1EEX
 
 | | CRYSTAL STRUCTURE OF THE DIOL DEHYDRATASE-ADENINYLPENTYLCOBALAMIN COMPLEX FROM KLEBSIELLA OXYTOCA | | 分子名称: | CO-(ADENIN-9-YL-PENTYL)-COBALAMIN, POTASSIUM ION, PROPANEDIOL DEHYDRATASE, ... | | 著者 | Shibata, N, Masuda, J, Toraya, T, Morimoto, Y, Yasuoka, N. | | 登録日 | 2000-02-04 | | 公開日 | 2001-02-07 | | 最終更新日 | 2024-03-13 | | 実験手法 | X-RAY DIFFRACTION (1.7 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
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1IWB
 | | Crystal structure of diol dehydratase | | 分子名称: | COBALAMIN, DIOL DEHYDRATASE alpha chain, DIOL DEHYDRATASE beta chain, ... | | 著者 | Shibata, N, Masuda, J, Morimoto, Y, Yasuoka, N, Toraya, T. | | 登録日 | 2002-05-01 | | 公開日 | 2003-05-01 | | 最終更新日 | 2024-05-29 | | 実験手法 | X-RAY DIFFRACTION (1.85 Å) | | 主引用文献 | Substrate-induced conformational change of a coenzyme B12-dependent enzyme: crystal structure of the substrate-free form of diol dehydratase
Biochemistry, 41, 2002
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1A7V
 | | CYTOCHROME C' FROM RHODOPSEUDOMONAS PALUSTRIS | | 分子名称: | CYTOCHROME C', PROTOPORPHYRIN IX CONTAINING FE | | 著者 | Shibata, N, Iba, S, Misaki, S, Meyer, T.E, Bartsch, R.G, Cusanovich, M.A, Higuchi, Y, Yasuoka, N. | | 登録日 | 1998-03-18 | | 公開日 | 1998-06-17 | | 最終更新日 | 2023-08-02 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Basis for monomer stabilization in Rhodopseudomonas palustris cytochrome c' derived from the crystal structure.
J.Mol.Biol., 284, 1998
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1DIO
 | | DIOL DEHYDRATASE-CYANOCOBALAMIN COMPLEX FROM KLEBSIELLA OXYTOCA | | 分子名称: | COBALAMIN, POTASSIUM ION, PROTEIN (DIOL DEHYDRATASE), ... | | 著者 | Shibata, N, Masuda, J, Tobimatsu, T, Toraya, T, Suto, K, Morimoto, Y, Yasuoka, N. | | 登録日 | 1999-01-27 | | 公開日 | 2000-01-30 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | A new mode of B12 binding and the direct participation of a potassium ion in enzyme catalysis: X-ray structure of diol dehydratase.
Structure Fold.Des., 7, 1999
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1IUZ
 | | PLASTOCYANIN | | 分子名称: | COPPER (II) ION, PLASTOCYANIN, SULFATE ION | | 著者 | Shibata, N. | | 登録日 | 1996-10-06 | | 公開日 | 1997-08-20 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | | 主引用文献 | Novel insight into the copper-ligand geometry in the crystal structure of Ulva pertusa plastocyanin at 1.6-A resolution. Structural basis for regulation of the copper site by residue 88.
J.Biol.Chem., 274, 1999
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7XRN
 | | Ethanolamine ammonia-lyase complexed with AdoMeCbl in the presence of substrate | | 分子名称: | (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-ethyl-oxolane-3,4-diol, AMMONIUM ION, COBALAMIN, ... | | 著者 | Shibata, N, Toraya, T. | | 登録日 | 2022-05-10 | | 公開日 | 2023-03-29 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.07 Å) | | 主引用文献 | Structural Insights into the Very Low Activity of the Homocoenzyme B 12 Adenosylmethylcobalamin in Coenzyme B 12 -Dependent Diol Dehydratase and Ethanolamine Ammonia-Lyase.
Chemistry, 28, 2022
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7XRM
 | | Ethanolamine ammonia-lyase complexed with AdoMeCbl | | 分子名称: | (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-ethyl-oxolane-3,4-diol, AMMONIUM ION, COBALAMIN, ... | | 著者 | Shibata, N, Toraya, T. | | 登録日 | 2022-05-10 | | 公開日 | 2023-03-29 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.13 Å) | | 主引用文献 | Structural Insights into the Very Low Activity of the Homocoenzyme B 12 Adenosylmethylcobalamin in Coenzyme B 12 -Dependent Diol Dehydratase and Ethanolamine Ammonia-Lyase.
Chemistry, 28, 2022
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7XRK
 | | Diol dehydratase complexed with AdoMeCbl | | 分子名称: | (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-ethyl-oxolane-3,4-diol, CALCIUM ION, COBALAMIN, ... | | 著者 | Shibata, N, Toraya, T. | | 登録日 | 2022-05-10 | | 公開日 | 2023-03-29 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Structural Insights into the Very Low Activity of the Homocoenzyme B 12 Adenosylmethylcobalamin in Coenzyme B 12 -Dependent Diol Dehydratase and Ethanolamine Ammonia-Lyase.
Chemistry, 28, 2022
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7XRL
 | | Diol dehydratase complexed with AdoMeCbl and 1,2-propanediol | | 分子名称: | (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-ethyl-oxolane-3,4-diol, AMMONIUM ION, CALCIUM ION, ... | | 著者 | Shibata, N, Toraya, T. | | 登録日 | 2022-05-10 | | 公開日 | 2023-03-29 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.75 Å) | | 主引用文献 | Structural Insights into the Very Low Activity of the Homocoenzyme B 12 Adenosylmethylcobalamin in Coenzyme B 12 -Dependent Diol Dehydratase and Ethanolamine Ammonia-Lyase.
Chemistry, 28, 2022
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1WLK
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1WLI
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1UC4
 | | Structure of diol dehydratase complexed with (S)-1,2-propanediol | | 分子名称: | AMMONIUM ION, CYANOCOBALAMIN, POTASSIUM ION, ... | | 著者 | Shibata, N, Nakanishi, Y, Fukuoka, M, Yamanishi, M, Yasuoka, N, Toraya, T. | | 登録日 | 2003-04-08 | | 公開日 | 2003-07-22 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Structural rationalization for the lack of stereospecificity in coenzyme B12-dependent diol dehydratase
J.BIOL.CHEM., 278, 2003
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1UC5
 | | Structure of diol dehydratase complexed with (R)-1,2-propanediol | | 分子名称: | AMMONIUM ION, CYANOCOBALAMIN, POTASSIUM ION, ... | | 著者 | Shibata, N, Nakanishi, Y, Fukuoka, M, Yamanishi, M, Yasuoka, N, Toraya, T. | | 登録日 | 2003-04-08 | | 公開日 | 2003-07-22 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Structural rationalization for the lack of stereospecificity in coenzyme B12-dependent diol dehydratase
J.Biol.Chem., 278, 2003
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1WSP
 | | 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
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2D0O
 | | Structure of diol dehydratase-reactivating factor complexed with ADP and Mg2+ | | 分子名称: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, SULFATE ION, ... | | 著者 | Shibata, N, Mori, K, Hieda, N, Higuchi, Y, Yamanishi, M, Toraya, T. | | 登録日 | 2005-08-05 | | 公開日 | 2006-02-28 | | 最終更新日 | 2024-03-13 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Release of a damaged cofactor from a coenzyme B12-dependent enzyme: X-ray structures of diol dehydratase-reactivating factor
Structure, 13, 2005
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2D0P
 | | Structure of diol dehydratase-reactivating factor in nucleotide free form | | 分子名称: | CALCIUM ION, SULFATE ION, diol dehydratase-reactivating factor large subunit, ... | | 著者 | Shibata, N, Mori, K, Hieda, N, Higuchi, Y, Yamanishi, M, Toraya, T. | | 登録日 | 2005-08-05 | | 公開日 | 2006-02-28 | | 最終更新日 | 2024-03-13 | | 実験手法 | X-RAY DIFFRACTION (3 Å) | | 主引用文献 | Release of a damaged cofactor from a coenzyme B12-dependent enzyme: X-ray structures of diol dehydratase-reactivating factor
Structure, 13, 2005
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2E84
 | | 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
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6IQX
 | | 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 | 2023-11-22 | | 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
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6IQZ
 | | 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 | 2023-11-22 | | 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
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6IQY
 | | 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 | 2023-11-22 | | 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
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2D5G
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2E8I
 | | 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
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2E83
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3ABQ
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3ABR
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