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PDB: 201 件
4ZID
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BU of 4zid by Molmil
Dimeric Hydrogenobacter thermophilus cytochrome c552 obtained from Escherichia coli
分子名称: Cytochrome c-552, HEME C
著者Hayashi, Y, Yamanaka, M, Nagao, S, Komori, H, Higuchi, Y, Hirota, S.
登録日2015-04-28
公開日2016-02-10
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Domain swapping oligomerization of thermostable c-type cytochrome in E. coli cells
Sci Rep, 6, 2016
5AWI
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BU of 5awi by Molmil
Domain-swapped cytochrome cb562 dimer
分子名称: HEME C, SULFATE ION, Soluble cytochrome b562, ...
著者Miyamoto, T, Kuribayashi, M, Nagao, S, Shomura, Y, Higuchi, Y, Hirota, S.
登録日2015-07-03
公開日2015-10-21
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献Domain-swapped cytochrome cb562 dimer and its nanocage encapsulating a Zn-SO4 cluster in the internal cavity
Chem Sci, 2015
5AUR
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BU of 5aur by Molmil
Hydrogenobacter thermophilus cytochrome c552 dimer formed by domain swapping at N-terminal region
分子名称: Cytochrome c-552, HEME C, IODIDE ION
著者Ren, C, Nagao, S, Yamanaka, M, Kamikubo, H, Komori, H, Shomura, Y, Higuchi, Y, Hirota, S.
登録日2015-06-08
公開日2015-10-21
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.26 Å)
主引用文献Oligomerization enhancement and two domain swapping mode detection for thermostable cytochrome c552via the elongation of the major hinge loop.
Mol Biosyst, 11, 2015
5AUS
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BU of 5aus by Molmil
Hydrogenobacter thermophilus cytochrome c552 dimer formed by domain swapping at C-terminal region
分子名称: Cytochrome c-552, HEME C
著者Ren, C, Nagao, S, Yamanaka, M, Komori, H, Shomura, Y, Higuchi, Y, Hirota, S.
登録日2015-06-08
公開日2015-10-21
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (1.3 Å)
主引用文献Oligomerization enhancement and two domain swapping mode detection for thermostable cytochrome c552via the elongation of the major hinge loop.
Mol Biosyst, 11, 2015
5AX7
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BU of 5ax7 by Molmil
yeast pyruvyltransferase Pvg1p
分子名称: Pyruvyl transferase 1, ZINC ION
著者Kanekiyo, M, Yoritsune, K, Yoshinaga, S, Higuchi, Y, Takegawa, K, Kakuta, Y.
登録日2015-07-16
公開日2016-06-08
最終更新日2020-02-26
実験手法X-RAY DIFFRACTION (2.46 Å)
主引用文献A rationally engineered yeast pyruvyltransferase Pvg1p introduces sialylation-like properties in neo-human-type complex oligosaccharide
Sci Rep, 6, 2016
1UBM
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BU of 1ubm by Molmil
Three-dimensional Structure of The Carbon Monoxide Complex of [NiFe]hydrogenase From Desulufovibrio vulgaris Miyazaki F
分子名称: (4S)-2-METHYL-2,4-PENTANEDIOL, (MU-SULPHIDO)-BIS(MU-CYS,S)-[TRICARBONYLIRON-DI-(CYS,S)NICKEL(II)](FE-NI), FE3-S4 CLUSTER, ...
著者Ogata, H, Mizoguchi, Y, Mizuno, N, Miki, K, Adachi, S, Yasuoka, N, Yagi, T, Yamauchi, O, Hirota, S, Higuchi, Y.
登録日2003-04-04
公開日2003-04-29
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.4 Å)
主引用文献Structural Studies of the Carbon Monoxide Complex of [NiFe]hydrogenase from Desulfovibrio vulgaris Miyazaki F: Suggestion for the Initial Activation Site for Dihydrogen
J.Am.Chem.Soc., 124, 2002
6IQZ
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High resolution structure of bilirubin oxidase from Myrothecium verrucaria - wild type
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Bilirubin oxidase, COPPER (II) ION, ...
著者Shibata, N, Akter, M, Higuchi, Y.
登録日2018-11-09
公開日2018-11-21
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (1.46 Å)
主引用文献Redox Potential-Dependent Formation of an Unusual His-Trp Bond in Bilirubin Oxidase.
Chemistry, 24, 2018
1WQ2
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BU of 1wq2 by Molmil
Neutron Crystal Structure Of Dissimilatory Sulfite Reductase D (DsrD)
分子名称: Protein dsvD, SULFATE ION
著者Chatake, T, Mizuno, N, Voordouw, G, Higuchi, Y, Arai, S, Tanaka, I, Niimura, N.
登録日2004-09-19
公開日2005-09-19
最終更新日2023-10-25
実験手法NEUTRON DIFFRACTION (2.4 Å)
主引用文献Crystallization and preliminary neutron analysis of the dissimilatory sulfite reductase D (DsrD) protein from the sulfate-reducing bacterium Desulfovibrio vulgaris.
Acta Crystallogr.,Sect.D, 59, 2003
6IQY
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High resolution structure of bilirubin oxidase from Myrothecium verrucaria - M467Q mutant, anaerobically prepared
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, Bilirubin oxidase, ...
著者Shibata, N, Akter, M, Higuchi, Y.
登録日2018-11-09
公開日2018-11-21
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Redox Potential-Dependent Formation of an Unusual His-Trp Bond in Bilirubin Oxidase.
Chemistry, 24, 2018
1WR5
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Three dimensional Structure of the E41K mutant of Tetraheme Cytochrome c3 from Desulfovibrio vulgaris Miyazaki F
分子名称: Cytochrome c3, ETHANOL, HEME C
著者Tomimoto, Y, Ogata, H, Higuchi, Y.
登録日2004-10-11
公開日2004-10-26
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.4 Å)
主引用文献Role of the aromatic ring of Tyr43 in tetraheme cytochrome c(3) from Desulfovibrio vulgaris Miyazaki F.
Biophys.J., 85, 2003
6IQX
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BU of 6iqx by Molmil
High resolution structure of bilirubin oxidase from Myrothecium verrucaria - M467Q mutant, aerobically prepared
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, Bilirubin oxidase, ...
著者Shibata, N, Akter, M, Higuchi, Y.
登録日2018-11-09
公開日2018-11-21
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (1.432 Å)
主引用文献Redox Potential-Dependent Formation of an Unusual His-Trp Bond in Bilirubin Oxidase.
Chemistry, 24, 2018
2E8I
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BU of 2e8i by Molmil
Structure of 6-aminohexanoate-dimer hydrolase, D1 mutant
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-aminohexanoate-dimer hydrolase, GLYCEROL, ...
著者Shibata, N, Higuchi, Y, Negoro, S.
登録日2007-01-20
公開日2008-01-15
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.45 Å)
主引用文献Molecular design of a nylon-6 byproduct-degrading enzyme from a carboxylesterase with a beta-lactamase fold.
Febs J., 276, 2009
1WVW
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BU of 1wvw by Molmil
Crystal structures of kinase domain of DAP kinase in complex with small molecular inhibitors
分子名称: Death-associated protein kinase 1
著者Ueda, Y, Ogata, H, Yamakawa, A, Higuchi, Y.
登録日2004-12-27
公開日2006-04-11
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (2.4 Å)
主引用文献Crystal structure of kinase domain of DAP kinase
To be Published
2CVC
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BU of 2cvc by Molmil
Crystal structure of High-Molecular Weight Cytochrome c from Desulfovibrio vulgaris (Hildenborough)
分子名称: HEME C, High-molecular-weight cytochrome c precursor
著者Suto, K, Sato, M, Shibata, N, Kitamura, M, Morimoto, Y, Takayama, Y, Ozawa, K, Akutsu, H, Higuchi, Y, Yasuoka, N.
登録日2005-06-02
公開日2006-06-06
最終更新日2019-10-02
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Structure of High-Molecular Weight Cytochrome c
To be Published
1WUZ
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BU of 1wuz by Molmil
Structure of EC1 domain of CNR
分子名称: Pcdha4 protein
著者Morishita, H, Umitsu, M, Yamaguchi, T, Murata, Y, Shibata, N, Udaka, K, Higuchi, Y, Akutsu, H, Yagi, T, Ikegami, T.
登録日2004-12-09
公開日2005-12-13
最終更新日2024-10-09
実験手法SOLUTION NMR
主引用文献Structural diversity of the first cadherin domains revealed by the structure of CNR/Protocadherin alpha
To be Published
1WSP
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BU of 1wsp by Molmil
Crystal structure of axin dix domain
分子名称: Axin 1 protein, BENZOIC ACID, MERCURY (II) ION
著者Shibata, N, Hanamura, T, Yamamoto, R, Ueda, Y, Yamamoto, H, Kikuchi, A, Higuchi, Y.
登録日2004-11-08
公開日2006-02-14
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.9 Å)
主引用文献Crystal structure of axin dix domain
to be published
1WYB
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BU of 1wyb by Molmil
Structure of 6-aminohexanoate-dimer hydrolase
分子名称: 6-aminohexanoate-dimer hydrolase
著者Negoro, S, Ohki, T, Shibata, N, Mizuno, N, Wakitani, Y, Tsurukame, J, Matsumoto, K, Kawamoto, I, Takeo, M, Higuchi, Y.
登録日2005-02-09
公開日2005-09-20
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Structure of 6-aminohexanoate-dimer hydrolase
To be Published
1WVX
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BU of 1wvx by Molmil
Crystal structures of kinase domain of DAP kinase in complex with small molecular inhibitors
分子名称: 6-(3-AMINOPROPYL)-4,9-DIMETHYLPYRROLO[3,4-C]CARBAZOLE-1,3(2H,6H)-DIONE, Death-associated protein kinase 1
著者Ueda, Y, Ogata, H, Yamakawa, A, Higuchi, Y.
登録日2004-12-27
公開日2006-04-11
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.6 Å)
主引用文献Complex structure of kinase domain of DAP kinase with BDB402
To be Published
1WVY
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Crystal structures of kinase domain of DAP kinase in complex with small molecular inhibitors
分子名称: Death-associated protein kinase 1, STAUROSPORINE
著者Ueda, Y, Ogata, H, Yamakawa, A, Higuchi, Y.
登録日2004-12-27
公開日2006-04-11
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.8 Å)
主引用文献Complex structure of kinase domain of DAP kinase with Staurosporine
To be Published
1WLK
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L122E mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
分子名称: FLAVIN MONONUCLEOTIDE, FMN-binding protein
著者Shibata, N, Higuchi, Y.
登録日2004-06-28
公開日2005-07-19
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Determination of the role of the Carboxyl-terminal leucine-122 in FMN-binding protein by mutational and structural analysis.
J.Biochem., 141, 2007
1WLI
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L122Y mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
分子名称: FLAVIN MONONUCLEOTIDE, FMN-binding protein
著者Shibata, N, Higuchi, Y.
登録日2004-06-28
公開日2005-07-19
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Determination of the role of the Carboxyl-terminal leucine-122 in FMN-binding protein by mutational and structural analysis.
J.Biochem., 141, 2007
2D5M
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Flavoredoxin of Desulfovibrio vulgaris (Miyazaki F)
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, FLAVIN MONONUCLEOTIDE, ZINC ION, ...
著者Ueda, Y, Shibata, N, Higuchi, Y.
登録日2005-11-02
公開日2006-11-21
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.05 Å)
主引用文献Flavoredoxin of Desulfovibrio vulgaris (Miyazaki F)
To be Published
1WYC
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Structure of 6-aminohexanoate-dimer hydrolase, DN mutant
分子名称: 6-aminohexanoate-dimer hydrolase
著者Negoro, S, Ohki, T, Shibata, N, Mizuno, N, Wakitani, Y, Tsurukame, J, Matsumoto, K, Kawamoto, I, Takeo, M, Higuchi, Y.
登録日2005-02-09
公開日2006-02-21
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (1.58 Å)
主引用文献Nylon-oligomer degrading enzyme/substrate complex: catalytic mechanism of 6-aminohexanoate-dimer hydrolase
J.Mol.Biol., 370, 2007
2E84
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Crystal structure of High-Molecular Weight Cytochrome c from Desulfovibrio vulgaris (Miyazaki F) in the presence of zinc ion
分子名称: High-molecular-weight cytochrome c, PROTOPORPHYRIN IX CONTAINING FE, SODIUM ION, ...
著者Shibata, N, Suto, K, Sato, M, Morimoto, Y, Kitamura, M, Higuchi, Y.
登録日2007-01-17
公開日2008-01-15
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.7 Å)
主引用文献Structure of High-Molecular Weight Cytochrome c from Desulfovibrio vulgaris (Miyazaki F)
To be Published
2CYM
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EFFECTS OF AMINO ACID SUBSTITUTION ON THREE-DIMENSIONAL STRUCTURE: AN X-RAY ANALYSIS OF CYTOCHROME C3 FROM DESULFOVIBRIO VULGARIS HILDENBOROUGH AT 2 ANGSTROMS RESOLUTION
分子名称: CYTOCHROME C3, PROTOPORPHYRIN IX CONTAINING FE
著者Morimoto, Y, Tani, T, Okumura, H, Higuchi, Y, Yasuoka, N.
登録日1993-09-29
公開日1994-04-30
最終更新日2024-02-14
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Effects of amino acid substitution on three-dimensional structure: an X-ray analysis of cytochrome c3 from Desulfovibrio vulgaris Hildenborough at 2 A resolution.
J.Biochem.(Tokyo), 110, 1991

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