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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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 | 2023-05-31 | 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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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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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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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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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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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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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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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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3ABQ
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3ABR
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3ABO
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3ABS
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2D5G
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2E83
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5YRV
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5YSR
| 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
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5YRT
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5YSN
| 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
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5YSH
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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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3ANY
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