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PDB: 117 件

3ABO
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BU of 3abo by Molmil
Crystal structure of ethanolamine ammonia-lyase from Escherichia coli complexed with CN-Cbl and ethanolamine
分子名称: COBALAMIN, ETHANOLAMINE, Ethanolamine ammonia-lyase heavy chain, ...
著者Shibata, N.
登録日2009-12-21
公開日2010-06-02
最終更新日2023-11-15
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal structures of ethanolamine ammonia-lyase complexed with coenzyme B12 analogs and substrates.
J.Biol.Chem., 285, 2010
3ABS
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BU of 3abs by Molmil
Crystal structure of ethanolamine ammonia-lyase from Escherichia coli complexed with adeninylpentylcobalamin and ethanolamine
分子名称: CO-(ADENIN-9-YL-PENTYL)-COBALAMIN, ETHANOLAMINE, Ethanolamine ammonia-lyase heavy chain, ...
著者Shibata, N.
登録日2009-12-21
公開日2010-06-02
最終更新日2023-11-15
実験手法X-RAY DIFFRACTION (2.25 Å)
主引用文献Crystal structures of ethanolamine ammonia-lyase complexed with coenzyme B12 analogs and substrates.
J.Biol.Chem., 285, 2010
5YRV
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BU of 5yrv by Molmil
Diol dehydratase, AdoCbl/1,2-propanediol, anaerobically-prepared crystal
分子名称: 5'-DEOXYADENOSINE, CALCIUM ION, CHLORIDE ION, ...
著者Shibata, N.
登録日2017-11-10
公開日2018-09-19
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (1.55 Å)
主引用文献Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YSR
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BU of 5ysr by Molmil
Ethanolamine ammonia-lyase, AdoCbl/2-amino-1-propanol
分子名称: 5'-DEOXYADENOSINE, COBALAMIN, Ethanolamine ammonia-lyase heavy chain, ...
著者Shibata, N.
登録日2017-11-14
公開日2018-09-19
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (2.05 Å)
主引用文献Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YRT
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BU of 5yrt by Molmil
Diol dehydratase, AdoCbl/substrate-free, anaerobically-prepared crystal
分子名称: 5'-DEOXYADENOSINE, CALCIUM ION, CHLORIDE ION, ...
著者Shibata, N.
登録日2017-11-10
公開日2018-09-19
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YSN
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BU of 5ysn by Molmil
Ethanolamine ammonia-lyase, AdoCbl/substrate-free
分子名称: 5'-DEOXYADENOSINE, COBALAMIN, Ethanolamine ammonia-lyase heavy chain, ...
著者Shibata, N.
登録日2017-11-14
公開日2018-09-19
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (2.001 Å)
主引用文献Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YSH
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BU of 5ysh by Molmil
Diol dehydratase - alpha/T172A mutant complexed with AdoCbl, aerobically-prepared crystal
分子名称: 5'-DEOXYADENOSINE, CALCIUM ION, COBALAMIN, ...
著者Shibata, N.
登録日2017-11-14
公開日2018-09-19
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
3A20
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BU of 3a20 by Molmil
L122K 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2009-04-27
公開日2009-05-19
最終更新日2023-11-01
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
3A2Q
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BU of 3a2q by Molmil
Structure of 6-aminohexanoate cyclic dimer hydrolase complexed with substrate
分子名称: 6-AMINOHEXANOIC ACID, 6-aminohexanoate-cyclic-dimer hydrolase, GLYCEROL
著者Shibata, N.
登録日2009-05-26
公開日2009-11-03
最終更新日2023-11-15
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献X-ray crystallographic analysis of the 6-aminohexanoate cyclic dimer hydrolase: catalytic mechanism and evolution of an enzyme responsible for nylon-6 byproduct degradation
J.Biol.Chem., 285, 2010
3AO0
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BU of 3ao0 by Molmil
Crystal structure of ethanolamine ammonia-lyase from Escherichia coli complexed with CN-CBL and (S)-2-amino-1-propanol
分子名称: (2S)-2-aminopropan-1-ol, COBALAMIN, Ethanolamine ammonia-lyase heavy chain, ...
著者Shibata, N.
登録日2010-09-16
公開日2011-08-03
最終更新日2023-11-15
実験手法X-RAY DIFFRACTION (2.25 Å)
主引用文献How coenzyme B12-dependent ethanolamine ammonia-lyase deals with both enantiomers of 2-amino-1-propanol as substrates: structure-based rationalization.
Biochemistry, 50, 2011
3A2P
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BU of 3a2p by Molmil
Structure of 6-aminohexanoate cyclic dimer hydrolase
分子名称: 6-aminohexanoate-cyclic-dimer hydrolase, GLYCEROL
著者Shibata, N.
登録日2009-05-26
公開日2009-11-03
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献X-ray crystallographic analysis of the 6-aminohexanoate cyclic dimer hydrolase: catalytic mechanism and evolution of an enzyme responsible for nylon-6 byproduct degradation
J.Biol.Chem., 285, 2010
3ANY
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BU of 3any by Molmil
Crystal structure of ethanolamine ammonia-lyase from escherichia coli complexed with CN-CBL and (R)-2-amino-1-propanol
分子名称: (2R)-2-aminopropan-1-ol, COBALAMIN, Ethanolamine ammonia-lyase heavy chain, ...
著者Shibata, N.
登録日2010-09-16
公開日2011-08-03
最終更新日2023-11-01
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献How coenzyme B12-dependent ethanolamine ammonia-lyase deals with both enantiomers of 2-amino-1-propanol as substrates: structure-based rationalization.
Biochemistry, 50, 2011
1EGV
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BU of 1egv by Molmil
CRYSTAL STRUCTURE OF THE DIOL DEHYDRATASE-ADENINYLPENTYLCOBALAMIN COMPLEX FROM KLEBSELLA OXYTOCA UNDER THE ILLUMINATED CONDITION.
分子名称: CO-(ADENIN-9-YL-PENTYL)-COBALAMIN, POTASSIUM ION, PROPANEDIOL DEHYDRATASE, ...
著者Masuda, J, Shibata, N, Toraya, T, Morimoto, Y, Yasuoka, N.
登録日2000-02-17
公開日2001-02-21
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.75 Å)
主引用文献How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex.
Structure Fold.Des., 8, 2000
1EGM
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BU of 1egm by Molmil
CRYSTAL STRUCTURE OF DIOL DEHYDRATASE-CYANOCOBALAMIN COMPLEX AT 100K.
分子名称: CYANOCOBALAMIN, POTASSIUM ION, PROPANEDIOL DEHYDRATASE, ...
著者Masuda, J, Shibata, N, Toraya, T, Morimoto, Y, Yasuoka, N.
登録日2000-02-15
公開日2000-09-20
最終更新日2024-02-07
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex.
Structure Fold.Des., 8, 2000
4UBQ
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BU of 4ubq by Molmil
Crystal Structure of IMP-2 Metallo-beta-Lactamase from Acinetobacter spp.
分子名称: ACETATE ION, Beta-lactamase, ZINC ION
著者Yamaguchi, Y, Matsueda, S, Matsunaga, K, Takashio, N, Toma-Fukai, S, Yamagata, Y, Shibata, N, Wachino, J, Shibayama, K, Arakawa, Y, Kurosaki, H.
登録日2014-08-13
公開日2014-12-24
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Crystal structure of IMP-2 metallo-beta-lactamase from Acinetobacter spp.: comparison of active-site loop structures between IMP-1 and IMP-2.
Biol.Pharm.Bull., 38, 2015
3VWL
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BU of 3vwl by Molmil
Crystal structure of 6-aminohexanoate-dimer hydrolase G181D/R187S/H266N/D370Y mutant
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-aminohexanoate-dimer hydrolase, GLYCEROL, ...
著者Kawashima, Y, Shibata, N, Negoro, S, Higuchi, Y.
登録日2012-08-30
公開日2013-10-16
最終更新日2024-03-20
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction
To be Published
3VWR
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BU of 3vwr by Molmil
Crystal structure of 6-aminohexanoate-dimer hydrolase S112A/G181D/R187G/H266N/D370Y mutant complexd with 6-aminohexanoate
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-AMINOHEXANOIC ACID, 6-aminohexanoate-dimer hydrolase, ...
著者Kawashima, Y, Shibata, N, Negoro, S, Higuchi, Y.
登録日2012-08-30
公開日2013-10-16
最終更新日2023-11-15
実験手法X-RAY DIFFRACTION (1.65 Å)
主引用文献Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction
To be Published
3VWM
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BU of 3vwm by Molmil
Crystal structure of 6-aminohexanoate-dimer hydrolase G181D/R187A/H266N/D370Y mutant
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 6-aminohexanoate-dimer hydrolase, GLYCEROL, ...
著者Kawashima, Y, Shibata, N, Negoro, S, Higuchi, Y.
登録日2012-08-30
公開日2013-10-16
最終更新日2024-03-20
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction
To be Published
1FLM
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BU of 1flm by Molmil
DIMER OF FMN-BINDING PROTEIN FROM DESULFOVIBRIO VULGARIS (MIYAZAKI F)
分子名称: FLAVIN MONONUCLEOTIDE, PROTEIN (FMN-BINDING PROTEIN)
著者Suto, K, Kawagoe, K, Shibata, N, Morimoto, K, Higuchi, Y, Kitamura, M, Nakaya, T, Yasuoka, N.
登録日1999-03-10
公開日2000-03-06
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (1.3 Å)
主引用文献How do the x-ray structure and the NMR structure of FMN-binding protein differ?
Acta Crystallogr.,Sect.D, 56, 2000
1QVC
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BU of 1qvc by Molmil
CRYSTAL STRUCTURE ANALYSIS OF SINGLE STRANDED DNA BINDING PROTEIN (SSB) FROM E.COLI
分子名称: SINGLE STRANDED DNA BINDING PROTEIN MONOMER
著者Matsumoto, T, Morimoto, Y, Shibata, N, Shimamoto, N, Tsukihara, T, Yasuoka, N.
登録日1999-07-07
公開日2000-06-05
最終更新日2024-02-14
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Roles of functional loops and the C-terminal segment of a single-stranded DNA binding protein elucidated by X-Ray structure analysis.
J.Biochem.(Tokyo), 127, 2000
7DGN
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BU of 7dgn by Molmil
The Co-bound dimeric structure of K79H/G80A/H81A myoglobin
分子名称: COBALT (II) ION, Myoglobin, OXYGEN ATOM, ...
著者Nagao, S, Idomoto, A, Shibata, N, Higuchi, Y, Hirota, S.
登録日2020-11-12
公開日2021-02-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.35 Å)
主引用文献Rational design of metal-binding sites in domain-swapped myoglobin dimers.
J.Inorg.Biochem., 217, 2021
7DGJ
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BU of 7dgj by Molmil
The dimeric structure of K78H/G80A/H82A myoglobin
分子名称: Myoglobin, OXYGEN ATOM, PROTOPORPHYRIN IX CONTAINING FE
著者Nagao, S, Idomoto, A, Shibata, N, Higuchi, Y, Hirota, S.
登録日2020-11-12
公開日2021-02-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Rational design of metal-binding sites in domain-swapped myoglobin dimers.
J.Inorg.Biochem., 217, 2021
7DGM
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BU of 7dgm by Molmil
The dimeric structure of K79H/G80A/H81A myoglobin
分子名称: Myoglobin, OXYGEN ATOM, PROTOPORPHYRIN IX CONTAINING FE
著者Nagao, S, Idomoto, A, Shibata, N, Higuchi, Y, Hirota, S.
登録日2020-11-12
公開日2021-02-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.62 Å)
主引用文献Rational design of metal-binding sites in domain-swapped myoglobin dimers.
J.Inorg.Biochem., 217, 2021
7DGL
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BU of 7dgl by Molmil
The Ni-bound dimeric structure of K78H/G80A/H82A myoglobin
分子名称: Myoglobin, NICKEL (II) ION, OXYGEN ATOM, ...
著者Nagao, S, Idomoto, A, Shibata, N, Higuchi, Y, Hirota, S.
登録日2020-11-12
公開日2021-02-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.91 Å)
主引用文献Rational design of metal-binding sites in domain-swapped myoglobin dimers.
J.Inorg.Biochem., 217, 2021
7DGO
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BU of 7dgo by Molmil
The Zn-bound dimeric structure of K79H/G80A/H81A myoglobin
分子名称: Myoglobin, OXYGEN ATOM, PROTOPORPHYRIN IX CONTAINING FE, ...
著者Nagao, S, Idomoto, A, Shibata, N, Higuchi, Y, Hirota, S.
登録日2020-11-12
公開日2021-02-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Rational design of metal-binding sites in domain-swapped myoglobin dimers.
J.Inorg.Biochem., 217, 2021

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