5X50
 
 | | RNA Polymerase II from Komagataella Pastoris (Type-2 crystal) | | Descriptor: | DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II subunit, ... | | Authors: | Ehara, H, Umehara, T, Sekine, S, Yokoyama, S. | | Deposit date: | 2017-02-14 | | Release date: | 2017-05-17 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (4.293 Å) | | Cite: | Crystal structure of RNA polymerase II from Komagataella pastoris
Biochem. Biophys. Res. Commun., 487, 2017
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5X51
 | | RNA Polymerase II from Komagataella Pastoris (Type-3 crystal) | | Descriptor: | DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II subunit, ... | | Authors: | Ehara, H, Umehara, T, Sekine, S, Yokoyama, S. | | Deposit date: | 2017-02-14 | | Release date: | 2017-05-17 | | Method: | X-RAY DIFFRACTION (6.996 Å) | | Cite: | Crystal structure of RNA polymerase II from Komagataella pastoris
Biochem. Biophys. Res. Commun., 487, 2017
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5X4Z
 | | RNA Polymerase II from Komagataella Pastoris (Type-1 crystal) | | Descriptor: | DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II subunit, ... | | Authors: | Ehara, H, Umehara, T, Sekine, S, Yokoyama, S. | | Deposit date: | 2017-02-14 | | Release date: | 2017-05-17 | | Method: | X-RAY DIFFRACTION (7.8 Å) | | Cite: | Crystal structure of RNA polymerase II from Komagataella pastoris
Biochem. Biophys. Res. Commun., 487, 2017
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5XJ0
 | | T. thermophilus RNA polymerase holoenzyme bound with gp39 and gp76 | | Descriptor: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | Authors: | Ooi, W.Y, Murayama, Y, Mekler, V, Minakhin, L, Severinov, K, Yokoyama, S, Sekine, S. | | Deposit date: | 2017-04-28 | | Release date: | 2017-12-20 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (4.004 Å) | | Cite: | 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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6A5P
 | | RNA polymerase II elongation complex stalled at SHL(-5) of the nucleosome | | Descriptor: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | Deposit date: | 2018-06-25 | | Release date: | 2018-10-03 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (7 Å) | | Cite: | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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6A5U
 | | RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA, tilt conformation | | Descriptor: | DNA (198-MER), DNA (40-MER), DNA-directed RNA polymerase subunit, ... | | Authors: | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | Deposit date: | 2018-06-25 | | Release date: | 2018-10-03 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (7.6 Å) | | Cite: | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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6A5O
 | | RNA polymerase II elongation complex stalled at SHL(-6) of the nucleosome | | Descriptor: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | Deposit date: | 2018-06-25 | | Release date: | 2018-10-03 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (9.9 Å) | | Cite: | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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5XON
 | | RNA Polymerase II elongation complex bound with Spt4/5 and TFIIS | | Descriptor: | DNA (48-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Ehara, H, Yokoyama, T, Shigematsu, H, Shirouzu, M, Sekine, S. | | Deposit date: | 2017-05-29 | | Release date: | 2017-08-16 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (3.83 Å) | | Cite: | 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 | | Descriptor: | DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA (30-MER), DNA (39-MER), ... | | Authors: | Ehara, H, Shirouzu, M, Sekine, S. | | Deposit date: | 2017-05-28 | | Release date: | 2017-08-16 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structure of the complete elongation complex of RNA polymerase II with basal factors
Science, 357, 2017
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4ZU9
 | | Crystal structure of bacterial selenocysteine-specific elongation factor EF-Sec | | Descriptor: | CYSTEINE, Elongation factor SelB, MAGNESIUM ION, ... | | Authors: | Itoh, Y, Sekine, S, Yokoyama, S. | | Deposit date: | 2015-05-15 | | Release date: | 2015-09-23 | | Last modified: | 2020-02-19 | | Method: | X-RAY DIFFRACTION (3.191 Å) | | Cite: | Crystal structure of the full-length bacterial selenocysteine-specific elongation factor SelB
Nucleic Acids Res., 43, 2015
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5B40
 | | The nucleosome structure containing H2B-K120 and H4-K31 monoubiquitinations | | Descriptor: | DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Machida, S, Sekine, S, Nishiyama, Y, Horikoshi, N, Kurumizaka, H. | | Deposit date: | 2016-03-22 | | Release date: | 2016-06-22 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.33 Å) | | Cite: | Monoubiquitination of histones H2B and H4 changes the nucleosome stability without affecting the nucleosome structure
To Be Published
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3AOI
 | | RNA polymerase-Gfh1 complex (Crystal type 2) | | Descriptor: | Anti-cleavage anti-GreA transcription factor Gfh1, DNA (5'-D(*GP*GP*TP*CP*TP*GP*TP*AP*TP*CP*AP*CP*GP*AP*GP*CP*CP*A*CP*CP*GP*CP*CP*GP*CP*AP*T)-3'), DNA-directed RNA polymerase subunit alpha, ... | | Authors: | Tagami, S, Sekine, S, Kumarevel, T, Yamamoto, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2010-09-30 | | Release date: | 2010-12-08 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (4.3 Å) | | Cite: | Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein
Nature, 468, 2010
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3AOH
 | | RNA polymerase-Gfh1 complex (Crystal type 1) | | Descriptor: | Anti-cleavage anti-GreA transcription factor Gfh1, DNA (5'-D(*GP*GP*TP*CP*TP*GP*TP*AP*TP*CP*AP*CP*GP*AP*GP*CP*CP*AP*CP*CP*GP*CP*CP*GP*CP*AP*T)-3'), DNA-directed RNA polymerase subunit alpha, ... | | Authors: | Tagami, S, Sekine, S, Kumarevel, T, Yamamoto, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2010-09-28 | | Release date: | 2010-12-08 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (4.1 Å) | | Cite: | Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein
Nature, 468, 2010
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1UEB
 | | Crystal structure of translation elongation factor P from Thermus thermophilus HB8 | | Descriptor: | elongation factor P | | Authors: | Hanawa-Suetsugu, K, Sekine, S, Sakai, H, Hori-Takemoto, C, Terada, T, Kuramitsu, S, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-05-09 | | Release date: | 2004-05-25 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | Crystal structure of elongation factor P from Thermus thermophilus HB8
Proc.Natl.Acad.Sci.USA, 101, 2004
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7VSX
 | | Crystal structure of QL-nanoKAZ (Reverse mutant of nanoKAZ with L18Q and V27L) | | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, QLnK | | Authors: | Tomabechi, Y, Sekine, S, Shirouzu, M, Takamitsu, H, Satoshi, I. | | Deposit date: | 2021-10-27 | | Release date: | 2022-08-24 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.698 Å) | | Cite: | Reverse mutants of the catalytic 19 kDa mutant protein (nanoKAZ/nanoLuc) from Oplophorus luciferase with coelenterazine as preferred substrate.
Plos One, 17, 2022
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1X56
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1X55
 | | Crystal structure of asparaginyl-tRNA synthetase from Pyrococcus horikoshii complexed with asparaginyl-adenylate analogue | | Descriptor: | 5'-O-[N-(L-ASPARAGINYL)SULFAMOYL]ADENOSINE, Asparaginyl-tRNA synthetase, MAGNESIUM ION, ... | | Authors: | Iwasaki, W, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-05-15 | | Release date: | 2006-05-23 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural Basis of the Water-assisted Asparagine Recognition by Asparaginyl-tRNA Synthetase.
J.Mol.Biol., 360, 2006
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1WDT
 | | Crystal structure of ttk003000868 from Thermus thermophilus HB8 | | Descriptor: | GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, elongation factor G homolog | | Authors: | Wang, H, Takemoto-Hori, C, Murayama, K, Sekine, S, Terada, T, Shirouzu, M, Kuramitsu, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2004-05-17 | | Release date: | 2005-05-17 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of ttk003000868 from Thermus thermophilus HB8
To be published
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1X54
 | | Crystal structure of asparaginyl-tRNA synthetase from Pyrococcus horikoshii complexed with asparaginyl-adenylate | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 4-AMINO-1,4-DIOXOBUTAN-2-AMINIUM ADENOSINE-5'-MONOPHOSPHATE, Asparaginyl-tRNA synthetase, ... | | Authors: | Iwasaki, W, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-05-15 | | Release date: | 2006-05-23 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Structural Basis of the Water-assisted Asparagine Recognition by Asparaginyl-tRNA Synthetase.
J.Mol.Biol., 360, 2006
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3WOF
 | | Crystal structure of P23-45 gp39 (6-132) bound to Thermus thermophilus RNA polymerase beta-flap domain | | Descriptor: | DNA-directed RNA polymerase subunit beta, Putative uncharacterized protein | | Authors: | Tagami, S, Sekine, S, Minakhin, L, Esyunina, D, Akasaka, R, Shirouzu, M, Kulbachinskiy, A, Severinov, K, Yokoyama, S. | | Deposit date: | 2013-12-26 | | Release date: | 2014-03-12 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.298 Å) | | Cite: | Structural basis for promoter specificity switching of RNA polymerase by a phage factor.
Genes Dev., 28, 2014
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3WOE
 | | Crystal structure of P23-45 gp39 (6-109) bound to Thermus thermophilus RNA polymerase beta-flap domain | | Descriptor: | DNA-directed RNA polymerase subunit beta, Putative uncharacterized protein | | Authors: | Tagami, S, Sekine, S, Minakhin, L, Esyunina, D, Akasaka, R, Shirouzu, M, Kulbachinskiy, A, Severinov, K, Yokoyama, S. | | Deposit date: | 2013-12-26 | | Release date: | 2014-03-12 | | Last modified: | 2015-03-25 | | Method: | X-RAY DIFFRACTION (2.351 Å) | | Cite: | Structural basis for promoter specificity switching of RNA polymerase by a phage factor.
Genes Dev., 28, 2014
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3WOD
 | | RNA polymerase-gp39 complex | | Descriptor: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | Authors: | Tagami, S, Sekine, S, Minakhin, L, Esyunina, D, Akasaka, R, Shirouzu, M, Kulbachinskiy, A, Severinov, K, Yokoyama, S. | | Deposit date: | 2013-12-26 | | Release date: | 2014-03-12 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.6 Å) | | Cite: | Structural basis for promoter specificity switching of RNA polymerase by a phage factor.
Genes Dev., 28, 2014
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8H0V
 | | RNA polymerase II transcribing a chromatosome (type I) | | Descriptor: | DNA (261-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Hirano, R, Ehara, H, Tomoya, K, Takizawa, Y, Sekine, S, Kurumizaka, H. | | Deposit date: | 2022-09-30 | | Release date: | 2022-12-07 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Structural basis of RNA polymerase II transcription on the chromatosome containing linker histone H1.
Nat Commun, 13, 2022
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8H0W
 | | RNA polymerase II transcribing a chromatosome (type II) | | Descriptor: | DNA (261-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Hirano, R, Ehara, H, Tomoya, K, Takizawa, Y, Sekine, S, Kurumizaka, H. | | Deposit date: | 2022-09-30 | | Release date: | 2022-12-07 | | Method: | ELECTRON MICROSCOPY (4.6 Å) | | Cite: | Structural basis of RNA polymerase II transcription on the chromatosome containing linker histone H1.
Nat Commun, 13, 2022
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8GZP
 | | Cryo-EM structure of the NS5-SLA complex | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, Genome polyprotein, MAGNESIUM ION, ... | | Authors: | Osawa, T, Ehara, H, Sekine, S. | | Deposit date: | 2022-09-27 | | Release date: | 2023-08-02 | | Last modified: | 2023-08-23 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Structures of dengue virus RNA replicase complexes.
Mol.Cell, 83, 2023
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