7XT7
 
 | | RNA polymerase II elongation complex transcribing a nucleosome (EC49B) | | 分子名称: | Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, Paf1p, ... | | 著者 | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | 登録日 | 2022-05-16 | | 公開日 | 2022-10-12 | | 最終更新日 | 2024-07-03 | | 実験手法 | ELECTRON MICROSCOPY (4.2 Å) | | 主引用文献 | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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5XON
 | | RNA Polymerase II elongation complex bound with Spt4/5 and TFIIS | | 分子名称: | DNA (48-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Ehara, H, Yokoyama, T, Shigematsu, H, Shirouzu, M, Sekine, S. | | 登録日 | 2017-05-29 | | 公開日 | 2017-08-16 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (3.83 Å) | | 主引用文献 | Structure of the complete elongation complex of RNA polymerase II with basal factors
Science, 357, 2017
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5XOG
 | | RNA Polymerase II elongation complex bound with Spt5 KOW5 and Elf1 | | 分子名称: | DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA (30-MER), DNA (39-MER), ... | | 著者 | Ehara, H, Shirouzu, M, Sekine, S. | | 登録日 | 2017-05-28 | | 公開日 | 2017-08-16 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (3 Å) | | 主引用文献 | Structure of the complete elongation complex of RNA polymerase II with basal factors
Science, 357, 2017
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7EEO
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7WBX
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-3) of the nucleosome | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Osumi, K, Kujirai, T, Ehara, H, Sekine, S, Takizawa, Y, Kurumizaka, H. | | 登録日 | 2021-12-17 | | 公開日 | 2023-07-05 | | 最終更新日 | 2024-06-26 | | 実験手法 | ELECTRON MICROSCOPY (4 Å) | | 主引用文献 | Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome.
J.Mol.Biol., 435, 2023
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7WBW
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-3.5) of the nucleosome | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Osumi, K, Kujirai, T, Ehara, H, Sekine, S, Takizawa, Y, Kurumizaka, H. | | 登録日 | 2021-12-17 | | 公開日 | 2023-07-05 | | 最終更新日 | 2024-06-26 | | 実験手法 | ELECTRON MICROSCOPY (7.1 Å) | | 主引用文献 | Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome.
J.Mol.Biol., 435, 2023
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7WBV
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-4) of the nucleosome | | 分子名称: | DNA (159-MER), DNA (198-MER), DNA-directed RNA polymerase subunit, ... | | 著者 | Osumi, K, Kujirai, T, Ehara, H, Sekine, S, Takizawa, Y, Kurumizaka, H. | | 登録日 | 2021-12-17 | | 公開日 | 2023-07-05 | | 最終更新日 | 2024-06-26 | | 実験手法 | ELECTRON MICROSCOPY (4.1 Å) | | 主引用文献 | Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome.
J.Mol.Biol., 435, 2023
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8HSJ
 | | Thermus thermophilus transcription termination factor Rho bound with ADP-BeF3 | | 分子名称: | ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, MAGNESIUM ION, ... | | 著者 | Murayama, Y, Ehara, H, Sekine, S. | | 登録日 | 2022-12-19 | | 公開日 | 2023-05-03 | | 最終更新日 | 2024-07-03 | | 実験手法 | ELECTRON MICROSCOPY (3.6 Å) | | 主引用文献 | Structural basis of the transcription termination factor Rho engagement with transcribing RNA polymerase from Thermus thermophilus.
Sci Adv, 9, 2023
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5XJ0
 | | T. thermophilus RNA polymerase holoenzyme bound with gp39 and gp76 | | 分子名称: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | 著者 | Ooi, W.Y, Murayama, Y, Mekler, V, Minakhin, L, Severinov, K, Yokoyama, S, Sekine, S. | | 登録日 | 2017-04-28 | | 公開日 | 2017-12-20 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (4.004 Å) | | 主引用文献 | A Thermus phage protein inhibits host RNA polymerase by preventing template DNA strand loading during open promoter complex formation
Nucleic Acids Res., 46, 2018
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7XN7
 | | RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt6, Spn1 and Paf1C | | 分子名称: | Chromatin elongation factor SPT5, Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, ... | | 著者 | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | 登録日 | 2022-04-28 | | 公開日 | 2022-09-07 | | 最終更新日 | 2024-07-03 | | 実験手法 | ELECTRON MICROSCOPY (3.1 Å) | | 主引用文献 | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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1IVS
 | | CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE | | 分子名称: | N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, Valyl-tRNA synthetase, tRNA (Val) | | 著者 | Fukai, S, Nureki, O, Sekine, S.-I, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2002-03-29 | | 公開日 | 2003-02-11 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.9 Å) | | 主引用文献 | Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase
RNA, 9, 2003
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1GAX
 | | CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE | | 分子名称: | N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, TRNA(VAL), VALYL-TRNA SYNTHETASE, ... | | 著者 | Fukai, S, Nureki, O, Sekine, S, Shimada, A, Tao, J, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2000-06-23 | | 公開日 | 2000-12-06 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.9 Å) | | 主引用文献 | Structural basis for double-sieve discrimination of L-valine from L-isoleucine and L-threonine by the complex of tRNA(Val) and valyl-tRNA synthetase.
Cell(Cambridge,Mass.), 103, 2000
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8HSH
 | | Thermus thermophilus RNA polymerase coreenzyme | | 分子名称: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | 著者 | Murayama, Y, Ehara, H, Sekine, S. | | 登録日 | 2022-12-19 | | 公開日 | 2023-05-03 | | 最終更新日 | 2024-07-03 | | 実験手法 | ELECTRON MICROSCOPY (3.4 Å) | | 主引用文献 | Structural basis of the transcription termination factor Rho engagement with transcribing RNA polymerase from Thermus thermophilus.
Sci Adv, 9, 2023
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8HSG
 | | Thermus thermophilus RNA polymerase elongation complex | | 分子名称: | DNA (27-MER), DNA (37-MER), DNA-directed RNA polymerase subunit alpha, ... | | 著者 | Murayama, Y, Ehara, H, Sekine, S. | | 登録日 | 2022-12-19 | | 公開日 | 2023-05-03 | | 最終更新日 | 2024-07-03 | | 実験手法 | ELECTRON MICROSCOPY (3.2 Å) | | 主引用文献 | Structural basis of the transcription termination factor Rho engagement with transcribing RNA polymerase from Thermus thermophilus.
Sci Adv, 9, 2023
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6A5L
 | | RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA | | 分子名称: | DNA (198-MER), DNA (42-MER), DNA-directed RNA polymerase subunit, ... | | 著者 | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | 登録日 | 2018-06-24 | | 公開日 | 2018-10-03 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (5.6 Å) | | 主引用文献 | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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6A5R
 | | RNA polymerase II elongation complex stalled at SHL(-2) of the nucleosome | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | 登録日 | 2018-06-25 | | 公開日 | 2018-10-03 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (8.7 Å) | | 主引用文献 | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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6A5T
 | | RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | 登録日 | 2018-06-25 | | 公開日 | 2018-10-03 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (6.7 Å) | | 主引用文献 | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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6IR9
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-1) of the nucleosome | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | 登録日 | 2018-11-12 | | 公開日 | 2019-02-20 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (3.8 Å) | | 主引用文献 | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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6J50
 | | RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome (tilted conformation) | | 分子名称: | DNA (198-MER), DNA (41-MER), DNA-directed RNA polymerase subunit, ... | | 著者 | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | 登録日 | 2019-01-10 | | 公開日 | 2019-02-20 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (4.7 Å) | | 主引用文献 | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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6IZZ
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6J4W
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-5) of the nucleosome | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | 登録日 | 2019-01-10 | | 公開日 | 2019-02-20 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (7.9 Å) | | 主引用文献 | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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6IZX
 | | The RNA-dependent RNA polymerase domain of dengue 2 NS5, bound with RK-0404678 | | 分子名称: | 2-oxo-2H-1,3-benzoxathiol-5-yl acetate, COBALT (II) ION, Genome polyprotein, ... | | 著者 | Shimizu, H, Sekine, S. | | 登録日 | 2018-12-20 | | 公開日 | 2019-12-25 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.43 Å) | | 主引用文献 | Discovery of a small molecule inhibitor targeting dengue virus NS5 RNA-dependent RNA polymerase.
Plos Negl Trop Dis, 13, 2019
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6J4Y
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-1) of the nucleosome (+1B) | | 分子名称: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | 著者 | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | 登録日 | 2019-01-10 | | 公開日 | 2019-02-20 | | 最終更新日 | 2024-03-27 | | 実験手法 | ELECTRON MICROSCOPY (4.3 Å) | | 主引用文献 | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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7YQ8
 | | Cryo-EM structure of human topoisomerase II beta in complex with DNA and etoposide | | 分子名称: | (5S,5aR,8aR,9R)-9-(4-hydroxy-3,5-dimethoxyphenyl)-8-oxo-5,5a,6,8,8a,9-hexahydrofuro[3',4':6,7]naphtho[2,3-d][1,3]dioxol -5-yl 4,6-O-[(1R)-ethylidene]-beta-D-glucopyranoside, 50-mer DNA, DNA topoisomerase 2-beta, ... | | 著者 | Naganuma, M, Ehara, H, Kim, D, Nakagawa, R, Cong, A, Bu, H, Jeong, J, Jang, J, Schellenberg, M.J, Bunch, H, Sekine, S. | | 登録日 | 2022-08-05 | | 公開日 | 2024-01-03 | | 実験手法 | ELECTRON MICROSCOPY (3.9 Å) | | 主引用文献 | ERK2-topoisomerase II regulatory axis is important for gene activation in immediate early genes.
Nat Commun, 14, 2023
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1IYW
 | | Preliminary Structure of Thermus thermophilus Ligand-Free Valyl-tRNA Synthetase | | 分子名称: | Valyl-tRNA Synthetase | | 著者 | Fukai, S, Nureki, O, Sekine, S, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2002-09-10 | | 公開日 | 2003-06-17 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (4 Å) | | 主引用文献 | Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase
RNA, 9, 2003
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