7WZ8
 
 | | Structure of human langerin complex in Birbeck granules | | Descriptor: | SNAP-tag,C-type lectin domain family 4 member K | | Authors: | Oda, T, Yanagisawa, H. | | Deposit date: | 2022-02-17 | | Release date: | 2022-06-22 | | Last modified: | 2023-08-02 | | Method: | ELECTRON MICROSCOPY (6.4 Å) | | Cite: | Cryo-electron tomography of Birbeck granules reveals the molecular mechanism of langerin lattice formation.
Elife, 11, 2022
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5H6K
 | | DNA targeting ADP-ribosyltransferase Pierisin-1 | | Descriptor: | 1,2-ETHANEDIOL, Pierisin-1 | | Authors: | Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M. | | Deposit date: | 2016-11-14 | | Release date: | 2017-08-09 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017
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5H6N
 | | DNA targeting ADP-ribosyltransferase Pierisin-1, autoinhibitory form | | Descriptor: | Pierisin-1 | | Authors: | Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M. | | Deposit date: | 2016-11-14 | | Release date: | 2017-08-09 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017
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5H6L
 | | DNA targeting ADP-ribosyltransferase Pierisin-1 in complex with beta-NAD+ | | Descriptor: | 1,2-ETHANEDIOL, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Pierisin-1 | | Authors: | Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M. | | Deposit date: | 2016-11-14 | | Release date: | 2017-08-09 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017
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5H6M
 | | DNA targeting ADP-ribosyltransferase Pierisin-1 | | Descriptor: | 1,2-ETHANEDIOL, Pierisin-1 | | Authors: | Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M. | | Deposit date: | 2016-11-14 | | Release date: | 2017-08-09 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017
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5H6J
 | | DNA targeting ADP-ribosyltransferase Pierisin-1 in complex with beta-NAD+ | | Descriptor: | NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Pierisin-1 | | Authors: | Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M. | | Deposit date: | 2016-11-14 | | Release date: | 2017-08-09 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017
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2ZWH
 | | Model for the F-actin structure | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Actin, alpha skeletal muscle, ... | | Authors: | Oda, T, Iwasa, M, Aihara, T, Maeda, Y, Narita, A. | | Deposit date: | 2008-12-05 | | Release date: | 2009-01-20 | | Last modified: | 2017-10-11 | | Method: | FIBER DIFFRACTION (3.3 Å) | | Cite: | The nature of the globular- to fibrous-actin transition.
Nature, 457, 2009
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3A8R
 | | The structure of the N-terminal regulatory domain of a plant NADPH oxidase | | Descriptor: | CALCIUM ION, Putative uncharacterized protein | | Authors: | Oda, T, Hashimoto, H, Kuwabara, N, Akashi, S, Hayashi, K, Kojima, C, Wong, H.L, Kawasaki, T, Shimamoto, K, Sato, M, Shimizu, T. | | Deposit date: | 2009-10-07 | | Release date: | 2009-10-27 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | The structure of the N-terminal regulatory domain of a plant NADPH oxidase and its functional implications
J.Biol.Chem., 285, 2010
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6KLQ
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6KLP
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6KLT
 | | Troponin of cardiac thin filament in low-calcium state | | Descriptor: | CALCIUM ION, Troponin C, slow skeletal and cardiac muscles, ... | | Authors: | Oda, T, Yanagisawa, H, Wakabayashi, T. | | Deposit date: | 2019-07-30 | | Release date: | 2020-01-15 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (12 Å) | | Cite: | Cryo-EM structures of cardiac thin filaments reveal the 3D architecture of troponin.
J.Struct.Biol., 209, 2020
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6KLU
 | | Troponin of cardiac thin filament in high-calcium state | | Descriptor: | CALCIUM ION, Troponin C, slow skeletal and cardiac muscles, ... | | Authors: | Oda, T, Yanagisawa, H, Wakabayashi, T. | | Deposit date: | 2019-07-30 | | Release date: | 2020-01-15 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (12 Å) | | Cite: | Cryo-EM structures of cardiac thin filaments reveal the 3D architecture of troponin.
J.Struct.Biol., 209, 2020
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6KLL
 | | F-actin of cardiac thin filament in low-calcium state | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Actin, alpha skeletal muscle, ... | | Authors: | Oda, T, Yanagisawa, H, Wakabayashi, T. | | Deposit date: | 2019-07-30 | | Release date: | 2020-01-15 | | Last modified: | 2020-03-11 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Cryo-EM structures of cardiac thin filaments reveal the 3D architecture of troponin.
J.Struct.Biol., 209, 2020
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6KLN
 | | F-actin of cardiac thin filament in high-calcium state | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Actin, alpha skeletal muscle, ... | | Authors: | Oda, T, Yanagisawa, H, Wakabayashi, T. | | Deposit date: | 2019-07-30 | | Release date: | 2020-01-15 | | Last modified: | 2020-03-11 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Cryo-EM structures of cardiac thin filaments reveal the 3D architecture of troponin.
J.Struct.Biol., 209, 2020
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3VPZ
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8JJ5
 | | Porcine uroplakin complex | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Tetraspanin, ... | | Authors: | Oda, T, Yanagisawa, H, Kikkawa, M. | | Deposit date: | 2023-05-29 | | Release date: | 2023-06-14 | | Last modified: | 2023-12-27 | | Method: | ELECTRON MICROSCOPY (3.5 Å) | | Cite: | Cryo-EM elucidates the uroplakin complex structure within liquid-crystalline lipids in the porcine urothelial membrane
Commun Biol, 6, 2023
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1J1T
 | | Alginate lyase from Alteromonas sp.272 | | Descriptor: | Alginate Lyase, CALCIUM ION, SULFATE ION | | Authors: | Motoshima, H, Iwatomo, Y, Watanabe, K, Oda, T, Muramatsu, T. | | Deposit date: | 2002-12-14 | | Release date: | 2004-02-03 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structure of Alginate Lyase from Alteromonas sp.272
To be published
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2ZJV
 | | Crystal Structure of Lymnaea stagnalis Acetylcholine Binding Protein (Ls-AChBP) Complexed with Clothianidin | | Descriptor: | 1-[(2-chloro-1,3-thiazol-5-yl)methyl]-3-methyl-2-nitroguanidine, Acetylcholine-binding protein | | Authors: | Okajima, T, Ihara, M, Yamashita, A, Oda, T, Morimoto, T, Matsuda, K. | | Deposit date: | 2008-03-10 | | Release date: | 2008-04-08 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Crystal structures of Lymnaea stagnalis AChBP in complex with neonicotinoid insecticides imidacloprid and clothianidin
Invert.Neurosci., 8, 2008
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2ZJU
 | | Crystal Structure of Lymnaea stagnalis Acetylcholine Binding Protein (Ls-AChBP) Complexed with Imidacloprid | | Descriptor: | (2E)-1-[(6-chloropyridin-3-yl)methyl]-N-nitroimidazolidin-2-imine, Acetylcholine-binding protein | | Authors: | Okajima, T, Ihara, M, Yamashita, A, Oda, T, Morimoto, T, Matsuda, K. | | Deposit date: | 2008-03-10 | | Release date: | 2008-04-08 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.58 Å) | | Cite: | Crystal structures of Lymnaea stagnalis AChBP in complex with neonicotinoid insecticides imidacloprid and clothianidin
Invert.Neurosci., 8, 2008
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2ZGY
 | | PARM with GDP | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Plasmid segregation protein parM | | Authors: | Popp, D, Narita, A, Oda, T, Fujisawa, T, Matsuo, H, Nitanai, Y, Iwasa, M, Maeda, K, Onishi, H, Maeda, Y. | | Deposit date: | 2008-01-30 | | Release date: | 2008-02-12 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability
Embo J., 27, 2008
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2ZHC
 | | ParM filament | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Plasmid segregation protein parM | | Authors: | Popp, D, Narita, A, Oda, T, Fujisawa, T, Matsuo, H, Nitanai, Y, Iwasa, M, Maeda, K, Onishi, H, Maeda, Y. | | Deposit date: | 2008-02-04 | | Release date: | 2008-02-26 | | Last modified: | 2024-03-13 | | Method: | ELECTRON MICROSCOPY (23 Å) | | Cite: | Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability
Embo J., 27, 2008
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2ZGZ
 | | PARM with GMPPNP | | Descriptor: | MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER, Plasmid segregation protein parM | | Authors: | Popp, D, Narita, A, Oda, T, Fujisawa, T, Matsuo, H, Nitanai, Y, Iwasa, M, Maeda, K, Onishi, H, Maeda, Y. | | Deposit date: | 2008-01-30 | | Release date: | 2008-02-12 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability
Embo J., 27, 2008
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3WTM
 | | Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid | | Descriptor: | 2-chloro-5-{[(2E)-2-(nitromethylidene)imidazolidin-1-yl]methyl}pyridine, Acetylcholine-binding protein | | Authors: | Okajima, T, Ihara, M, Yamashita, A, Oda, T, Matsuda, K. | | Deposit date: | 2014-04-11 | | Release date: | 2015-02-04 | | Method: | X-RAY DIFFRACTION (2.48 Å) | | Cite: | Studies on an acetylcholine binding protein identify a basic residue in loop G on the beta 1 strand as a new structural determinant of neonicotinoid actions
Mol.Pharmacol., 86, 2014
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3WTL
 | | Crystal Structure of Lymnaea stagnalis Acetylcholine Binding Protein Complexed with Nitromethylene Analogue of Imidacloprid | | Descriptor: | 2-chloro-5-{[(2E)-2-(nitromethylidene)imidazolidin-1-yl]methyl}pyridine, Acetylcholine-binding protein | | Authors: | Okajima, T, Ihara, M, Yamashita, A, Oda, T, Matsuda, K. | | Deposit date: | 2014-04-11 | | Release date: | 2015-02-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Studies on an acetylcholine binding protein identify a basic residue in loop G on the beta 1 strand as a new structural determinant of neonicotinoid actions
Mol.Pharmacol., 86, 2014
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3WTJ
 | | Crystal Structure of Lymnaea stagnalis Acetylcholine Binding Protein Complexed with Thiacloprid | | Descriptor: | Acetylcholine-binding protein, {(2Z)-3-[(6-chloropyridin-3-yl)methyl]-1,3-thiazolidin-2-ylidene}cyanamide | | Authors: | Okajima, T, Ihara, M, Yamashita, A, Oda, T, Matsuda, K. | | Deposit date: | 2014-04-11 | | Release date: | 2015-02-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.24 Å) | | Cite: | Studies on an acetylcholine binding protein identify a basic residue in loop G on the beta 1 strand as a new structural determinant of neonicotinoid actions
Mol.Pharmacol., 86, 2014
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