6R1T
| Structure of LSD2/NPAC-linker/nucleosome core particle complex: Class 1, free nuclesome | Descriptor: | DNA (147-MER), HISTONE H2A, Histone H2A, ... | Authors: | Marabelli, C, Pilotto, S, Chittori, S, Subramaniam, S, Mattevi, A. | Deposit date: | 2019-03-15 | Release date: | 2019-04-24 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (4.02 Å) | Cite: | A Tail-Based Mechanism Drives Nucleosome Demethylation by the LSD2/NPAC Multimeric Complex. Cell Rep, 27, 2019
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8WHA
| Structure of DDM1-nucleosome complex in the ADP-BeFx state with DDM1 bound to SHL2 and SHL-2 | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ATP-dependent DNA helicase DDM1, BERYLLIUM TRIFLUORIDE ION, ... | Authors: | Liu, Y, Zhang, Z, Du, J. | Deposit date: | 2023-09-22 | Release date: | 2024-04-17 | Method: | ELECTRON MICROSCOPY (4.05 Å) | Cite: | Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024
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6PWF
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7XZZ
| Cryo-EM structure of the nucleosome in complex with p53 | Descriptor: | Cellular tumor antigen p53, DNA (169-MER), Histone H2A type 1-B/E, ... | Authors: | Nishimura, M, Nozawa, K, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2022-06-03 | Release date: | 2022-10-12 | Last modified: | 2023-02-15 | Method: | ELECTRON MICROSCOPY (4.07 Å) | Cite: | Structural basis for p53 binding to its nucleosomal target DNA sequence. Pnas Nexus, 1, 2022
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8EVJ
| CX3CR1 nucleosome bound PU.1 and C/EBPa | Descriptor: | DNA (167-MER), Histone H2A type 2-C, Histone H2B type 2-E, ... | Authors: | Guan, R, Bai, Y, Lian, T. | Deposit date: | 2022-10-20 | Release date: | 2023-11-01 | Last modified: | 2024-05-01 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | Structural mechanism of synergistic targeting of the CX3CR1 nucleosome by PU.1 and C/EBP alpha. Nat.Struct.Mol.Biol., 31, 2024
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6R91
| Cryo-EM structure of NCP_THF2(-3)-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 (4.1 Å) | Cite: | DNA damage detection in nucleosomes involves DNA register shifting. Nature, 571, 2019
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8BYQ
| RNA polymerase II pre-initiation complex with the proximal +1 nucleosome (PIC-Nuc10W) | Descriptor: | CDK-activating kinase assembly factor MAT1, Cyclin-H, Cyclin-dependent kinase 7, ... | Authors: | Abril-Garrido, J, Dienemann, C, Grabbe, F, Velychko, T, Lidschreiber, M, Wang, H, Cramer, P. | Deposit date: | 2022-12-14 | Release date: | 2023-05-03 | Last modified: | 2023-06-14 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | Structural basis of transcription reduction by a promoter-proximal +1 nucleosome. Mol.Cell, 83, 2023
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6J99
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6Y5D
| Structure of human cGAS (K394E) bound to the nucleosome | Descriptor: | Cyclic GMP-AMP synthase, DNA (153-MER), Histone H2A type 2-A, ... | Authors: | Pathare, G.R, Cavadini, S, Kempf, G, Thoma, N.H. | Deposit date: | 2020-02-25 | Release date: | 2020-09-23 | Last modified: | 2020-12-09 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | Structural mechanism of cGAS inhibition by the nucleosome. Nature, 587, 2020
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8RBX
| Structure of Integrator-PP2A bound to a paused RNA polymerase II-DSIF-NELF-nucleosome complex | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit RPB11-a, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Fianu, I, Ochmann, M, Walshe, J.L, Cramer, P. | Deposit date: | 2023-12-05 | Release date: | 2024-02-07 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | Structural basis of Integrator-dependent RNA polymerase II termination. Nature, 629, 2024
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7WBV
| RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-4) of the nucleosome | Descriptor: | DNA (159-MER), DNA (198-MER), DNA-directed RNA polymerase subunit, ... | Authors: | Osumi, K, Kujirai, T, Ehara, H, Sekine, S, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2021-12-17 | Release date: | 2023-07-05 | Method: | ELECTRON MICROSCOPY (4.1 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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6PX3
| Set2 bound to nucleosome | Descriptor: | DNA (145-MER), Histone H2B 1.1, Histone H3, ... | Authors: | Halic, M, Bilokapic, S. | Deposit date: | 2019-07-24 | Release date: | 2019-08-28 | Last modified: | 2019-09-04 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | Nucleosome and ubiquitin position Set2 to methylate H3K36. Nat Commun, 10, 2019
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7SCY
| Nuc147 bound to single BRCT | Descriptor: | DNA (147-MER), Histone H2A, Histone H2B type 1-J, ... | Authors: | Muthurajan, U.M, Rudolph, J.R. | Deposit date: | 2021-09-29 | Release date: | 2022-01-12 | Last modified: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | The BRCT domain of PARP1 binds intact DNA and mediates intrastrand transfer. Mol.Cell, 81, 2021
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6KIX
| Cryo-EM structure of human MLL1-NCP complex, binding mode1 | Descriptor: | DNA (145-MER), GLUTAMINE, Histone H2A, ... | Authors: | Huang, J, Xue, H, Yao, T. | Deposit date: | 2019-07-20 | Release date: | 2019-09-11 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (4.1 Å) | Cite: | Structural basis of nucleosome recognition and modification by MLL methyltransferases. Nature, 573, 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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8XBT
| The cryo-EM structure of the octameric RAD51 ring bound to the nucleosome with the linker DNA binding | Descriptor: | DNA (153-MER), DNA (156-MER), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (4.12 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8YJM
| Structure of human SPT16 MD-CTD and MCM2 HBD chaperoning a histone H3-H4 tetramer and a single chain H2B-H2A chimera | Descriptor: | DNA replication licensing factor MCM2, FACT complex subunit SPT16, Histone H2B 1/2/3/4/6,Histone H2A type 1-D, ... | Authors: | Gan, S.L, Yang, W.S, Xu, R.M. | Deposit date: | 2024-03-02 | Release date: | 2024-03-20 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (4.15 Å) | Cite: | Structure of a histone hexamer bound by the chaperone domains of SPT16 and MCM2. Sci China Life Sci, 2024
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6QLD
| Structure of inner kinetochore CCAN-Cenp-A complex | Descriptor: | DNA (125-MER), Histone H2A.1, Histone H2B.1, ... | Authors: | Yan, K, Yang, J, Zhang, Z, McLaughlin, S.H, Chang, L, Fasci, D, Heck, A.J.R, Barford, D. | Deposit date: | 2019-01-31 | Release date: | 2019-10-02 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (4.15 Å) | Cite: | Structure of the inner kinetochore CCAN complex assembled onto a centromeric nucleosome. Nature, 574, 2019
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8GXS
| PIC-Mediator in complex with +1 nucleosome (T40N) in H-binding state | Descriptor: | CDK-activating kinase assembly factor MAT1, Cyclin-H, Cyclin-dependent kinase 7, ... | Authors: | Chen, X, Wang, X, Liu, W, Ren, Y, Qu, X, Li, J, Yin, X. | Deposit date: | 2022-09-21 | Release date: | 2022-11-02 | Method: | ELECTRON MICROSCOPY (4.16 Å) | Cite: | Structures of +1 nucleosome-bound PIC-Mediator complex. Science, 378, 2022
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7YRG
| histone methyltransferase | Descriptor: | DNA (146-MER), Histone H2A.Z, Histone H2B 1.1, ... | Authors: | Li, H, Wang, W.Y. | Deposit date: | 2022-08-09 | Release date: | 2023-12-13 | Method: | ELECTRON MICROSCOPY (4.2 Å) | Cite: | Structural insight into H4K20 methylation on H2A.Z-nucleosome by SUV420H1. Mol.Cell, 83, 2023
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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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6SEE
| Class2A : CENP-A nucleosome in complex with CENP-C central region | Descriptor: | Centromere protein C, DNA (145-MER), Histone H2A type 2-A, ... | Authors: | Ali-Ahmad, A, Bilokapic, S, Schafer, I.B, Halic, M, Sekulic, N. | Deposit date: | 2019-07-29 | Release date: | 2019-08-14 | Last modified: | 2024-05-22 | Method: | ELECTRON MICROSCOPY (4.2 Å) | Cite: | CENP-C unwraps the human CENP-A nucleosome through the H2A C-terminal tail. Embo Rep., 20, 2019
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7K7G
| nucleosome and Gal4 complex | Descriptor: | Centromere DNA-binding protein complex CBF3 subunit B, DNA (147-MER), Histone H2A.1, ... | Authors: | Ruifang, G, Yawen, B. | Deposit date: | 2020-09-22 | Release date: | 2021-03-31 | Method: | ELECTRON MICROSCOPY (4.2 Å) | Cite: | Structural and dynamic mechanisms of CBF3-guided centromeric nucleosome formation. Nat Commun, 12, 2021
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6PWX
| Cryo-EM structure of RbBP5 bound to the nucleosome | Descriptor: | DNA (146-MER), Histone H2A type 1, Histone H2B 1.1, ... | Authors: | Park, S.H, Ayoub, A, Lee, Y.T, Xu, J, Zhang, W, Zhang, B, Zhang, Y, Cianfrocco, M.A, Su, M, Dou, Y, Cho, U. | Deposit date: | 2019-07-23 | Release date: | 2019-12-18 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (4.2 Å) | Cite: | Cryo-EM structure of the human MLL1 core complex bound to the nucleosome. Nat Commun, 10, 2019
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8HAN
| Cryo-EM structure of the CBP catalytic core bound to the H4K12acK16ac nucleosome, class 3 | Descriptor: | CREB-binding protein, DNA (180-mer), Histone H2A type 1-B/E, ... | 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 (4.2 Å) | Cite: | Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
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