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PDB: 235 件

8I19
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Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP at pH 8.0
分子名称: 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, SODIUM ION
著者Nakamura, T, Yamagata, Y.
登録日2023-01-13
公開日2023-03-22
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (1.48 Å)
主引用文献Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I8T
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Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dAMP and Mn2+
分子名称: 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE, 7,8-dihydro-8-oxoguanine triphosphatase, MANGANESE (II) ION
著者Nakamura, T, Yamagata, Y.
登録日2023-02-05
公開日2023-03-22
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (1.22 Å)
主引用文献Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I1F
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Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dATP at pH 8.6
分子名称: 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate
著者Nakamura, T, Yamagata, Y.
登録日2023-01-13
公開日2023-03-22
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (1.05 Å)
主引用文献Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I8S
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Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGMP and Mn2+
分子名称: 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE, MANGANESE (II) ION
著者Nakamura, T, Yamagata, Y.
登録日2023-02-05
公開日2023-03-22
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (1.42 Å)
主引用文献Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
2Z3Q
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Crystal structure of the IL-15/IL-15Ra complex
分子名称: Interleukin-15, Interleukin-15 receptor alpha chain
著者Chirifu, M, Yamagata, Y, Davis, S.J, Ikemizu, S.
登録日2007-06-05
公開日2007-09-04
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献Crystal structure of the IL-15-IL-15Ralpha complex, a cytokine-receptor unit presented in trans
Nat.Immunol., 8, 2007
3APV
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Crystal structure of the A variant of human alpha1-acid glycoprotein and amitriptyline complex
分子名称: ACETIC ACID, Alpha-1-acid glycoprotein 2, Amitriptyline
著者Nishi, K, Ono, T, Nakamura, T, Fukunaga, N, Izumi, M, Watanabe, H, Suenaga, A, Maruyama, T, Yamagata, Y, Curry, S, Otagiri, M.
登録日2010-10-21
公開日2011-02-23
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.15 Å)
主引用文献Structural insights into differences in drug-binding selectivity between two forms of human alpha1-acid glycoprotein genetic variants, the A and F1*S forms.
J. Biol. Chem., 286, 2011
3APX
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Crystal structure of the A variant of human alpha1-acid glycoprotein and chlorpromazine complex
分子名称: 3-(2-chloro-10H-phenothiazin-10-yl)-N,N-dimethylpropan-1-amine, ACETIC ACID, Alpha-1-acid glycoprotein 2
著者Nishi, K, Ono, T, Nakamura, T, Fukunaga, N, Izumi, M, Watanabe, H, Suenaga, A, Maruyama, T, Yamagata, Y, Curry, S, Otagiri, M.
登録日2010-10-21
公開日2011-02-23
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Structural insights into differences in drug-binding selectivity between two forms of human alpha1-acid glycoprotein genetic variants, the A and F1*S forms.
J. Biol. Chem., 286, 2011
3APW
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Crystal structure of the A variant of human alpha1-acid glycoprotein and disopyramide complex
分子名称: Alpha-1-acid glycoprotein 2, Disopyramide
著者Nishi, K, Ono, T, Nakamura, T, Fukunaga, N, Izumi, M, Watanabe, H, Suenaga, A, Maruyama, T, Yamagata, Y, Curry, S, Otagiri, M.
登録日2010-10-21
公開日2011-02-23
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Structural insights into differences in drug-binding selectivity between two forms of human alpha1-acid glycoprotein genetic variants, the A and F1*S forms.
J. Biol. Chem., 286, 2011
3APU
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Crystal structure of the A variant of human alpha1-acid glycoprotein
分子名称: Alpha-1-acid glycoprotein 2, TETRAETHYLENE GLYCOL
著者Nishi, K, Ono, T, Nakamura, T, Fukunaga, N, Izumi, M, Watanabe, H, Suenaga, A, Maruyama, T, Yamagata, Y, Curry, S, Otagiri, M.
登録日2010-10-21
公開日2011-02-23
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Structural insights into differences in drug-binding selectivity between two forms of human alpha1-acid glycoprotein genetic variants, the A and F1*S forms.
J. Biol. Chem., 286, 2011
1WDW
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Structural basis of mutual activation of the tryptophan synthase a2b2 complex from a hyperthermophile, Pyrococcus furiosus
分子名称: PYRIDOXAL-5'-PHOSPHATE, Tryptophan synthase alpha chain, Tryptophan synthase beta chain 1
著者Lee, S.J, Ogasahara, K, Ma, J, Nishio, K, Ishida, M, Yamagata, Y, Tsukihara, T, Yutani, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
登録日2004-05-19
公開日2005-07-12
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (3 Å)
主引用文献Conformational Changes in the Tryptophan Synthase from a Hyperthermophile upon alpha(2)beta(2) Complex Formation: Crystal Structure of the Complex
Biochemistry, 44, 2005
1WSF
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Co-crystal structure of E.coli RNase HI active site mutant (D134A*) with Mn2+
分子名称: MANGANESE (II) ION, Ribonuclease HI
著者Tsunaka, Y, Takano, K, Matsumura, H, Yamagata, Y, Kanaya, S.
登録日2004-11-05
公開日2005-02-08
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Identification of Single Mn(2+) Binding Sites Required for Activation of the Mutant Proteins of E.coli RNase HI at Glu48 and/or Asp134 by X-ray Crystallography
J.Mol.Biol., 345, 2005
1WSE
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Co-crystal structure of E.coli RNase HI active site mutant (E48A*) with Mn2+
分子名称: MANGANESE (II) ION, Ribonuclease HI
著者Tsunaka, Y, Takano, K, Matsumura, H, Yamagata, Y, Kanaya, S.
登録日2004-11-05
公開日2005-02-08
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Identification of Single Mn(2+) Binding Sites Required for Activation of the Mutant Proteins of E.coli RNase HI at Glu48 and/or Asp134 by X-ray Crystallography
J.Mol.Biol., 345, 2005
1WSG
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Co-crystal structure of E.coli RNase HI active site mutant (E48A/D134N*) with Mn2+
分子名称: MANGANESE (II) ION, Ribonuclease HI
著者Tsunaka, Y, Takano, K, Matsumura, H, Yamagata, Y, Kanaya, S.
登録日2004-11-05
公開日2005-02-08
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Identification of Single Mn(2+) Binding Sites Required for Activation of the Mutant Proteins of E.coli RNase HI at Glu48 and/or Asp134 by X-ray Crystallography
J.Mol.Biol., 345, 2005
2Z3R
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BU of 2z3r by Molmil
Crystal structure of the IL-15/IL-15Ra complex
分子名称: GLYCEROL, Interleukin-15, Interleukin-15 receptor alpha chain
著者Chirifu, M, Yamagata, Y, Davis, S.J, Ikemizu, S.
登録日2007-06-05
公開日2007-09-04
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Crystal structure of the IL-15-IL-15Ralpha complex, a cytokine-receptor unit presented in trans
Nat.Immunol., 8, 2007
1WUP
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Crystal structure of metallo-beta-lactamase IMP-1 mutant (D81E)
分子名称: ACETIC ACID, Beta-lactamase IMP-1, ZINC ION
著者Yamaguchi, Y, Yamagata, Y, Goto, M.
登録日2004-12-08
公開日2005-03-29
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (3 Å)
主引用文献Probing the role of Asp-120(81) of metallo-beta-lactamase (IMP-1) by site-directed mutagenesis, kinetic studies, and X-ray crystallography.
J.Biol.Chem., 280, 2005
1WUO
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Crystal structure of metallo-beta-lactamase IMP-1 mutant (D81A)
分子名称: ACETIC ACID, Beta-lactamase IMP-1, ZINC ION
著者Yamaguchi, Y, Yamagata, Y, Goto, M.
登録日2004-12-08
公開日2005-03-29
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (2.01 Å)
主引用文献Probing the role of Asp-120(81) of metallo-beta-lactamase (IMP-1) by site-directed mutagenesis, kinetic studies, and X-ray crystallography.
J.Biol.Chem., 280, 2005
2DOO
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The structure of IMP-1 complexed with the detecting reagent (DansylC4SH) by a fluorescent probe
分子名称: BETA-LACTAMASE IMP-1, N-[4-({[5-(DIMETHYLAMINO)-1-NAPHTHYL]SULFONYL}AMINO)BUTYL]-3-SULFANYLPROPANAMIDE, ZINC ION
著者Kurosaki, H, Yamaguchi, Y, Yasuzawa, H, Jin, W, Yamagata, Y, Arakawa, Y.
登録日2006-05-01
公開日2006-11-28
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.43 Å)
主引用文献Probing, inhibition, and crystallographic characterization of metallo-beta-lactamase (IMP-1) with fluorescent agents containing dansyl and thiol groups
Chemmedchem, 1, 2006
3A6V
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Crystal structure of the MutT protein in MN(II) bound holo form
分子名称: L(+)-TARTARIC ACID, MANGANESE (II) ION, Mutator mutT protein, ...
著者Nakamura, T, Yamagata, Y.
登録日2009-09-09
公開日2009-10-27
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Structural and dynamic features of the MutT protein in the recognition of nucleotides with the mutagenic 8-oxoguanine base
J.Biol.Chem., 285, 2010
3A6T
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Crystal structure of MutT-8-OXO-DGMP complex
分子名称: 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE, Mutator mutT protein, SODIUM ION, ...
著者Nakamura, T, Yamagata, Y.
登録日2009-09-09
公開日2009-10-27
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (1.96 Å)
主引用文献Structural and dynamic features of the MutT protein in the recognition of nucleotides with the mutagenic 8-oxoguanine base
J.Biol.Chem., 285, 2010
3A6S
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Crystal structure of the MutT protein
分子名称: L(+)-TARTARIC ACID, Mutator mutT protein, SODIUM ION
著者Nakamura, T, Yamagata, Y.
登録日2009-09-09
公開日2009-10-27
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Structural and dynamic features of the MutT protein in the recognition of nucleotides with the mutagenic 8-oxoguanine base
J.Biol.Chem., 285, 2010
3AC9
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Crystal structure of human NUDT5 complexed with 8-oxo-dGDP and manganese
分子名称: 2'-deoxy-8-oxoguanosine 5'-(trihydrogen diphosphate), ADP-sugar pyrophosphatase, MANGANESE (II) ION
著者Arimori, T, Yamagata, Y.
登録日2009-12-30
公開日2011-01-12
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Diverse substrate recognition and hydrolysis mechanisms of human NUDT5
Nucleic Acids Res., 39, 2011
3ACA
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Crystal structure of human NUDT5 complexed with 8-oxo-dADP and manganese
分子名称: 8-oxo-7,8-dihydro-2'-deoxy-adenosine-5'-diphosphate, ADP-sugar pyrophosphatase, MANGANESE (II) ION
著者Arimori, T, Yamagata, Y.
登録日2009-12-30
公開日2011-01-12
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.05 Å)
主引用文献Diverse substrate recognition and hydrolysis mechanisms of human NUDT5
Nucleic Acids Res., 39, 2011
3A6U
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Crystal structure of MutT-8-OXO-dGMP-MN(II) complex
分子名称: 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE, MANGANESE (II) ION, Mutator mutT protein, ...
著者Nakamura, T, Yamagata, Y.
登録日2009-09-09
公開日2009-10-27
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.56 Å)
主引用文献Structural and dynamic features of the MutT protein in the recognition of nucleotides with the mutagenic 8-oxoguanine base
J.Biol.Chem., 285, 2010
2E7A
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TNF Receptor Subtype One-selective TNF Mutant with Antagonistic Activity
分子名称: Tumor necrosis factor
著者Mukai, Y, Yamagata, Y, Tsutsumi, Y.
登録日2007-01-09
公開日2007-11-13
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Creation and X-ray structure analysis of the tumor necrosis factor receptor-1-selective mutant of a tumor necrosis factor-alpha antagonist
J.Biol.Chem., 283, 2008
3A4F
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Crystal Structure of Human Transthyretin (E54K)
分子名称: GLYCEROL, SULFATE ION, Transthyretin
著者Miyata, M, Sato, T, Nakamura, T, Ikemizu, S, Yamagata, Y, Kai, H.
登録日2009-07-06
公開日2009-12-22
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (1.99 Å)
主引用文献Role of the glutamic acid 54 residue in transthyretin stability and thyroxine binding
Biochemistry, 49, 2010

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件を2024-10-30に公開中

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