of AzoR from Escherichia coli. An oxidereductase conserved in microorganisms
J.Biol.Chem., 281, 2006
3AIB
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Crystal Structure of Glucansucrase
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CALCIUM ION, Glucosyltransferase-SI, ...
Authors:Ito, K, Ito, S, Shimamura, T, Iwata, S.
Deposit date:2010-05-12
Release date:2011-03-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3.09 Å)
Cite:Crystal structure of glucansucrase from the dental caries pathogen Streptococcus mutans.
J.Mol.Biol., 408, 2011
3AIC
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Crystal Structure of Glucansucrase from Streptococcus mutans
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, CALCIUM ION, ...
Authors:Ito, K, Ito, S, Shimamura, T, Iwata, S.
Deposit date:2010-05-12
Release date:2011-03-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3.11 Å)
Cite:Crystal structure of glucansucrase from the dental caries pathogen Streptococcus mutans.
J.Mol.Biol., 408, 2011
3AIE
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Crystal Structure of glucansucrase from Streptococcus mutans
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CALCIUM ION, Glucosyltransferase-SI
Authors:Ito, K, Ito, S, Shimamura, T, Iwata, S.
Deposit date:2010-05-12
Release date:2011-03-23
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of glucansucrase from the dental caries pathogen Streptococcus mutans.
J.Mol.Biol., 408, 2011
2D5I
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The crystal structure of AzoR (Azo Reductase) from Escherichia coli
Descriptor: Azo Reductase, FLAVIN MONONUCLEOTIDE, GLYCEROL
Authors:Ito, K, Tanokura, M.
Deposit date:2005-11-02
Release date:2006-05-16
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Three-dimensional structure of AzoR from Escherichia coli. An oxidereductase conserved in microorganisms
J.Biol.Chem., 281, 2006
3VJR
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Crystal structure of Peptidyl-tRNA hydrolase from Escherichia coli in complex with the CCA-acceptor-T[PSI]C domain of tRNA
Descriptor: Peptidyl-tRNA hydrolase, tRNA CCA-acceptor
Authors:Ito, K, Murakami, R, Mochizuki, M, Qi, H, Shimizu, Y, Miura, K.I, Ueda, T, Uchiumi, T.
Deposit date:2011-10-28
Release date:2012-09-12
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the substrate recognition and catalysis of peptidyl-tRNA hydrolase.
Nucleic Acids Res., 40, 2012
2CZF
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Crystal structure of orotidine 5'-phosphate decarboxylase from Pyrococcus horikoshii OT3 complexed with XMP
Descriptor: Orotidine 5'-phosphate decarboxylase, XANTHOSINE-5'-MONOPHOSPHATE
Authors:Ito, K, Arai, R, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-07-13
Release date:2006-01-13
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Crystal structure of orotidine 5'-phosphate decarboxylase from Pyrococcus horikoshii OT3 complexed with XMP
To be Published
2CZC
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Crystal structure of glyceraldehyde-3-phosphate dehydrogenase from Pyrococcus horikoshii OT3
Descriptor: Glyceraldehyde-3-phosphate dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, PHOSPHATE ION
Authors:Ito, K, Arai, R, Kamo-Uchikubo, T, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-07-13
Release date:2006-01-13
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of glyceraldehyde-3-phosphate dehydrogenase from Pyrococcus horikoshii OT3
To be Published
2CYJ
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Crystal structure of conserved hypothetical protein PH1505 from Pyrococcus horikoshii OT3
Descriptor: ACETATE ION, SULFATE ION, hypothetical protein PH1505
Authors:Ito, K, Arai, R, Kamo-Uchikubo, T, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-07-07
Release date:2006-01-07
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Crystal structure of conserved hypothetical protein PH1505 from Pyrococcus horikoshii OT3
To be Published
2CWQ
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BU of 2cwq by Molmil
Crystal structure of conserved protein TTHA0727 from Thermus thermophilus HB8
Descriptor: hypothetical protein TTHA0727
Authors:Ito, K, Arai, R, Fusatomi, E, Kamo-Uchikubo, T, Kawaguchi, S, Terada, T, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-06-23
Release date:2005-12-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of the conserved protein TTHA0727 from Thermus thermophilus HB8 at 1.9 A resolution: A CMD family member distinct from carboxymuconolactone decarboxylase (CMD) and AhpD
Protein Sci., 15, 2006
2Z9B
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BU of 2z9b by Molmil
The crystal structure of AzoR (azoreductase) from Escherichia coli: Reduced AzoR in tetragonal crystals
Descriptor: 1,2-ETHANEDIOL, FLAVIN MONONUCLEOTIDE, FMN-dependent NADH-azoreductase
Authors:Ito, K.
Deposit date:2007-09-18
Release date:2008-03-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Expansion of Substrate Specificity and Catalytic Mechanism of Azoreductase by X-ray Crystallography and Site-directed Mutagenesis
J.Biol.Chem., 283, 2008
2Z98
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The crystal structure of AzoR (azoreductase) from Escherichia coli: Oxidized AzoR in tetragonal crystals (The resolution has improved from 1.8 (1v4b) to 1.4 angstrom)
Descriptor: 1,2-ETHANEDIOL, FLAVIN MONONUCLEOTIDE, FMN-dependent NADH-azoreductase
Authors:Ito, K.
Deposit date:2007-09-18
Release date:2008-03-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Expansion of Substrate Specificity and Catalytic Mechanism of Azoreductase by X-ray Crystallography and Site-directed Mutagenesis
J.Biol.Chem., 283, 2008
2Z9C
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The crystal structure of AzoR (azoreductase) from Escherichia coli: AzoR in complex with dicoumarol
Descriptor: BISHYDROXY[2H-1-BENZOPYRAN-2-ONE,1,2-BENZOPYRONE], FLAVIN MONONUCLEOTIDE, FMN-dependent NADH-azoreductase, ...
Authors:Ito, K.
Deposit date:2007-09-18
Release date:2008-03-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Expansion of Substrate Specificity and Catalytic Mechanism of Azoreductase by X-ray Crystallography and Site-directed Mutagenesis
J.Biol.Chem., 283, 2008
2Z9D
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BU of 2z9d by Molmil
The crystal structure of AzoR (azoreductase) from Escherichia coli: Oxidized AzoR in orthorhombic crystals
Descriptor: FLAVIN MONONUCLEOTIDE, FMN-dependent NADH-azoreductase
Authors:Ito, K.
Deposit date:2007-09-18
Release date:2008-03-11
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Expansion of Substrate Specificity and Catalytic Mechanism of Azoreductase by X-ray Crystallography and Site-directed Mutagenesis
J.Biol.Chem., 283, 2008
3WY9
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Crystal structure of a complex of the archaeal ribosomal stalk protein aP1 and the GDP-bound archaeal elongation factor aEF1alpha
Descriptor: 50S ribosomal protein L12, Elongation factor 1-alpha, GUANOSINE-5'-DIPHOSPHATE
Authors:Ito, K, Honda, T, Suzuki, T, Miyoshi, T, Murakami, R, Yao, M, Uchiumi, T.
Deposit date:2014-08-22
Release date:2014-12-24
Last modified:2022-08-24
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Molecular insights into the interaction of the ribosomal stalk protein with elongation factor 1 alpha.
Nucleic Acids Res., 42, 2014
3WYA
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BU of 3wya by Molmil
Crystal structure of GDP-bound EF1alpha from Pyrococcus horikoshii
Descriptor: Elongation factor 1-alpha, GUANOSINE-5'-DIPHOSPHATE
Authors:Ito, K, Honda, T, Suzuki, T, Miyoshi, T, Murakami, R, Yao, M, Uchiumi, T.
Deposit date:2014-08-22
Release date:2014-12-24
Last modified:2022-08-24
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:Molecular insights into the interaction of the ribosomal stalk protein with elongation factor 1 alpha.
Nucleic Acids Res., 42, 2014
2D5L
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BU of 2d5l by Molmil
Crystal Structure of Prolyl Tripeptidyl Aminopeptidase from Porphyromonas gingivalis
Descriptor: SULFATE ION, dipeptidyl aminopeptidase IV, putative
Authors:Nakajima, Y, Ito, K, Xu, Y, Yamada, N, Onohara, Y, Yoshimoto, T.
Deposit date:2005-11-02
Release date:2006-09-19
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal Structure and Mechanism of Tripeptidyl Activity of Prolyl Tripeptidyl Aminopeptidase from Porphyromonas gingivalis
J.Mol.Biol., 362, 2006
2DCM
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The Crystal Structure of S603A Mutated Prolyl Tripeptidyl Aminopeptidase Complexed with Substrate
Descriptor: GLYCYLALANYL-N-2-NAPHTHYL-L-PROLINEAMIDE, dipeptidyl aminopeptidase IV, putative
Authors:Nakajima, Y, Ito, K, Xu, Y, Yamada, N, Onohara, Y, Yoshimoto, T.
Deposit date:2006-01-09
Release date:2006-09-19
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Crystal Structure and Mechanism of Tripeptidyl Activity of Prolyl Tripeptidyl Aminopeptidase from Porphyromonas gingivalis
J.Mol.Biol., 362, 2006
2DQM
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Crystal Structure of Aminopeptidase N complexed with bestatin
Descriptor: 2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC ACID, Aminopeptidase N, SULFATE ION, ...
Authors:Onohara, Y, Nakajima, Y, Ito, K, Yoshimoto, T.
Deposit date:2006-05-29
Release date:2006-08-01
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Aminopeptidase N (proteobacteria alanyl aminopeptidase) from Escherichia coli: Crystal structure and conformational change of the methionine 260 residue involved in substrate recognition
J.Biol.Chem., 281, 2006
2DQ6
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Crystal Structure of Aminopeptidase N from Escherichia coli
Descriptor: Aminopeptidase N, SULFATE ION, ZINC ION
Authors:Nakajima, Y, Onohara, Y, Ito, K, Yoshimoto, T.
Deposit date:2006-05-22
Release date:2006-08-01
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Aminopeptidase N (proteobacteria alanyl aminopeptidase) from Escherichia coli: Crystal structure and conformational change of the methionine 260 residue involved in substrate recognition
J.Biol.Chem., 281, 2006
2CZH
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Crystal structure of human myo-inositol monophosphatase 2 (IMPA2) with phosphate ion (orthorhombic form)
Descriptor: Inositol monophosphatase 2, PHOSPHATE ION
Authors:Ito, K, Arai, R, Kamo-Uchikubo, T, Ohnishi, T, Ohba, H, Yoshikawa, T, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-07-13
Release date:2006-07-25
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal structure of human myo-inositol monophosphatase 2, the product of the putative susceptibility gene for bipolar disorder, schizophrenia, and febrile seizures
Proteins, 67, 2007
4BEH
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BU of 4beh by Molmil
Solution structure of human ribosomal protein P1.P2 heterodimer
Descriptor: 60S ACIDIC RIBOSOMAL PROTEIN P1, 60S ACIDIC RIBOSOMAL PROTEIN P2
Authors:Lee, K.M, Yusa, K, Chu, L.O, Wing-Heng Yu, C, Shaw, P.C, Oono, M, Miyoshi, T, Ito, K, Wong, K.B, Uchiumi, T.
Deposit date:2013-03-10
Release date:2013-08-14
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:Solution Structure of Human P1P2 Heterodimer Provides Insights Into the Role of Eukaryotic Stalk in Recruiting the Ribosome-Inactivating Protein Trichosanthin to the Ribosome.
Nucleic Acids Res., 41, 2013
1BK1
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ENDO-1,4-BETA-XYLANASE C
Descriptor: ENDO-1,4-B-XYLANASE C
Authors:Fushinobu, S, Ito, K, Konno, M, Wakagi, T, Matsuzawa, H.
Deposit date:1998-07-14
Release date:1999-01-13
Last modified:2023-08-02
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystallographic and mutational analyses of an extremely acidophilic and acid-stable xylanase: biased distribution of acidic residues and importance of Asp37 for catalysis at low pH.
Protein Eng., 11, 1998

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