6LA2
| 343 bp di-nucleosome harboring cohesive DNA termini assembled with linker histone H1.0 | Descriptor: | DNA (343-MER), Histone H1.0, Histone H2A type 1-B/E, ... | Authors: | Adhireksan, Z, Sharma, D, Lee, P.L, Davey, C.A. | Deposit date: | 2019-11-11 | Release date: | 2021-02-17 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.89 Å) | Cite: | Engineering nucleosomes for generating diverse chromatin assemblies. Nucleic Acids Res., 49, 2021
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7N8N
| Melbournevirus nucleosome like particle | Descriptor: | DNA (147-MER), Histone H2B-H2A doublet, Histone H4-H3 doublet | Authors: | Liu, Y, Toner, C.M, Zhou, K, Bowerman, S, Luger, K. | Deposit date: | 2021-06-15 | Release date: | 2021-08-04 | Last modified: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (3.89 Å) | Cite: | Virus-encoded histone doublets are essential and form nucleosome-like structures. Cell, 184, 2021
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8UQD
| Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (condition 2. RING not modeled in density) | Descriptor: | E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | Deposit date: | 2023-10-23 | Release date: | 2024-01-17 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (3.893 Å) | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
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8W9D
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6R8Z
| Cryo-EM structure of NCP_THF2(-1)-UV-DDB | Descriptor: | DNA damage-binding protein 1, DNA damage-binding protein 2, Histone H2A type 1-B/E, ... | Authors: | Matsumoto, S, Cavadini, S, Bunker, R.D, Thoma, N.H. | Deposit date: | 2019-04-02 | Release date: | 2019-06-12 | Last modified: | 2024-05-22 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | DNA damage detection in nucleosomes involves DNA register shifting. Nature, 571, 2019
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6M4H
| Structural mechanism of nucleosome dynamics governed by human histone variants H2A.B and H2A.Z.2.2 | Descriptor: | DNA (103-MER), Histone H2A-Bbd type 2/3, Histone H2B type 2-E, ... | Authors: | Zhou, M, Dai, L.C, Li, C.M, Shi, L.X, Huang, Y, Guo, Z.Q. | Deposit date: | 2020-03-07 | Release date: | 2020-09-23 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Structural basis of nucleosome dynamics modulation by histone variants H2A.B and H2A.Z.2.2. Embo J., 40, 2021
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6RNY
| PFV intasome - nucleosome strand transfer complex | Descriptor: | DNA (108-MER), DNA (128-MER), DNA (33-MER), ... | Authors: | Pye, V.E, Renault, L, Maskell, D.P, Cherepanov, P, Costa, A. | Deposit date: | 2019-05-09 | Release date: | 2019-09-25 | Last modified: | 2024-05-22 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Retroviral integration into nucleosomes through DNA looping and sliding along the histone octamer. Nat Commun, 10, 2019
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8SN5
| Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 3) | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | Deposit date: | 2023-04-26 | Release date: | 2024-01-17 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
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8SN9
| Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c with backside ubiquitin (UbcH5c chemically conjugated to histone H2A) (class 1) | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | Deposit date: | 2023-04-26 | Release date: | 2024-01-17 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
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6NOG
| Poised-state Dot1L bound to the H2B-Ubiquitinated nucleosome | Descriptor: | 601 DNA Strand 1, 601 DNA Strand 2, Histone H2A type 1, ... | Authors: | Worden, E.J, Hoffmann, N.A, Wolberger, C. | Deposit date: | 2019-01-16 | Release date: | 2019-02-20 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Mechanism of Cross-talk between H2B Ubiquitination and H3 Methylation by Dot1L. Cell, 176, 2019
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6TEM
| CENP-A nucleosome core particle with 145 base pairs of the Widom 601 sequence by cryo-EM | Descriptor: | Histone H2A, Histone H2B 1.1, Histone H3-like centromeric protein A, ... | Authors: | Boopathi, R, Danev, R, Petosa, C, Bednar, J. | Deposit date: | 2019-11-12 | Release date: | 2020-04-08 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Phase-plate cryo-EM structure of the Widom 601 CENP-A nucleosome core particle reveals differential flexibility of the DNA ends. Nucleic Acids Res., 48, 2020
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6NN6
| Structure of Dot1L-H2BK120ub nucleosome complex | Descriptor: | DNA (145-MER), Histone H2A type 1, Histone H2B 1.1, ... | Authors: | Anderson, C.J, Baird, M.R, Hsu, A, Barbour, E.H, Koyama, Y, Borgnia, M.J, McGinty, R.K. | Deposit date: | 2019-01-14 | Release date: | 2019-02-13 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Structural Basis for Recognition of Ubiquitylated Nucleosome by Dot1L Methyltransferase. Cell Rep, 26, 2019
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8U14
| Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A lysine 15 in complex with RNF168-UbcH5c (class 2) | Descriptor: | DNA (146-MER), DNA (147-MER), E3 ubiquitin-protein ligase RNF168, ... | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | Deposit date: | 2023-08-30 | Release date: | 2024-01-17 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
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6VZ4
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6NE3
| Cryo-EM structure of singly-bound SNF2h-nucleosome complex with SNF2h bound at SHL-2 | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA (156-MER), Histone H2A type 1, ... | Authors: | Armache, J.-P, Gamarra, N, Johnson, S.L, Leonard, J.D, Wu, S, Narlikar, G.N, Cheng, Y. | Deposit date: | 2018-12-16 | Release date: | 2019-07-17 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Cryo-EM structures of remodeler-nucleosome intermediates suggest allosteric control through the nucleosome. Elife, 8, 2019
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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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8HAH
| Cryo-EM structure of the p300 catalytic core bound to the H4K12acK16ac nucleosome, class 2 (3.9 angstrom resolution) | Descriptor: | DNA (180-mer), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Kikuchi, M, Morita, S, Wakamori, M, Shin, S, Uchikubo-Kamo, T, Shirouzu, M, Umehara, T. | Deposit date: | 2022-10-26 | Release date: | 2023-05-17 | Last modified: | 2023-07-26 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
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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: | 2022-10-19 | 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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7XTI
| RNA polymerase II elongation complex transcribing a nucleosome (EC58hex) | 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: | 2022-05-17 | Release date: | 2022-10-12 | 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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7JZV
| Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome | Descriptor: | BRCA1,Ubiquitin-conjugating enzyme E2 D3, BRCA1-associated RING domain protein 1, Histone H2A type 2-A, ... | Authors: | Witus, S.R, Burrell, A.L, Hansen, J.M, Farrell, D.P, Dimaio, F, Kollman, J.M, Klevit, R.E. | Deposit date: | 2020-09-02 | Release date: | 2021-02-17 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | BRCA1/BARD1 site-specific ubiquitylation of nucleosomal H2A is directed by BARD1. Nat.Struct.Mol.Biol., 28, 2021
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7QXS
| Cryo-EM structure of human telomerase-DNA-TPP1-POT1 complex (with POT1 side chains) | Descriptor: | Adrenocortical dysplasia homolog (Mouse), isoform CRA_a, Histone H2A, ... | Authors: | Sekne, Z, Ghanim, G.E, van Roon, A.M.M, Nguyen, T.H.D. | Deposit date: | 2022-01-27 | Release date: | 2022-03-02 | Last modified: | 2022-03-23 | Method: | ELECTRON MICROSCOPY (3.91 Å) | Cite: | Structural basis of human telomerase recruitment by TPP1-POT1. Science, 375, 2022
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7QXB
| Cryo-EM map of human telomerase-DNA-TPP1-POT1 complex (sharpened map) | Descriptor: | Adrenocortical dysplasia homolog (Mouse), isoform CRA_a, Histone H2A, ... | Authors: | Sekne, Z, Ghanim, G.E, van Roon, A.M.M, Nguyen, T.H.D. | Deposit date: | 2022-01-26 | Release date: | 2022-03-02 | Last modified: | 2022-03-23 | Method: | ELECTRON MICROSCOPY (3.91 Å) | Cite: | Structural basis of human telomerase recruitment by TPP1-POT1. Science, 375, 2022
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7V96
| Telomeric Dinucleosome | Descriptor: | DNA (275-mer), Histone H2A type 1-B/E, Histone H2B type 1-K, ... | Authors: | Soman, A. | Deposit date: | 2021-08-24 | Release date: | 2022-07-27 | Last modified: | 2024-06-12 | Method: | ELECTRON MICROSCOPY (3.92 Å) | Cite: | Columnar structure of human telomeric chromatin. Nature, 609, 2022
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6BUZ
| Cryo-EM structure of CENP-A nucleosome in complex with kinetochore protein CENP-N | Descriptor: | DNA (147-MER), Histone H2A, Histone H2B, ... | Authors: | Chittori, S, Hong, J, Kelly, A.E, Bai, Y, Subramaniam, S. | Deposit date: | 2017-12-11 | Release date: | 2017-12-20 | Last modified: | 2024-03-13 | Method: | ELECTRON MICROSCOPY (3.92 Å) | Cite: | Structural mechanisms of centromeric nucleosome recognition by the kinetochore protein CENP-N. Science, 359, 2018
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7X58
| Cryo-EM structure of human subnucleosome (open form) | Descriptor: | Histone H3.1, Histone H4, Widom601 DNA FW (145-MER), ... | Authors: | Nozawa, K, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2022-03-04 | Release date: | 2022-11-16 | Method: | ELECTRON MICROSCOPY (3.93 Å) | Cite: | Cryo-electron microscopy structure of the H3-H4 octasome: A nucleosome-like particle without histones H2A and H2B. Proc.Natl.Acad.Sci.USA, 119, 2022
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