7C0M
 
 | | Human cGAS-nucleosome complex | | Descriptor: | Cyclic GMP-AMP synthase, DNA (145-MER), Histone H2A type 1-B/E, ... | | Authors: | Kujirai, T, Zierhut, C, Takizawa, Y, Kim, R, Negishi, L, Uruma, N, Hirai, S, Funabiki, H, Kurumizaka, H. | | Deposit date: | 2020-05-01 | | Release date: | 2020-09-16 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (3.9 Å) | | Cite: | Structural basis for the inhibition of cGAS by nucleosomes.
Science, 370, 2020
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5B3N
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5AY8
 | | Crystal structure of human nucleosome containing H3.Y | | Descriptor: | CHLORIDE ION, DNA (146-MER), H3.Y, ... | | Authors: | Kujirai, T, Horikoshi, N, Sato, K, Maehara, K, Machida, S, Osakabe, A, Kimura, H, Ohkawa, Y, Kurumizaka, H. | | Deposit date: | 2015-08-10 | | Release date: | 2016-04-06 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Structure and function of human histone H3.Y nucleosome
Nucleic Acids Res., 44, 2016
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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 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis
To Be Published
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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 | | Method: | ELECTRON MICROSCOPY (3.13 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis
To Be Published
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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 | | Method: | ELECTRON MICROSCOPY (4.1 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis
To Be Published
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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 | | Method: | ELECTRON MICROSCOPY (2.7 Å) | | Cite: | Multiple structures of RNA polymerase II isolated from human nuclei by ChIP-CryoEM analysis
To Be Published
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6A5L
 | | RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA | | Descriptor: | DNA (198-MER), DNA (42-MER), DNA-directed RNA polymerase subunit, ... | | Authors: | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | Deposit date: | 2018-06-24 | | Release date: | 2018-10-03 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (5.6 Å) | | Cite: | 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 | | 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 (8.7 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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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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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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6A5T
 | | RNA polymerase II elongation complex stalled at SHL(-1) 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 (6.7 Å) | | Cite: | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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6INQ
 | | RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA (+1 position) | | Descriptor: | DNA (198-MER), DNA (31-MER), DNA-directed RNA polymerase subunit, ... | | Authors: | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | Deposit date: | 2018-10-26 | | Release date: | 2019-04-03 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (6.9 Å) | | Cite: | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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8KD1
 | | Structure of nucleosome complexed with one DEK molecule | | Descriptor: | DNA (193-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Kujirai, T, Echigoya, K, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2023-08-08 | | Release date: | 2025-03-12 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Structural insights into how DEK nucleosome binding facilitates H3K27 trimethylation in chromatin.
Nat.Struct.Mol.Biol., 2025
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8KCY
 | | Structure of nucleosome complexed with two DEK molecules | | Descriptor: | DNA (193-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Kujirai, T, Echigoya, K, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2023-08-08 | | Release date: | 2025-03-05 | | Last modified: | 2025-03-12 | | Method: | ELECTRON MICROSCOPY (2.8 Å) | | Cite: | Structural insights into how DEK nucleosome binding facilitates H3K27 trimethylation in chromatin.
Nat.Struct.Mol.Biol., 2025
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8KE0
 | | Structure of H1.2 bound to the nucleosome | | Descriptor: | DNA (193-MER), Histone H1.2, Histone H2A type 1-B/E, ... | | Authors: | Kujirai, T, Echigoya, K, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2023-08-11 | | Release date: | 2025-03-12 | | Method: | ELECTRON MICROSCOPY (4 Å) | | Cite: | Structural insights into how DEK nucleosome binding facilitates H3K27 trimethylation in chromatin.
Nat.Struct.Mol.Biol., 2025
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8YNY
 | | Structure of Cas9-sgRNA ribonucleoprotein bound to nucleosome | | Descriptor: | CRISPR-associated endonuclease Cas9/Csn1, DNA (17-mer), DNA (175-mer), ... | | Authors: | Nagamura, R, Kujirai, T, Kusakizako, T, Hirano, H, Kurumizaka, H, Nureki, O. | | Deposit date: | 2024-03-12 | | Release date: | 2025-01-22 | | Method: | ELECTRON MICROSCOPY (4.52 Å) | | Cite: | Structural insights into how Cas9 targets nucleosomes.
Nat Commun, 15, 2024
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8HE5
 | | RNA polymerase II elongation complex bound with Rad26 and Elf1, stalled at SHL(-3.5) of the nucleosome | | Descriptor: | DNA (198-MER), DNA repair protein, DNA-directed RNA polymerase subunit, ... | | Authors: | Osumi, K, Kujirai, T, Ehara, H, Kinoshita, C, Saotome, M, Kagawa, W, Sekine, S, Takizawa, Y, Kurumizaka, H. | | Deposit date: | 2022-11-07 | | Release date: | 2023-07-05 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (6.95 Å) | | Cite: | Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome.
J.Mol.Biol., 435, 2023
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7XSE
 | | RNA polymerase II elongation complex transcribing a nucleosome (EC42) | | Descriptor: | Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, Paf1p, ... | | Authors: | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2022-05-13 | | Release date: | 2022-09-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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7XSX
 | | RNA polymerase II elongation complex transcribing a nucleosome (EC49) | | Descriptor: | Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, Paf1p, ... | | Authors: | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2022-05-15 | | Release date: | 2022-09-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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7XTD
 | | RNA polymerase II elongation complex transcribing a nucleosome (EC58oct) | | Descriptor: | Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, Paf1p, ... | | Authors: | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2022-05-16 | | Release date: | 2022-09-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.9 Å) | | Cite: | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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7XSZ
 | | RNA polymerase II elongation complex transcribing a nucleosome (EC115) | | Descriptor: | Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, Paf1p, ... | | Authors: | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2022-05-15 | | Release date: | 2022-09-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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7XT7
 | | RNA polymerase II elongation complex transcribing a nucleosome (EC49B) | | Descriptor: | Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, Paf1p, ... | | Authors: | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2022-05-16 | | Release date: | 2022-10-12 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (4.2 Å) | | Cite: | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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7XN7
 | | RNA polymerase II elongation complex containing Spt4/5, Elf1, Spt6, Spn1 and Paf1C | | Descriptor: | Chromatin elongation factor SPT5, Component of the Paf1p complex, Constituent of Paf1 complex with RNA polymerase II, ... | | Authors: | Ehara, H, Kujirai, T, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2022-04-28 | | Release date: | 2022-09-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT.
Science, 377, 2022
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