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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6ICG
| Grb2 SH2 domain in phosphopeptide free form | 分子名称: | GLYCEROL, Growth factor receptor-bound protein 2, SULFATE ION | 著者 | Hosoe, Y, Numoto, N, Inaba, S, Ogawa, S, Morii, H, Abe, R, Ito, N, Oda, M. | 登録日 | 2018-09-06 | 公開日 | 2019-07-17 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (1.15 Å) | 主引用文献 | Structural and functional properties of Grb2 SH2 dimer in CD28 binding. Biophys Physicobio., 16, 2019
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6ICH
| Grb2 SH2 domain in domain swapped dimer form | 分子名称: | Growth factor receptor-bound protein 2 | 著者 | Hosoe, Y, Numoto, N, Inaba, S, Ogawa, S, Morii, H, Abe, R, Ito, N, Oda, M. | 登録日 | 2018-09-06 | 公開日 | 2019-07-17 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (2 Å) | 主引用文献 | Structural and functional properties of Grb2 SH2 dimer in CD28 binding. Biophys Physicobio., 16, 2019
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4H0X
| Crystal structure of NAD+-Ia(E380A)-actin complex | 分子名称: | 1,2-ETHANEDIOL, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | 著者 | Tsurumura, T, Oda, M, Nagahama, M, Tsuge, H. | 登録日 | 2012-09-10 | 公開日 | 2013-02-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (2.33 Å) | 主引用文献 | Arginine ADP-ribosylation mechanism based on structural snapshots of iota-toxin and actin complex Proc.Natl.Acad.Sci.USA, 110, 2013
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4H0T
| Crystal structure of Ia-ADPR-actin complex | 分子名称: | 1,2-ETHANEDIOL, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | 著者 | Tsurumura, T, Oda, M, Nagahama, M, Tsuge, H. | 登録日 | 2012-09-10 | 公開日 | 2013-02-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | 主引用文献 | Arginine ADP-ribosylation mechanism based on structural snapshots of iota-toxin and actin complex Proc.Natl.Acad.Sci.USA, 110, 2013
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4H0Y
| Crystal structure of NAD+-Ia(E380S)-actin complex | 分子名称: | 1,2-ETHANEDIOL, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | 著者 | Tsurumura, T, Oda, M, Nagahama, M, Tsuge, H. | 登録日 | 2012-09-10 | 公開日 | 2013-02-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (1.94 Å) | 主引用文献 | Arginine ADP-ribosylation mechanism based on structural snapshots of iota-toxin and actin complex Proc.Natl.Acad.Sci.USA, 110, 2013
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4GY2
| Crystal structure of apo-Ia-actin complex | 分子名称: | ADENOSINE-5'-TRIPHOSPHATE, Actin, alpha skeletal muscle, ... | 著者 | Tsurumura, T, Oda, M, Nagahama, M, Tsuge, H. | 登録日 | 2012-09-05 | 公開日 | 2013-02-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (2.71 Å) | 主引用文献 | Arginine ADP-ribosylation mechanism based on structural snapshots of iota-toxin and actin complex Proc.Natl.Acad.Sci.USA, 110, 2013
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4H0V
| Crystal structure of NAD+-Ia(E378S)-actin complex | 分子名称: | 1,2-ETHANEDIOL, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | 著者 | Tsurumura, T, Oda, M, Nagahama, M, Tsuge, H. | 登録日 | 2012-09-10 | 公開日 | 2013-02-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (2.03 Å) | 主引用文献 | Arginine ADP-ribosylation mechanism based on structural snapshots of iota-toxin and actin complex Proc.Natl.Acad.Sci.USA, 110, 2013
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4H03
| Crystal structure of NAD+-Ia-actin complex | 分子名称: | 1,2-ETHANEDIOL, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | 著者 | Tsurumura, T, Oda, M, Nagahama, M, Tsuge, H. | 登録日 | 2012-09-07 | 公開日 | 2013-02-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (1.75 Å) | 主引用文献 | Arginine ADP-ribosylation mechanism based on structural snapshots of iota-toxin and actin complex Proc.Natl.Acad.Sci.USA, 110, 2013
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8YTN
| Single-chain Fv antibody of E11 | 分子名称: | GLYCEROL, Single-chain Fv antibody of E11 | 著者 | Yoshida, M, Hanazono, Y, Numoto, N, Ito, N, Oda, M. | 登録日 | 2024-03-26 | 公開日 | 2024-07-03 | 最終更新日 | 2024-07-10 | 実験手法 | X-RAY DIFFRACTION (1.72 Å) | 主引用文献 | Affinity-matured antibody with a disulfide bond in H-CDR3 loop. Arch.Biochem.Biophys., 758, 2024
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8YTO
| Single-chain Fv antibody of E11 complex with NP-glycine | 分子名称: | 2-[2-(3-nitro-4-oxidanyl-phenyl)ethanoylamino]ethanoic acid, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, GLYCEROL, ... | 著者 | Yoshida, M, Hanazono, Y, Numoto, N, Ito, N, Oda, M. | 登録日 | 2024-03-26 | 公開日 | 2024-07-03 | 最終更新日 | 2024-07-10 | 実験手法 | X-RAY DIFFRACTION (1.04 Å) | 主引用文献 | Affinity-matured antibody with a disulfide bond in H-CDR3 loop. Arch.Biochem.Biophys., 758, 2024
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8YTP
| Single-chain Fv antibody of E11 complex with NP-glycine under reducing conditions | 分子名称: | 2-[2-(3-nitro-4-oxidanyl-phenyl)ethanoylamino]ethanoic acid, Single-chain Fv antibody of E11 | 著者 | Yoshida, M, Hanazono, Y, Numoto, N, Ito, N, Oda, M. | 登録日 | 2024-03-26 | 公開日 | 2024-07-03 | 最終更新日 | 2024-07-10 | 実験手法 | X-RAY DIFFRACTION (1.36 Å) | 主引用文献 | Affinity-matured antibody with a disulfide bond in H-CDR3 loop. Arch.Biochem.Biophys., 758, 2024
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7CIO
| Molecular interactions of cytoplasmic region of CTLA-4 with SH2 domains of PI3-kinase | 分子名称: | Cytotoxic T-lymphocyte protein 4, Phosphatidylinositol 3-kinase regulatory subunit alpha | 著者 | Iiyama, M, Numoto, N, Ogawa, S, Kuroda, M, Morii, H, Abe, R, Ito, N, Oda, M. | 登録日 | 2020-07-08 | 公開日 | 2020-12-09 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.1 Å) | 主引用文献 | Molecular interactions of the CTLA-4 cytoplasmic region with the phosphoinositide 3-kinase SH2 domains. Mol.Immunol., 131, 2021
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1VEA
| Crystal Structure of HutP, an RNA binding antitermination protein | 分子名称: | Hut operon positive regulatory protein, N-(2-NAPHTHYL)HISTIDINAMIDE | 著者 | Kumarevel, T.S, Fujimoto, Z, Karthe, P, Oda, M, Mizuno, H, Kumar, P.K.R. | 登録日 | 2004-03-29 | 公開日 | 2004-07-20 | 最終更新日 | 2023-12-27 | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | 主引用文献 | Crystal Structure of Activated HutP; An RNA Binding Protein that Regulates Transcription of the hut Operon in Bacillus subtilis Structure, 12, 2004
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4WFJ
| Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-bound state at 1.75 angstrom resolution | 分子名称: | CALCIUM ION, CHLORIDE ION, Cutinase | 著者 | Miyakawa, T, Mizushima, H, Ohtsuka, J, Oda, M, Kawai, F, Tanokura, M. | 登録日 | 2014-09-15 | 公開日 | 2014-12-24 | 最終更新日 | 2020-01-29 | 実験手法 | X-RAY DIFFRACTION (1.75 Å) | 主引用文献 | Structural basis for the Ca(2+)-enhanced thermostability and activity of PET-degrading cutinase-like enzyme from Saccharomonospora viridis AHK190. Appl.Microbiol.Biotechnol., 99, 2015
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4WFK
| Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-bound state at 2.35 angstrom resolution | 分子名称: | CALCIUM ION, CHLORIDE ION, Cutinase | 著者 | Miyakawa, T, Mizushima, H, Ohtsuka, J, Oda, M, Kawai, F, Tanokura, M. | 登録日 | 2014-09-15 | 公開日 | 2014-12-24 | 最終更新日 | 2020-01-29 | 実験手法 | X-RAY DIFFRACTION (2.35 Å) | 主引用文献 | Structural basis for the Ca(2+)-enhanced thermostability and activity of PET-degrading cutinase-like enzyme from Saccharomonospora viridis AHK190. Appl.Microbiol.Biotechnol., 99, 2015
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4WFI
| Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state | 分子名称: | Cutinase | 著者 | Miyakawa, T, Mizushima, H, Ohtsuka, J, Oda, M, Kawai, F, Tanokura, M. | 登録日 | 2014-09-15 | 公開日 | 2014-12-24 | 最終更新日 | 2020-01-29 | 実験手法 | X-RAY DIFFRACTION (1.446 Å) | 主引用文献 | Structural basis for the Ca(2+)-enhanced thermostability and activity of PET-degrading cutinase-like enzyme from Saccharomonospora viridis AHK190. Appl.Microbiol.Biotechnol., 99, 2015
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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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3VVL
| Crystal structure of L-serine-O-acetyltransferase found in D-cycloserine biosynthetic pathway | 分子名称: | Homoserine O-acetyltransferase | 著者 | Oda, K, Matoba, Y, Kumagai, T, Noda, M, Sugiyama, M. | 登録日 | 2012-07-26 | 公開日 | 2013-03-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (1.81 Å) | 主引用文献 | Crystallographic study to determine the substrate specificity of an L-serine-acetylating enzyme found in the D-cycloserine biosynthetic pathway J.Bacteriol., 195, 2013
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3VVM
| Crystal structure of G52A-P55G mutant of L-serine-O-acetyltransferase found in D-cycloserine biosynthetic pathway | 分子名称: | Homoserine O-acetyltransferase | 著者 | Oda, K, Matoba, Y, Kumagai, T, Noda, M, Sugiyama, M. | 登録日 | 2012-07-26 | 公開日 | 2013-03-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (1.7 Å) | 主引用文献 | Crystallographic study to determine the substrate specificity of an L-serine-acetylating enzyme found in the D-cycloserine biosynthetic pathway J.Bacteriol., 195, 2013
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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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7F1I
| Designed enzyme RA61 M48K/I72D mutant: form II | 分子名称: | Engineered Retroaldolase | 著者 | Fujioka, T, Oka, M, Numoto, N, Ito, N, Oda, M, Tanaka, F. | 登録日 | 2021-06-09 | 公開日 | 2021-11-24 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.4 Å) | 主引用文献 | Varying the Directionality of Protein Catalysts for Aldol and Retro-Aldol Reactions. Chembiochem, 23, 2022
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7F1H
| Designed enzyme RA61 M48K/I72D mutant: form I | 分子名称: | Engineered Retroaldolase, FORMIC ACID, GLYCEROL | 著者 | Fujioka, T, Oka, M, Numoto, N, Ito, N, Oda, M, Tanaka, F. | 登録日 | 2021-06-09 | 公開日 | 2021-11-24 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.14 Å) | 主引用文献 | Varying the Directionality of Protein Catalysts for Aldol and Retro-Aldol Reactions. Chembiochem, 23, 2022
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7F1J
| Designed enzyme RA61 M48K/I72D mutant: form III | 分子名称: | Engineered Retroaldolase | 著者 | Fujioka, T, Oka, M, Numoto, N, Ito, N, Oda, M, Tanaka, F. | 登録日 | 2021-06-09 | 公開日 | 2021-11-24 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | 主引用文献 | Varying the Directionality of Protein Catalysts for Aldol and Retro-Aldol Reactions. Chembiochem, 23, 2022
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7F1K
| Designed enzyme RA61 M48K/I72D mutant: form IV | 分子名称: | Engineered Retroaldolase | 著者 | Fujioka, T, Oka, M, Numoto, N, Ito, N, Oda, M, Tanaka, F. | 登録日 | 2021-06-09 | 公開日 | 2021-11-24 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.05 Å) | 主引用文献 | Varying the Directionality of Protein Catalysts for Aldol and Retro-Aldol Reactions. Chembiochem, 23, 2022
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