7CJ3
| Crystal structure of the transmembrane domain of Salpingoeca rosetta rhodopsin phosphodiesterase | 分子名称: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Phosphodiesterase, RETINAL | 著者 | Ikuta, T, Shihoya, W, Yamashita, K, Nureki, O. | 登録日 | 2020-07-09 | 公開日 | 2020-11-25 | 最終更新日 | 2024-10-23 | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | 主引用文献 | Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun, 11, 2020
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7D7Q
| Crystal structure of the transmembrane domain and linker region of Salpingoeca rosetta rhodopsin phosphodiesterase | 分子名称: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Phosphodiesterase, RETINAL | 著者 | Ikuta, T, Shihoya, W, Yamashita, K, Nureki, O. | 登録日 | 2020-10-05 | 公開日 | 2020-11-18 | 最終更新日 | 2024-10-16 | 実験手法 | X-RAY DIFFRACTION (3.5 Å) | 主引用文献 | Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun, 11, 2020
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7D7P
| Crystal structure of the phosphodiesterase domain of Salpingoeca rosetta rhodopsin phosphodiesterase | 分子名称: | 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, ... | 著者 | Ikuta, T, Shihoya, W, Yamashita, K, Nureki, O. | 登録日 | 2020-10-05 | 公開日 | 2020-11-18 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun, 11, 2020
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7DH5
| Dog beta3 adrenergic receptor bound to mirabegron in complex with a miniGs heterotrimer | 分子名称: | 2-(2-azanyl-1,3-thiazol-4-yl)-N-[4-[2-[[(2R)-2-oxidanyl-2-phenyl-ethyl]amino]ethyl]phenyl]ethanamide, Beta-3 adrenergic receptor, Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, ... | 著者 | Shihoya, W, Yamashita, K, Nureki, O. | 登録日 | 2020-11-12 | 公開日 | 2021-08-04 | 最終更新日 | 2024-10-30 | 実験手法 | ELECTRON MICROSCOPY (3.16 Å) | 主引用文献 | Cryo-EM structure of the beta 3-adrenergic receptor reveals the molecular basis of subtype selectivity. Mol.Cell, 81, 2021
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7DVO
| Structure of Reaction Intermediate of Cytochrome P450 NO Reductase (P450nor) Determined by XFEL | 分子名称: | GLYCEROL, NADP nitrous oxide-forming nitric oxide reductase, NITRIC OXIDE, ... | 著者 | Nomura, T, Kimura, T, Kanematsu, Y, Yamashita, K, Hirata, K, Ueno, G, Murakami, H, Hisano, T, Yamagiwa, R, Takeda, H, Gopalasingam, C, Yuki, K, Kousaka, R, Yanagasawa, S, Shoji, O, Kumasaka, T, Takano, Y, Ago, H, Yamamoto, M, Sugimoto, H, Tosha, T, Kubo, M, Shiro, Y. | 登録日 | 2021-01-14 | 公開日 | 2021-05-19 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | 主引用文献 | Short-lived intermediate in N 2 O generation by P450 NO reductase captured by time-resolved IR spectroscopy and XFEL crystallography. Proc.Natl.Acad.Sci.USA, 118, 2021
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7CCS
| Consensus mutated xCT-CD98hc complex | 分子名称: | 4F2 cell-surface antigen heavy chain, Consensus mutated Anionic Amino Acid Transporter Light Chain, Xc- System | 著者 | Oda, K, Lee, Y, Takemoto, M, Yamashita, K, Nishizawa, T, Nureki, O. | 登録日 | 2020-06-17 | 公開日 | 2020-12-09 | 最終更新日 | 2020-12-16 | 実験手法 | ELECTRON MICROSCOPY (6.2 Å) | 主引用文献 | Consensus mutagenesis approach improves the thermal stability of system x c - transporter, xCT, and enables cryo-EM analyses. Protein Sci., 29, 2020
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7C7L
| Cryo-EM structure of the Cas12f1-sgRNA-target DNA complex | 分子名称: | CRISPR-associated protein Cas14a.1, DNA (40-mer), ZINC ION, ... | 著者 | Takeda, N.S, Nakagawa, R, Okazaki, S, Hirano, H, Kobayashi, K, Kusakizako, T, Nishizawa, T, Yamashita, K, Nishimasu, H, Nureki, O. | 登録日 | 2020-05-26 | 公開日 | 2020-12-23 | 最終更新日 | 2024-03-27 | 実験手法 | ELECTRON MICROSCOPY (3.3 Å) | 主引用文献 | Structure of the miniature type V-F CRISPR-Cas effector enzyme. Mol.Cell, 81, 2021
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8P3W
| Homomeric GluA1 in tandem with TARP gamma-3, desensitized conformation 4 | 分子名称: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate, Glutamate receptor 1 flip isoform, ... | 著者 | Zhang, D, Krieger, J.M, Yamashita, K, Greger, I. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2024-10-16 | 実験手法 | ELECTRON MICROSCOPY (3.53 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3X
| Homomeric GluA2 flip R/G-edited Q/R-edited F231A mutant in tandem with TARP gamma-2, desensitized conformation 1 | 分子名称: | Glutamate receptor 2, Voltage-dependent calcium channel gamma-2 subunit | 著者 | Krieger, J.M, Zhang, D, Yamashita, K, Greger, I.H. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2023-10-11 | 実験手法 | ELECTRON MICROSCOPY (3.36 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3S
| Homomeric GluA2 flip R/G-unedited Q/R-edited F231A mutant in tandem with TARP gamma-2, desensitized conformation 2 | 分子名称: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate, Glutamate receptor 2, ... | 著者 | Zhang, D, Krieger, J.M, Yamashita, K, Greger, I. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2023-10-11 | 実験手法 | ELECTRON MICROSCOPY (2.95 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3Q
| Homomeric GluA2 flip R/G-unedited Q/R-edited F231A mutant in tandem with TARP gamma-2, desensitized conformation 3 | 分子名称: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate, Glutamate receptor 2, ... | 著者 | Zhang, D, Krieger, J.M, Yamashita, K, Greger, I. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2024-10-23 | 実験手法 | ELECTRON MICROSCOPY (2.95 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3Z
| Homomeric GluA2 flip R/G-edited Q/R-edited F231A mutant in tandem with TARP gamma-2, desensitized conformation 2 | 分子名称: | Glutamate receptor 2, Voltage-dependent calcium channel gamma-2 subunit | 著者 | Krieger, J.M, Zhang, D, Yamashita, K, Greger, I.H. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2023-10-11 | 実験手法 | ELECTRON MICROSCOPY (3.46 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3Y
| Homomeric GluA2 flip R/G-edited Q/R-edited F231A mutant in tandem with TARP gamma-2, desensitized conformation 3 | 分子名称: | Glutamate receptor 2, Voltage-dependent calcium channel gamma-2 subunit | 著者 | Krieger, J.M, Zhang, D, Yamashita, K, Greger, I.H. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2024-10-09 | 実験手法 | ELECTRON MICROSCOPY (3.55 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8PIV
| Homomeric GluA2 flip R/G-unedited Q/R-edited F231A mutant in tandem with TARP gamma-2, desensitized conformation 1 | 分子名称: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate, Glutamate receptor, ... | 著者 | Zhang, D, Krieger, J.M, Yamashita, K, Greger, I.H. | 登録日 | 2023-06-22 | 公開日 | 2023-08-30 | 最終更新日 | 2023-10-11 | 実験手法 | ELECTRON MICROSCOPY (3.46 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3V
| Homomeric GluA1 in tandem with TARP gamma-3, desensitized conformation 3 | 分子名称: | Glutamate receptor 1 flip isoform, Voltage-dependent calcium channel gamma-3 subunit | 著者 | Zhang, D, Krieger, J.M, Yamashita, K, Greger, I.H. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2024-10-09 | 実験手法 | ELECTRON MICROSCOPY (3.53 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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8P3T
| Homomeric GluA1 in tandem with TARP gamma-3, desensitized conformation 1 | 分子名称: | Glutamate receptor 1 flip isoform, Voltage-dependent calcium channel gamma-3 subunit | 著者 | Zhang, D, Krieger, J, Yamashita, K, Greger, I. | 登録日 | 2023-05-18 | 公開日 | 2023-08-30 | 最終更新日 | 2024-10-09 | 実験手法 | ELECTRON MICROSCOPY (3.39 Å) | 主引用文献 | Structural mobility tunes signalling of the GluA1 AMPA glutamate receptor. Nature, 621, 2023
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7E3G
| Crystal structure of Trypanosoma brucei cathepsin B R91C/T223C mutant in the living cell | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Cysteine peptidase C (CPC), beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | 著者 | Abe, S, Pham, T.T, Negishi, H, Yamashita, K, Hirata, K, Ueno, T. | 登録日 | 2021-02-08 | 公開日 | 2021-12-15 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (3.86 Å) | 主引用文献 | Design of an In-Cell Protein Crystal for the Environmentally Responsive Construction of a Supramolecular Filament. Angew.Chem.Int.Ed.Engl., 60, 2021
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7E3E
| Crystal structure of Trypanosoma brucei cathepsin B R91C/T223C mutant | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Cysteine peptidase C (CPC), beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | 著者 | Abe, S, Pham, T.T, Negishi, H, Yamashita, K, Hirata, K, Ueno, T. | 登録日 | 2021-02-08 | 公開日 | 2021-12-15 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | 主引用文献 | Design of an In-Cell Protein Crystal for the Environmentally Responsive Construction of a Supramolecular Filament. Angew.Chem.Int.Ed.Engl., 60, 2021
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7E3F
| Crystal structure of Trypanosoma brucei cathepsin B Y217C/S275C mutant | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Cysteine peptidase C (CPC), beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | 著者 | Abe, S, Pham, T.T, Negishi, H, Yamashita, K, Hirata, K, Ueno, T. | 登録日 | 2021-02-08 | 公開日 | 2021-12-15 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (2.35 Å) | 主引用文献 | Design of an In-Cell Protein Crystal for the Environmentally Responsive Construction of a Supramolecular Filament. Angew.Chem.Int.Ed.Engl., 60, 2021
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7EK2
| Cryo-EM structure of VCCN1 in lipid nanodisc | 分子名称: | Bestrophin-like protein | 著者 | Hagino, T, Kato, T, Kasuya, G, Kobayashi, K, Kusakizako, T, Yamashita, K, Nishizawa, T, Nureki, O. | 登録日 | 2021-04-03 | 公開日 | 2022-04-06 | 最終更新日 | 2024-06-05 | 実験手法 | ELECTRON MICROSCOPY (2.7 Å) | 主引用文献 | Cryo-EM structures of thylakoid-located voltage-dependent chloride channel VCCN1. Nat Commun, 13, 2022
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7EK1
| Cryo-EM structure of VCCN1 in detergent | 分子名称: | Bestrophin-like protein | 著者 | Hagino, T, Kato, T, Kasuya, G, Kobayashi, K, Kusakizako, T, Yamashita, K, Nishizawa, T, Nureki, O. | 登録日 | 2021-04-03 | 公開日 | 2022-04-06 | 最終更新日 | 2024-06-05 | 実験手法 | ELECTRON MICROSCOPY (3 Å) | 主引用文献 | Cryo-EM structures of thylakoid-located voltage-dependent chloride channel VCCN1. Nat Commun, 13, 2022
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7EK3
| Cryo-EM structure of VCCN1 Y332A mutant in lipid nanodisc | 分子名称: | Bestrophin-like protein | 著者 | Hagino, T, Kato, T, Kasuya, G, Kobayashi, K, Kusakizako, T, Yamashita, K, Nishizawa, T, Nureki, O. | 登録日 | 2021-04-03 | 公開日 | 2022-04-06 | 最終更新日 | 2024-06-05 | 実験手法 | ELECTRON MICROSCOPY (2.7 Å) | 主引用文献 | Cryo-EM structures of thylakoid-located voltage-dependent chloride channel VCCN1. Nat Commun, 13, 2022
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3A6J
| E122Q mutant creatininase complexed with creatine | 分子名称: | Creatinine amidohydrolase, N-[(E)-AMINO(IMINO)METHYL]-N-METHYLGLYCINE, SULFATE ION, ... | 著者 | Nakajima, Y, Yamashita, K, Ito, K, Yoshimoto, T. | 登録日 | 2009-09-02 | 公開日 | 2010-02-09 | 最終更新日 | 2023-11-01 | 実験手法 | X-RAY DIFFRACTION (2 Å) | 主引用文献 | Substitution of Glu122 by glutamine revealed the function of the second water molecule as a proton donor in the binuclear metal enzyme creatininase J.Mol.Biol., 396, 2010
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3A6D
| Creatininase complexed with 1-methylguanidine | 分子名称: | 1-METHYLGUANIDINE, Creatinine amidohydrolase, MANGANESE (II) ION, ... | 著者 | Nakajima, Y, Yamashita, K, Ito, K, Yoshimoto, T. | 登録日 | 2009-08-31 | 公開日 | 2010-02-09 | 最終更新日 | 2023-11-01 | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | 主引用文献 | Substitution of Glu122 by glutamine revealed the function of the second water molecule as a proton donor in the binuclear metal enzyme creatininase J.Mol.Biol., 396, 2010
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3WSU
| Crystal structure of beta-mannanase from Streptomyces thermolilacinus | 分子名称: | Beta-mannanase, GLYCEROL, SODIUM ION | 著者 | Kumagai, Y, Yamashita, K, Okuyama, M, Hatanaka, T, Yao, M, Kimura, A. | 登録日 | 2014-03-26 | 公開日 | 2015-05-20 | 最終更新日 | 2023-11-08 | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | 主引用文献 | The loop structure of Actinomycete glycoside hydrolase family 5 mannanases governs substrate recognition Febs J., 282, 2015
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