1IZL
| Crystal Structure of Photosystem II | 分子名称: | 2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-2-METHYL-SUCCINIC ACID, BETA-CAROTENE, CHLOROPHYLL A, ... | 著者 | Kamiya, N, Shen, J.-R. | 登録日 | 2002-10-04 | 公開日 | 2003-01-14 | 最終更新日 | 2023-12-27 | 実験手法 | X-RAY DIFFRACTION (3.7 Å) | 主引用文献 | Crystal structure of oxygen-evolving photosystem II from Thermosynechococcus vulcanus at 3.7-A resolution Proc.Natl.Acad.Sci.USA, 100, 2003
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2EIH
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2EHD
| Crystal Structure Analysis of Oxidoreductase | 分子名称: | COBALT (II) ION, Oxidoreductase, short-chain dehydrogenase/reductase family | 著者 | Kamiya, N, Hikima, T, Ebihara, A, Inoue, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2007-03-06 | 公開日 | 2008-03-11 | 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 analysis of putative oxidoreductase from Thermus thermophilus HB8 to be published
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1WVP
| Structure of chemically modified myoglobin with distal N-tetrazolyl-histidine E7(64) | 分子名称: | Myoglobin, PROTOPORPHYRIN IX CONTAINING FE, SULFATE ION | 著者 | Makino, M, Sugimoto, H, Kamiya, N, Shiro, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2004-12-23 | 公開日 | 2005-01-18 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (1.53 Å) | 主引用文献 | Heme environmental structure of a novel artificial myoglobin with a closed heme pocket: site-specific chemical modification producing distal N-tetrazolylhistidine E7 by cyanogen bromide and azide ion J.Am.Chem.Soc., 113, 1991
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8IBL
| MES bound form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H and S176A inactivation | 分子名称: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Alpha/beta hydrolase family protein, CALCIUM ION, ... | 著者 | Emori, M, Numoto, N, Kamiya, N, Oda, M. | 登録日 | 2023-02-10 | 公開日 | 2023-03-15 | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | 主引用文献 | Improvement of thermostability and activity of PET-degrading enzyme Cut190 towards a detailed understanding and application of the enzymatic reaction mechanism. Biorxiv, 2023
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8IBM
| Sulfate bound form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H and S176A inactivation | 分子名称: | Alpha/beta hydrolase family protein, CALCIUM ION, SULFATE ION | 著者 | Emori, M, Numoto, N, Kamiya, N, Oda, M. | 登録日 | 2023-02-10 | 公開日 | 2023-03-15 | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | 主引用文献 | Improvement of thermostability and activity of PET-degrading enzyme Cut190 towards a detailed understanding and application of the enzymatic reaction mechanism. Biorxiv, 2023
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4TWZ
| Crystal Structure Analysis of E Coli. RecA Protein | 分子名称: | MAGNESIUM ION, Protein RecA | 著者 | Hikima, T, Hiraki, T, Furuse, M, Ikawa, S, Iwasaki, W, Shibata, T, Kamiya, N. | 登録日 | 2014-07-02 | 公開日 | 2015-07-08 | 最終更新日 | 2024-03-20 | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | 主引用文献 | Loop L1 governs the DNA-binding specificity and order for RecA-catalyzed reactions in homologous recombination and DNA repair Nucleic Acids Res., 43, 2015
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1WYT
| Crystal structure of glycine decarboxylase (P-protein) of the glycine cleavage system, in apo form | 分子名称: | glycine dehydrogenase (decarboxylating) subunit 1, glycine dehydrogenase subunit 2 (P-protein) | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2005-02-17 | 公開日 | 2005-04-05 | 最終更新日 | 2024-04-03 | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | 主引用文献 | Structure of P-protein of the glycine cleavage system: implications for nonketotic hyperglycinemia Embo J., 24, 2005
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8ISN
| HLA-A24 in complex with modified 9mer WT1 peptide | 分子名称: | Beta-2-microglobulin, CYS-TYR-THR-TRP-ASN-GLN-MET-ASN-LEU, GLYCEROL, ... | 著者 | Bekker, G.J, Numoto, N, Kawasaki, M, Hayashi, T, Yabuno, S, Kozono, Y, Shimizu, T, Kozono, H, Ito, N, Oda, M, Kamiya, N. | 登録日 | 2023-03-21 | 公開日 | 2023-09-13 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (2.48 Å) | 主引用文献 | Elucidation of binding mechanism, affinity, and complex structure between mWT1 tumor-associated antigen peptide and HLA-A*24:02. Protein Sci., 32, 2023
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5H2F
| Crystal structure of the PsbM-deletion mutant of photosystem II | 分子名称: | (3R)-beta,beta-caroten-3-ol, 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, ... | 著者 | Uto, S, Kawakami, K, Umena, Y, Iwai, M, Ikeuchi, M, Shen, J.R, Kamiya, N. | 登録日 | 2016-10-15 | 公開日 | 2017-03-22 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | 主引用文献 | Mutual relationships between structural and functional changes in a PsbM-deletion mutant of photosystem II. Faraday Discuss., 198, 2017
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2AHJ
| NITRILE HYDRATASE COMPLEXED WITH NITRIC OXIDE | 分子名称: | 1,4-DIETHYLENE DIOXIDE, FE (III) ION, NITRIC OXIDE, ... | 著者 | Nagashima, S, Nakasako, M, Dohmae, N, Tsujimura, M, Takio, K, Odaka, M, Yohda, M, Kamiya, N, Endo, I. | 登録日 | 1997-12-24 | 公開日 | 1999-01-27 | 最終更新日 | 2022-12-21 | 実験手法 | X-RAY DIFFRACTION (1.7 Å) | 主引用文献 | Novel non-heme iron center of nitrile hydratase with a claw setting of oxygen atoms. Nat.Struct.Biol., 5, 1998
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1WYV
| Crystal structure of glycine decarboxylase (P-protein) of the glycine cleavage system, in inhibitor-bound form | 分子名称: | (AMINOOXY)ACETIC ACID, PYRIDOXAL-5'-PHOSPHATE, glycine dehydrogenase (decarboxylating) subunit 1, ... | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2005-02-17 | 公開日 | 2005-04-05 | 最終更新日 | 2024-04-03 | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | 主引用文献 | Structure of P-protein of the glycine cleavage system: implications for nonketotic hyperglycinemia Embo J., 24, 2005
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1WYU
| Crystal structure of glycine decarboxylase (P-protein) of the glycine cleavage system, in holo form | 分子名称: | PYRIDOXAL-5'-PHOSPHATE, glycine dehydrogenase (decarboxylating) subunit 1, glycine dehydrogenase subunit 2 (P-protein) | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2005-02-17 | 公開日 | 2005-04-05 | 最終更新日 | 2011-07-13 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | Structure of P-protein of the glycine cleavage system: implications for nonketotic hyperglycinemia Embo J., 24, 2005
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1ONL
| Crystal structure of Thermus thermophilus HB8 H-protein of the glycine cleavage system | 分子名称: | glycine cleavage system H protein | 著者 | Nakai, T, Ishijima, J, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2003-02-28 | 公開日 | 2003-08-26 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | 主引用文献 | Structure of Thermus thermophilus HB8 H-protein of the glycine-cleavage system, resolved by a six-dimensional molecular-replacement method. Acta Crystallogr.,Sect.D, 59, 2003
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1UMD
| branched-chain 2-oxo acid dehydrogenase (E1) from Thermus thermophilus HB8 with 4-methyl-2-oxopentanoate as an intermediate | 分子名称: | 2-OXO-4-METHYLPENTANOIC ACID, 2-oxo acid dehydrogenase alpha subunit, 2-oxo acid dehydrogenase beta subunit, ... | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2003-09-25 | 公開日 | 2004-03-30 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | 主引用文献 | Ligand-induced Conformational Changes and a Reaction Intermediate in Branched-chain 2-Oxo Acid Dehydrogenase (E1) from Thermus thermophilus HB8, as Revealed by X-ray Crystallography J.Mol.Biol., 337, 2004
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1UMB
| branched-chain 2-oxo acid dehydrogenase (E1) from Thermus thermophilus HB8 in holo-form | 分子名称: | 2-oxo acid dehydrogenase alpha subunit, 2-oxo acid dehydrogenase beta subunit, MAGNESIUM ION, ... | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2003-09-25 | 公開日 | 2004-03-30 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | Ligand-induced Conformational Changes and a Reaction Intermediate in Branched-chain 2-Oxo Acid Dehydrogenase (E1) from Thermus thermophilus HB8, as Revealed by X-ray Crystallography J.Mol.Biol., 337, 2004
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1UM9
| branched-chain 2-oxo acid dehydrogenase (E1) from Thermus thermophilus HB8 in apo-form | 分子名称: | 2-oxo acid dehydrogenase alpha subunit, 2-oxo acid dehydrogenase beta subunit, SULFATE ION | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2003-09-25 | 公開日 | 2004-03-30 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | 主引用文献 | Ligand-induced Conformational Changes and a Reaction Intermediate in Branched-chain 2-Oxo Acid Dehydrogenase (E1) from Thermus thermophilus HB8, as Revealed by X-ray Crystallography J.Mol.Biol., 337, 2004
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1UMC
| branched-chain 2-oxo acid dehydrogenase (E1) from Thermus thermophilus HB8 with 4-methylpentanoate | 分子名称: | 2-oxo acid dehydrogenase alpha subunit, 2-oxo acid dehydrogenase beta subunit, 4-METHYL VALERIC ACID, ... | 著者 | Nakai, T, Nakagawa, N, Maoka, N, Masui, R, Kuramitsu, S, Kamiya, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2003-09-25 | 公開日 | 2004-03-30 | 最終更新日 | 2023-10-25 | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | 主引用文献 | Ligand-induced Conformational Changes and a Reaction Intermediate in Branched-chain 2-Oxo Acid Dehydrogenase (E1) from Thermus thermophilus HB8, as Revealed by X-ray Crystallography J.Mol.Biol., 337, 2004
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5ZNO
| Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S/ mutant in Ca(2+)-bound state | 分子名称: | Alpha/beta hydrolase family protein, CALCIUM ION, GLYCEROL | 著者 | Numoto, N, Inaba, S, Yamagami, Y, Kamiya, N, Bekker, G.J, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M. | 登録日 | 2018-04-10 | 公開日 | 2018-09-12 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.60264349 Å) | 主引用文献 | Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle. Biochemistry, 57, 2018
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5ZRS
| Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S mutant in monoethyl adipate bound state | 分子名称: | 6-ethoxy-6-oxohexanoic acid, Alpha/beta hydrolase family protein, CALCIUM ION, ... | 著者 | Numoto, N, Kamiya, N, Bekker, G.J, Yamagami, Y, Inaba, S, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M. | 登録日 | 2018-04-25 | 公開日 | 2018-09-12 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.4 Å) | 主引用文献 | Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle. Biochemistry, 57, 2018
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5ZRR
| Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S mutant in monoethyl succinate bound state | 分子名称: | 4-ethoxy-4-oxobutanoic acid, Alpha/beta hydrolase family protein, GLYCEROL, ... | 著者 | Numoto, N, Kamiya, N, Bekker, G.J, Yamagami, Y, Inaba, S, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M. | 登録日 | 2018-04-25 | 公開日 | 2018-09-12 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.34 Å) | 主引用文献 | Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle. Biochemistry, 57, 2018
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5ZRQ
| Crystal structure of PET-degrading cutinase Cut190 S176A/S226P/R228S mutant in Zn(2+)-bound state | 分子名称: | Alpha/beta hydrolase family protein, CALCIUM ION, GLYCEROL, ... | 著者 | Numoto, N, Kamiya, N, Bekker, G.J, Yamagami, Y, Inaba, S, Ishii, K, Uchiyama, S, Kawai, F, Ito, N, Oda, M. | 登録日 | 2018-04-25 | 公開日 | 2018-09-12 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.12 Å) | 主引用文献 | Structural Dynamics of the PET-Degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-Bound States Elucidates the Ca2+-Driven Catalytic Cycle. Biochemistry, 57, 2018
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7CTS
| Open form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H and S176A inactivation | 分子名称: | 1,4-DIETHYLENE DIOXIDE, Alpha/beta hydrolase family protein, BICINE, ... | 著者 | Emori, M, Numoto, N, Senga, A, Bekker, G.J, Kamiya, N, Ito, N, Kawai, F, Oda, M. | 登録日 | 2020-08-20 | 公開日 | 2021-02-03 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.1 Å) | 主引用文献 | Structural basis of mutants of PET-degrading enzyme from Saccharomonospora viridis AHK190 with high activity and thermal stability. Proteins, 89, 2021
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7CTR
| Closed form of PET-degrading cutinase Cut190 with thermostability-improving mutations of S226P/R228S/Q138A/D250C-E296C/Q123H/N202H | 分子名称: | 1,4-DIETHYLENE DIOXIDE, Alpha/beta hydrolase family protein | 著者 | Emori, M, Numoto, N, Senga, A, Bekker, G.J, Kamiya, N, Ito, N, Kawai, F, Oda, M. | 登録日 | 2020-08-20 | 公開日 | 2021-02-03 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.2 Å) | 主引用文献 | Structural basis of mutants of PET-degrading enzyme from Saccharomonospora viridis AHK190 with high activity and thermal stability. Proteins, 89, 2021
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1DZE
| Structure of the M Intermediate of Bacteriorhodopsin trapped at 100K | 分子名称: | 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, 3-PHOSPHORYL-[1,2-DI-PHYTANYL]GLYCEROL, ... | 著者 | Takeda, K, Matsui, Y, Sato, H, Hino, T, Kanamori, E, Okumura, H, Yamane, T, Iizuka, T, Kamiya, N, Adachi, S, Kouyama, T. | 登録日 | 2000-02-25 | 公開日 | 2000-08-16 | 最終更新日 | 2023-12-06 | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | 主引用文献 | Crystal Structure of the M Intermediate of Bacteriorhodopsin: Allosteric Structural Changes Mediated by Sliding Movement of a Transmembrane Helix J.Mol.Biol., 341, 2004
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