7V6B
| Structure of the Dicer-2-R2D2 heterodimer | Descriptor: | Dicer-2, isoform A, R2D2 | Authors: | Yamaguchi, S, Nishizawa, T, Kusakizako, T, Yamashita, K, Tomita, A, Hirano, H, Nishimasu, H, Nureki, O. | Deposit date: | 2021-08-20 | Release date: | 2022-03-23 | Last modified: | 2024-06-12 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Structure of the Dicer-2-R2D2 heterodimer bound to a small RNA duplex. Nature, 607, 2022
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7V6C
| Structure of the Dicer-2-R2D2 heterodimer bound to small RNA duplex | Descriptor: | Dicer-2, isoform A, R2D2, ... | Authors: | Yamaguchi, S, Nishizawa, T, Kusakizako, T, Yamashita, K, Tomita, A, Hirano, H, Nishimasu, H, Nureki, O. | Deposit date: | 2021-08-20 | Release date: | 2022-03-23 | Last modified: | 2024-06-12 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Structure of the Dicer-2-R2D2 heterodimer bound to a small RNA duplex. Nature, 607, 2022
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7V93
| Cryo-EM structure of the Cas12c2-sgRNA binary complex | Descriptor: | cas12c2, sgRNA | Authors: | Kurihara, N, Hirano, H, Tomita, A, Kobayashi, K, Kusakizako, T, Nishizawa, T, Yamashita, K, Nishimasu, H, Nureki, O. | Deposit date: | 2021-08-24 | Release date: | 2022-04-13 | Last modified: | 2024-06-12 | Method: | ELECTRON MICROSCOPY (3 Å) | Cite: | Structure of the type V-C CRISPR-Cas effector enzyme. Mol.Cell, 82, 2022
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7CJ3
| Crystal structure of the transmembrane domain of Salpingoeca rosetta rhodopsin phosphodiesterase | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Phosphodiesterase, RETINAL | Authors: | Ikuta, T, Shihoya, W, Yamashita, K, Nureki, O. | Deposit date: | 2020-07-09 | Release date: | 2020-11-25 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun, 11, 2020
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7CCS
| Consensus mutated xCT-CD98hc complex | Descriptor: | 4F2 cell-surface antigen heavy chain, Consensus mutated Anionic Amino Acid Transporter Light Chain, Xc- System | Authors: | Oda, K, Lee, Y, Takemoto, M, Yamashita, K, Nishizawa, T, Nureki, O. | Deposit date: | 2020-06-17 | Release date: | 2020-12-09 | Last modified: | 2020-12-16 | Method: | ELECTRON MICROSCOPY (6.2 Å) | Cite: | 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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7CLJ
| Crystal structure of Thermoplasmatales archaeon heliorhodopsin E108D mutant | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, RETINAL, SULFATE ION, ... | Authors: | Tanaka, T, Shihoya, W, Yamashita, K, Nureki, O. | Deposit date: | 2020-07-21 | Release date: | 2020-09-02 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Structural basis for unique color tuning mechanism in heliorhodopsin. Biochem.Biophys.Res.Commun., 533, 2020
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7C7L
| Cryo-EM structure of the Cas12f1-sgRNA-target DNA complex | Descriptor: | CRISPR-associated protein Cas14a.1, DNA (40-mer), ZINC ION, ... | Authors: | Takeda, N.S, Nakagawa, R, Okazaki, S, Hirano, H, Kobayashi, K, Kusakizako, T, Nishizawa, T, Yamashita, K, Nishimasu, H, Nureki, O. | Deposit date: | 2020-05-26 | Release date: | 2020-12-23 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Structure of the miniature type V-F CRISPR-Cas effector enzyme. Mol.Cell, 81, 2021
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7C86
| Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: Dark state structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, RETINAL, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2020-05-28 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7DH5
| Dog beta3 adrenergic receptor bound to mirabegron in complex with a miniGs heterotrimer | Descriptor: | 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, ... | Authors: | Shihoya, W, Yamashita, K, Nureki, O. | Deposit date: | 2020-11-12 | Release date: | 2021-08-04 | Last modified: | 2021-08-18 | Method: | ELECTRON MICROSCOPY (3.16 Å) | Cite: | Cryo-EM structure of the beta 3-adrenergic receptor reveals the molecular basis of subtype selectivity. Mol.Cell, 81, 2021
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7DB6
| human melatonin receptor MT1 - Gi1 complex | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(i) subunit alpha-1, ... | Authors: | Okamoto, H.H, Kusakizako, T, Shihioya, W, Yamashita, K, Nishizawa, T, Nureki, O. | Deposit date: | 2020-10-19 | Release date: | 2021-08-18 | Last modified: | 2022-02-16 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Cryo-EM structure of the human MT 1 -G i signaling complex. Nat.Struct.Mol.Biol., 28, 2021
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7E8D
| NSD2 E1099K mutant bound to nucleosome | Descriptor: | DNA (185-MER), Histone H2A type 1, Histone H2B type 1-J, ... | Authors: | Sengoku, T, Sato, K, Nishizawa, T, Nureki, O, Ogata, K. | Deposit date: | 2021-03-01 | Release date: | 2021-11-10 | Last modified: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (2.8 Å) | Cite: | Structural basis of the regulation of the normal and oncogenic methylation of nucleosomal histone H3 Lys36 by NSD2. Nat Commun, 12, 2021
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7E6Z
| Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 50 microsecond structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7E6X
| Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 4 ms structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7E71
| Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 1 ms structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7E70
| Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 250 microsecond structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7E6Y
| Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 1 microsecond structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7D7Q
| Crystal structure of the transmembrane domain and linker region of Salpingoeca rosetta rhodopsin phosphodiesterase | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Phosphodiesterase, RETINAL | Authors: | Ikuta, T, Shihoya, W, Yamashita, K, Nureki, O. | Deposit date: | 2020-10-05 | Release date: | 2020-11-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.5 Å) | Cite: | Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun, 11, 2020
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7EK1
| Cryo-EM structure of VCCN1 in detergent | Descriptor: | Bestrophin-like protein | Authors: | Hagino, T, Kato, T, Kasuya, G, Kobayashi, K, Kusakizako, T, Yamashita, K, Nishizawa, T, Nureki, O. | Deposit date: | 2021-04-03 | Release date: | 2022-04-06 | Last modified: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (3 Å) | Cite: | Cryo-EM structures of thylakoid-located voltage-dependent chloride channel VCCN1. Nat Commun, 13, 2022
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7EK2
| Cryo-EM structure of VCCN1 in lipid nanodisc | Descriptor: | Bestrophin-like protein | Authors: | Hagino, T, Kato, T, Kasuya, G, Kobayashi, K, Kusakizako, T, Yamashita, K, Nishizawa, T, Nureki, O. | Deposit date: | 2021-04-03 | Release date: | 2022-04-06 | Last modified: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (2.7 Å) | Cite: | 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 | Descriptor: | Bestrophin-like protein | Authors: | Hagino, T, Kato, T, Kasuya, G, Kobayashi, K, Kusakizako, T, Yamashita, K, Nishizawa, T, Nureki, O. | Deposit date: | 2021-04-03 | Release date: | 2022-04-06 | Last modified: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (2.7 Å) | Cite: | Cryo-EM structures of thylakoid-located voltage-dependent chloride channel VCCN1. Nat Commun, 13, 2022
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7E4G
| Crystal structure of schizorhodopsin 4 | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, RETINAL, SULFATE ION, ... | Authors: | Shihoya, W, Nureki, O. | Deposit date: | 2021-02-12 | Release date: | 2021-02-24 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystal structure of schizorhodopsin reveals mechanism of inward proton pumping. Proc.Natl.Acad.Sci.USA, 118, 2021
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7D3S
| Human SECR in complex with an engineered Gs heterotrimer | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(s) subunit alpha isoforms short, ... | Authors: | Fukuhara, S, Kobayashi, K, Kusakizako, T, Shihoya, W, Nureki, O. | Deposit date: | 2020-09-20 | Release date: | 2020-11-04 | Last modified: | 2020-12-30 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Structure of the human secretin receptor coupled to an engineered heterotrimeric G protein. Biochem.Biophys.Res.Commun., 533, 2020
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7D7P
| Crystal structure of the phosphodiesterase domain of Salpingoeca rosetta rhodopsin phosphodiesterase | Descriptor: | 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, ... | Authors: | Ikuta, T, Shihoya, W, Yamashita, K, Nureki, O. | Deposit date: | 2020-10-05 | Release date: | 2020-11-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun, 11, 2020
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5GLH
| Human endothelin receptor type-B in complex with ET-1 | Descriptor: | Endothelin Receptor Subtype-B, Peptide from Endothelin-1 | Authors: | Shihoya, W, Nishizawa, T, Okuta, A, Tani, K, Fujiyoshi, Y, Dohmae, N, Nureki, O, Doi, T. | Deposit date: | 2016-07-11 | Release date: | 2016-09-07 | Last modified: | 2020-02-26 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Activation mechanism of endothelin ETB receptor by endothelin-1. Nature, 537, 2016
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5H36
| Crystal structures of the TRIC trimeric intracellular cation channel orthologue from Rhodobacter sphaeroides | Descriptor: | 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE, Uncharacterized protein TRIC | Authors: | Kasuya, G, Hiraizumi, M, Hattori, M, Nureki, O. | Deposit date: | 2016-10-20 | Release date: | 2017-01-11 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (3.409 Å) | Cite: | Crystal structures of the TRIC trimeric intracellular cation channel orthologues Cell Res., 26, 2016
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