6J4X
 
 | | RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-1) of the nucleosome (+1A) | | Descriptor: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2019-01-10 | | Release date: | 2019-02-20 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (4.3 Å) | | Cite: | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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6J4Z
 | | RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome | | Descriptor: | DNA (198-MER), DNA (42-MER), DNA-directed RNA polymerase subunit, ... | | Authors: | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2019-01-10 | | Release date: | 2019-02-20 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (4.1 Å) | | Cite: | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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6J51
 | | RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome, weak Elf1 (+1 position) | | Descriptor: | DNA (198-MER), DNA (36-MER), DNA-directed RNA polymerase subunit, ... | | Authors: | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2019-01-10 | | Release date: | 2019-02-20 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (4.2 Å) | | Cite: | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 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) | | Descriptor: | DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Ehara, H, Kujirai, T, Fujino, Y, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2019-01-10 | | Release date: | 2019-02-20 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (4.3 Å) | | Cite: | Structural insight into nucleosome transcription by RNA polymerase II with elongation factors.
Science, 363, 2019
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8U9X
 | | STRUCTURAL BASIS OF TRANSCRIPTION: RNA POLYMERASE II SUBSTRATE BINDING AND METAL COORDINATION AT 3.0 A OF T834P MUTANT USING A FREE-ELECTRON LASER | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, ... | | Authors: | Arjunan, P, Calero, G, Kaplan, C.D. | | Deposit date: | 2023-09-20 | | Release date: | 2024-09-18 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (3.05 Å) | | Cite: | Structural basis of transcription: RNA polymerase II substrate binding and metal coordination using a free-electron laser.
Proc.Natl.Acad.Sci.USA, 121, 2024
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7ML2
 | | RNA polymerase II pre-initiation complex (PIC3) | | Descriptor: | BJ4_G0004860.mRNA.1.CDS.1, BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2024-11-13 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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7ML0
 | | RNA polymerase II pre-initiation complex (PIC1) | | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2024-12-25 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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7ML1
 | | RNA polymerase II pre-initiation complex (PIC2) | | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2024-11-13 | | Method: | ELECTRON MICROSCOPY (4 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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7ML4
 | | RNA polymerase II initially transcribing complex (ITC) | | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2024-12-25 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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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 | | Last modified: | 2024-10-30 | | 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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1K83
 | | Crystal Structure of Yeast RNA Polymerase II Complexed with the Inhibitor Alpha Amanitin | | Descriptor: | ALPHA AMANITIN, DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE, DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE, ... | | Authors: | Bushnell, D.A, Cramer, P, Kornberg, R.D. | | Deposit date: | 2001-10-22 | | Release date: | 2002-02-13 | | Last modified: | 2023-08-16 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Structural Basis of Transcription: Alpha-Amanitin-RNA Polymerase II Cocrystal at 2.8 A Resolution.
Proc.Natl.Acad.Sci.USA, 99, 2002
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8XRJ
 | | RNA polymerase II elongation complex with upstream nucleosome extracted from human nuclei | | Descriptor: | DNA, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Kujirai, T, Kato, J, Yamamoto, K, Hirai, S, Negishi, L, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2024-01-07 | | Release date: | 2025-05-07 | | Last modified: | 2025-06-11 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis.
Nat Commun, 16, 2025
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8XVS
 | | RNA polymerase II elongation complex with downstream nucleosome extracted from human nuclei | | Descriptor: | DNA, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Kujirai, T, Kato, J, Yamamoto, K, Hirai, S, Negishi, L, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2024-01-15 | | Release date: | 2025-05-07 | | Last modified: | 2025-06-11 | | Method: | ELECTRON MICROSCOPY (4.1 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis.
Nat Commun, 16, 2025
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3J0K
 | | Orientation of RNA polymerase II within the human VP16-Mediator-pol II-TFIIF assembly | | Descriptor: | DNA-directed RNA polymerase II 13.6 kDa polypeptide, DNA-directed RNA polymerase II 140 kDa polypeptide, DNA-directed RNA polymerase II 19 kDa polypeptide, ... | | Authors: | Bernecky, C, Grob, P, Ebmeier, C.C, Nogales, E, Taatjes, D.J. | | Deposit date: | 2011-10-04 | | Release date: | 2011-10-19 | | Last modified: | 2024-11-27 | | Method: | ELECTRON MICROSCOPY (36 Å) | | Cite: | Molecular architecture of the human Mediator-RNA polymerase II-TFIIF assembly.
Plos Biol., 9, 2011
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8XSO
 | | RNA polymerase II elongation complex transcribing genomic DNA extracted from human nuclei | | Descriptor: | DNA, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Kujirai, T, Kato, J, Yamamoto, K, Hirai, S, Negishi, L, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2024-01-09 | | Release date: | 2025-05-07 | | Last modified: | 2025-06-11 | | Method: | ELECTRON MICROSCOPY (2.7 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis.
Nat Commun, 16, 2025
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8XRM
 | | RNA polymerase II elongation complex with DSIF, SPT6, and ELOF1 transcribing genomic DNA extracted from human nuclei | | Descriptor: | DNA, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Kujirai, T, Kato, J, Yamamoto, K, Hirai, S, Negishi, L, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2024-01-07 | | Release date: | 2025-05-07 | | Last modified: | 2025-06-11 | | Method: | ELECTRON MICROSCOPY (3.13 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis.
Nat Commun, 16, 2025
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7NW0
 | | RNA polymerase II pre-initiation complex with open promoter DNA | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, CDK-activating kinase assembly factor MAT1, ... | | Authors: | Aibara, S, Schilbach, S, Cramer, P. | | Deposit date: | 2021-03-16 | | Release date: | 2021-05-05 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (6.6 Å) | | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature, 594, 2021
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7NVZ
 | | RNA polymerase II pre-initiation complex with closed promoter DNA in distal position | | Descriptor: | CDK-activating kinase assembly factor MAT1, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, ... | | Authors: | Aibara, S, Schilbach, S, Cramer, P. | | Deposit date: | 2021-03-16 | | Release date: | 2021-05-05 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (7.2 Å) | | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature, 594, 2021
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7NVY
 | | RNA polymerase II pre-initiation complex with closed promoter DNA in proximal position | | Descriptor: | CDK-activating kinase assembly factor MAT1, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, ... | | Authors: | Aibara, S, Schilbach, S, Cramer, P. | | Deposit date: | 2021-03-16 | | Release date: | 2021-05-05 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (7.3 Å) | | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature, 594, 2021
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7NVU
 | | RNA polymerase II core pre-initiation complex with open promoter DNA | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Aibara, S, Schilbach, S, Cramer, P. | | Deposit date: | 2021-03-16 | | Release date: | 2021-05-05 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (2.5 Å) | | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature, 594, 2021
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7NVT
 | | RNA polymerase II core pre-initiation complex with closed promoter DNA in distal position | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Aibara, S, Schilbach, S, Cramer, P. | | Deposit date: | 2021-03-16 | | Release date: | 2021-05-05 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (2.9 Å) | | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature, 594, 2021
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7NVS
 | | RNA polymerase II core pre-initiation complex with closed promoter DNA in proximal position | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Aibara, S, Schilbach, S, Cramer, P. | | Deposit date: | 2021-03-16 | | Release date: | 2021-05-05 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (2.8 Å) | | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature, 594, 2021
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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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6EXV
 | | Structure of mammalian RNA polymerase II elongation complex inhibited by Alpha-amanitin | | Descriptor: | AMATOXIN, DNA (25-MER), DNA (36-MER), ... | | Authors: | Liu, X, Farnung, L, Wigge, C, Cramer, P. | | Deposit date: | 2017-11-09 | | Release date: | 2018-03-21 | | Last modified: | 2025-04-09 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Cryo-EM structure of a mammalian RNA polymerase II elongation complex inhibited by alpha-amanitin.
J. Biol. Chem., 293, 2018
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