3AQP
| Crystal structure of SecDF, a translocon-associated membrane protein, from Thermus thrmophilus | Descriptor: | Probable SecDF protein-export membrane protein | Authors: | Tsukazaki, T, Mori, H, Echizen, Y, Ishitani, R, Fukai, S, Tanaka, T, Perederina, A, Vassylyev, D.G, Kohno, T, Ito, K, Nureki, O. | Deposit date: | 2010-11-16 | Release date: | 2011-05-18 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Structure and function of a membrane component SecDF that enhances protein export Nature, 474, 2011
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2ZQP
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2ZJS
| Crystal Structure of SecYE translocon from Thermus thermophilus with a Fab fragment | Descriptor: | Fab56 (heavy chain), Fab56 (light chain), Preprotein translocase SecE subunit, ... | Authors: | Tsukazaki, T, Mori, H, Fukai, S, Ishitani, R, Perederina, A, Vassylyev, D.G, Ito, K, Nureki, O. | Deposit date: | 2008-03-08 | Release date: | 2008-10-14 | Last modified: | 2021-11-10 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Conformational transition of Sec machinery inferred from bacterial SecYE structures Nature, 455, 2008
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2RRN
| Solution structure of SecDF periplasmic domain P4 | Descriptor: | Probable SecDF protein-export membrane protein | Authors: | Tanaka, T, Tsukazaki, T, Echizen, Y, Nureki, O, Kohno, T. | Deposit date: | 2011-01-30 | Release date: | 2011-05-18 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Structure and function of a membrane component SecDF that enhances protein export Nature, 474, 2011
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7WAX
| MurJ inward occluded form | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, (4S)-2-METHYL-2,4-PENTANEDIOL, lipid II flippase MurJ | Authors: | Tsukazaki, T, Kohga, H, Tanaka, Y, Yoshikaie, K, Taniguchi, K, Fujimoto, K. | Deposit date: | 2021-12-15 | Release date: | 2022-06-01 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.35 Å) | Cite: | Crystal structure of the lipid flippase MurJ in a "squeezed" form distinct from its inward- and outward-facing forms. Structure, 30, 2022
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7WAG
| Crystal structure of MurJ squeezed form | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, DI(HYDROXYETHYL)ETHER, Lipid II flippase MurJ | Authors: | Tsukazaki, T, Kohga, H, Tanaka, Y, Yoshikaie, K, Taniguchi, K, Fujimoto, K. | Deposit date: | 2021-12-14 | Release date: | 2022-06-01 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.55 Å) | Cite: | Crystal structure of the lipid flippase MurJ in a "squeezed" form distinct from its inward- and outward-facing forms. Structure, 30, 2022
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7WAW
| MurJ inward closed form | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, lipid II flippase MurJ | Authors: | Tsukazaki, T, Kohga, H, Tanaka, Y, Yoshikaie, K, Taniguchi, K, Fujimoto, K. | Deposit date: | 2021-12-15 | Release date: | 2022-06-01 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal structure of the lipid flippase MurJ in a "squeezed" form distinct from its inward- and outward-facing forms. Structure, 30, 2022
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3AQO
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5XAM
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5XAP
| Crystal structure of SecDF in I form (C2 space group) | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, DI(HYDROXYETHYL)ETHER, Protein translocase subunit SecD | Authors: | Tsukazaki, T, Tanaka, Y, Furukwa, A. | Deposit date: | 2017-03-14 | Release date: | 2017-05-17 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.605 Å) | Cite: | Tunnel Formation Inferred from the I-Form Structures of the Proton-Driven Protein Secretion Motor SecDF Cell Rep, 19, 2017
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5XAN
| Crystal structure of SecDF in I form (P212121 space group) | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, POLYETHYLENE GLYCOL (N=34), Protein translocase subunit SecD | Authors: | Tsukazaki, T, Tanaka, Y, Furukwa, A. | Deposit date: | 2017-03-14 | Release date: | 2017-05-17 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | Tunnel Formation Inferred from the I-Form Structures of the Proton-Driven Protein Secretion Motor SecDF Cell Rep, 19, 2017
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6AL2
| Crystal structure of E. coli YidC at 2.8 A resolution | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Membrane protein insertase YidC | Authors: | Tanaka, Y, Tsukazaki, T, Izumioka, A, Hamid, A.A, Fujii, A. | Deposit date: | 2018-09-05 | Release date: | 2018-11-07 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | 2.8-angstrom crystal structure of Escherichia coli YidC revealing all core regions, including flexible C2 loop. Biochem. Biophys. Res. Commun., 505, 2018
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5AWW
| Precise Resting State of Thermus thermophilus SecYEG | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Protein translocase subunit SecE, Protein translocase subunit SecY, ... | Authors: | Tanaka, Y, Sugano, Y, Takemoto, M, Kusakizako, T, Kumazaki, K, Ishitani, R, Nureki, O, Tsukazaki, T. | Deposit date: | 2015-07-10 | Release date: | 2015-11-25 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.724 Å) | Cite: | Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State. Cell Rep, 13, 2015
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5CH4
| Peptide-Bound State of Thermus thermophilus SecYEG | Descriptor: | Protein translocase subunit SecE, Protein translocase subunit SecY, Putative preprotein translocase, ... | Authors: | Tanaka, Y, Sugano, Y, Takemoto, M, Kusakizako, T, Kumazaki, K, Ishitani, R, Nureki, O, Tsukazaki, T. | Deposit date: | 2015-07-10 | Release date: | 2015-11-25 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.64 Å) | Cite: | Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State. Cell Rep, 13, 2015
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6LEO
| Crystal structure of thiosulfate transporter YeeE from Spirochaeta thermophila | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Sulf_transp domain-containing protein, THIOSULFATE | Authors: | Tanaka, Y, Tsukazaki, T, Yoshikaie, K, Takeuchi, A, Uchino, S, Sugano, Y. | Deposit date: | 2019-11-26 | Release date: | 2020-09-02 | Last modified: | 2020-09-30 | Method: | X-RAY DIFFRACTION (2.52 Å) | Cite: | Crystal structure of a YeeE/YedE family protein engaged in thiosulfate uptake. Sci Adv, 6, 2020
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6LEP
| Crystal structure of thiosulfate transporter YeeE inactive mutant - C91A | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Sulf_transp domain-containing protein, THIOSULFATE | Authors: | Tanaka, Y, Tsukazaki, T, Yoshikaie, K, Sugano, Y, Takeuchi, A, Uchino, S. | Deposit date: | 2019-11-26 | Release date: | 2020-09-02 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Crystal structure of a YeeE/YedE family protein engaged in thiosulfate uptake. Sci Adv, 6, 2020
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8J4C
| YeeE(TsuA)-YeeD(TsuB) complex for thiosulfate uptake | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Spirochaeta thermophila YeeE(TsuA)-YeeD(TsuB),UPF0033 domain-containing protein, SirA-like domain-containing protein (chimera), ... | Authors: | Ikei, M, Miyazaki, R, Monden, K, Naito, Y, Takeuchi, A, Takahashi, Y.S, Tanaka, Y, Ichikawa, M, Tsukazaki, T. | Deposit date: | 2023-04-19 | Release date: | 2024-03-27 | Last modified: | 2024-10-09 | Method: | X-RAY DIFFRACTION (3.34 Å) | Cite: | YeeD is an essential partner for YeeE-mediated thiosulfate uptake in bacteria and regulates thiosulfate ion decomposition. Plos Biol., 22, 2024
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7DQK
| A nicotine MATE transporter, Nicotiana tabacum MATE2 (NtMATE2) | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ... | Authors: | Tanaka, Y, Tsukazaki, T, Sasaki, A, Iwaki, S. | Deposit date: | 2020-12-24 | Release date: | 2021-06-09 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.5 Å) | Cite: | Crystal structures of a nicotine MATE transporter provide insight into its mechanism of substrate transport. Febs Lett., 595, 2021
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8K1R
| YeeE(TsuA)-YeeD(TsuB) complex for thiosulfate uptake | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Spirochaeta thermophila YeeE(TsuA)-YeeD(TsuB),UPF0033 domain-containing protein, SirA-like domain-containing protein (chimera) | Authors: | Ikei, M, Miyazaki, R, Monden, K, Naito, Y, Takeuchi, A, Takahashi, Y.S, Tanaka, Y, Ichikawa, M, Tsukazaki, T. | Deposit date: | 2023-07-11 | Release date: | 2024-03-27 | Last modified: | 2024-10-09 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | YeeD is an essential partner for YeeE-mediated thiosulfate uptake in bacteria and regulates thiosulfate ion decomposition. Plos Biol., 22, 2024
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2IPC
| Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer | Descriptor: | Preprotein translocase SecA subunit | Authors: | Vassylyev, D.G, Mori, H, Vassylyeva, M.N, Tsukazaki, T, Kimura, Y, Tahirov, T.H, Ito, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2006-10-12 | Release date: | 2006-11-28 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal Structure of the Translocation ATPase SecA from Thermus thermophilus Reveals a Parallel, Head-to-Head Dimer. J.Mol.Biol., 364, 2006
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6AIT
| Crystal structure of E. coli BepA | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Beta-barrel assembly-enhancing protease, ZINC ION | Authors: | Umar, M.S.M, Tanaka, Y, Kamikubo, H, Tsukazaki, T. | Deposit date: | 2018-08-24 | Release date: | 2018-12-26 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.598 Å) | Cite: | Structural Basis for the Function of the beta-Barrel Assembly-Enhancing Protease BepA. J. Mol. Biol., 431, 2019
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5XI8
| Structure and function of the TPR domain | Descriptor: | Beta-barrel assembly-enhancing protease | Authors: | Tanaka, Y, Tsukazaki, T. | Deposit date: | 2017-04-26 | Release date: | 2017-10-18 | Last modified: | 2024-10-16 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | The TPR domain of BepA is required for productive interaction with substrate proteins and the beta-barrel assembly machinery complex. Mol. Microbiol., 106, 2017
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5XJJ
| Crystal structure of a MATE family protein | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, multi drug efflux transporter | Authors: | Tanaka, Y, Tsukazaki, T, Iwaki, S. | Deposit date: | 2017-05-02 | Release date: | 2017-09-20 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal Structure of a Plant Multidrug and Toxic Compound Extrusion Family Protein Structure, 25, 2017
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5YHF
| Crystal structure of SecDF in Super-membrane-facing form | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, DI(HYDROXYETHYL)ETHER, Protein translocase subunit SecDF | Authors: | Tanaka, Y, Tsukazaki, T, Yoshikaie, K, Furukawa, A. | Deposit date: | 2017-09-28 | Release date: | 2018-02-14 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Remote Coupled Drastic beta-Barrel to beta-Sheet Transition of the Protein Translocation Motor. Structure, 26, 2018
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5YCK
| Crystal structure of a MATE family protein derived from Camelina sativa at 2.3 angstrom | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, RUBIDIUM ION, multi drug efflux transporter | Authors: | Tanaka, Y, Tsukazaki, T, Iwaki, S. | Deposit date: | 2017-09-07 | Release date: | 2017-09-27 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystal Structure of a Plant Multidrug and Toxic Compound Extrusion Family Protein Structure, 25, 2017
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