PDB: 799 resultsInfo pagesStatus searchChemie searchBIRD

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4QLC	Crystal structure of chromatosome at 3.5 angstrom resolution Descriptor: CITRIC ACID, DNA (167-mer), H5, ... Authors: Jiang, J.S, Zhou, B.R, Xiao, T.S, Bai, Y.W. Deposit date: 2014-06-11 Release date: 2015-07-22 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (3.503 Å) Cite: Structural Mechanisms of Nucleosome Recognition by Linker Histones. Mol.Cell, 33 Suppl 1, 2015
7XVL	Crystal Structure of Nucleosome-H1.0 Linker Histone Assembly (sticky-169an DNA fragment) Descriptor: DNA (169-MER), Histone H1.0, Histone H2A type 1-B/E, ... Authors: Adhireksan, Z, Qiuye, B, Lee, P.L, Sharma, D, Padavattan, S, Davey, C.A. Deposit date: 2022-05-24 Release date: 2023-05-24 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (3.506 Å) Cite: Crystal Structure of Nucleosome-H1.0 Linker Histone Assembly (sticky-169an DNA fragment) To Be Published
4YM6	Crystal structure of the human nucleosome containing 6-4PP (outside) Descriptor: 145-MER DNA, Histone H2A type 1-B/E, Histone H2B type 1-J, ... Authors: Osakabe, A, Tachiwana, H, Kagawa, W, Horikoshi, N, Matsumoto, S, Hasegawa, M, Matsumoto, N, Toga, T, Yamamoto, J, Hanaoka, F, Thoma, N.H, Sugasawa, K, Iwai, S, Kurumizaka, H. Deposit date: 2015-03-06 Release date: 2015-12-02 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (3.514 Å) Cite: Structural basis of pyrimidine-pyrimidone (6-4) photoproduct recognition by UV-DDB in the nucleosome Sci Rep, 5, 2015
7V99	catalytic core of human telomerase holoenzyme Descriptor: Histone H2A type 1-B/E, Histone H2B type 1-K, Primer DNA, ... Authors: Wan, F, Ding, Y, Yang, L, Wu, Z, Wu, J, Lei, M. Deposit date: 2021-08-24 Release date: 2022-03-30 Method: ELECTRON MICROSCOPY (3.54 Å) Cite: Zipper head mechanism of telomere synthesis by human telomerase. Cell Res., 31, 2021
7WLR	Cryo-EM structure of the nucleosome containing Komagataella pastoris histones Descriptor: DNA (145-MER), Histone H2A, Histone H2B, ... Authors: Fukushima, Y, Hatazawa, S, Hirai, S, Kujirai, T, Takizawa, Y, Kurumizaka, H. Deposit date: 2022-01-13 Release date: 2022-07-13 Last modified: 2022-08-10 Method: ELECTRON MICROSCOPY (3.54 Å) Cite: Structural and biochemical analyses of the nucleosome containing Komagataella pastoris histones. J.Biochem., 172, 2022
6NQA	Active state Dot1L bound to the H2B-Ubiquitinated nucleosome, 1-to-1 complex Descriptor: 601 DNA Strand 1, 601 DNA Strand 2, Histone H2A type 1, ... Authors: Worden, E.J, Hoffmann, N.A, Wolberger, C. Deposit date: 2019-01-19 Release date: 2019-02-20 Last modified: 2020-01-08 Method: ELECTRON MICROSCOPY (3.54 Å) Cite: Mechanism of Cross-talk between H2B Ubiquitination and H3 Methylation by Dot1L. Cell, 176, 2019
8DU4	Complex between RbBP5-WDR5 and an H2B-ubiquitinated nucleosome Descriptor: 601 DNA (146-MER), Histone H2A, Histone H2B 1.1, ... Authors: Niklas, H.A, Rahman, S, Worden, E.J, Wolberger, C. Deposit date: 2022-07-26 Release date: 2022-09-21 Last modified: 2022-10-05 Method: ELECTRON MICROSCOPY (3.55 Å) Cite: Multistate structures of the MLL1-WRAD complex bound to H2B-ubiquitinated nucleosome. Proc.Natl.Acad.Sci.USA, 119, 2022
8UQE	Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 26-residue linker (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 (3.562 Å) Cite: Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
7D69	Cryo-EM structure of the nucleosome containing Giardia histones Descriptor: 601L DNA (145-MER), Histone H2A, Histone H2B, ... Authors: Sato, S, Takizawa, Y, Kurumizaka, H. Deposit date: 2020-09-29 Release date: 2021-09-08 Last modified: 2022-03-23 Method: ELECTRON MICROSCOPY (3.57 Å) Cite: Cryo-EM structure of the nucleosome core particle containing Giardia lamblia histones. Nucleic Acids Res., 49, 2021
8WH5	Structure of DDM1-nucleosome complex in the apo state Descriptor: ATP-dependent DNA helicase DDM1, DNA (antisense strand), DNA (sense strand), ... Authors: Liu, Y, Zhang, Z, Du, J. Deposit date: 2023-09-22 Release date: 2024-04-17 Method: ELECTRON MICROSCOPY (3.58 Å) Cite: Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024
8IHM	Eaf3 CHD domain bound to the nucleosome Descriptor: Chromatin modification-related protein EAF3, DNA (164-MER), DNA (165-MER), ... Authors: Zhang, Y, Gang, C. Deposit date: 2023-02-23 Release date: 2024-03-20 Method: ELECTRON MICROSCOPY (3.58 Å) Cite: Structural basis for nucleosome binding and catalysis by the yeast Rpd3S/HDAC holoenzyme. Cell Res., 33, 2023
8JHG	Native SUV420H1 bound to 167-bp nucleosome Descriptor: DNA (160-MER), Histone H2A type 1-B/E, Histone H2B type 1-K, ... Authors: Lin, F, Li, W. Deposit date: 2023-05-23 Release date: 2023-11-22 Last modified: 2023-12-20 Method: ELECTRON MICROSCOPY (3.58 Å) Cite: Structural basis of nucleosomal H4K20 recognition and methylation by SUV420H1 methyltransferase. Cell Discov, 9, 2023
8WH8	Structure of DDM1-nucleosome complex in ADP state Descriptor: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent DNA helicase DDM1, DNA (antisense strand), ... Authors: Liu, Y, Zhang, Z, Du, J. Deposit date: 2023-09-22 Release date: 2024-04-17 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024
6GEN	Chromatin remodeller-nucleosome complex at 4.5 A resolution. Descriptor: ADENOSINE-5'-DIPHOSPHATE, Actin-like protein ARP6, BERYLLIUM TRIFLUORIDE ION, ... Authors: Willhoft, O, Chua, E.Y.D, Wilkinson, M, Wigley, D.B. Deposit date: 2018-04-27 Release date: 2018-10-17 Last modified: 2024-05-15 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Structure and dynamics of the yeast SWR1-nucleosome complex. Science, 362, 2018
6GEJ	Chromatin remodeller-nucleosome complex at 3.6 A resolution. Descriptor: ADENOSINE-5'-DIPHOSPHATE, Actin-like protein ARP6, BERYLLIUM TRIFLUORIDE ION, ... Authors: Willhoft, O, Chua, E.Y.D, Wilkinson, M, Wigley, D.B. Deposit date: 2018-04-26 Release date: 2018-10-17 Last modified: 2024-05-15 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Structure and dynamics of the yeast SWR1-nucleosome complex. Science, 362, 2018
7DBH	The mouse nucleosome structure containing H3mm18 Descriptor: DNA (126-MER), Histone H2A type 1-B, Histone H2B type 3-A, ... Authors: Hirai, S, Takizawa, Y, Kujirai, T, Kurumizaka, H. Deposit date: 2020-10-20 Release date: 2022-01-19 Last modified: 2022-02-16 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Unusual nucleosome formation and transcriptome influence by the histone H3mm18 variant. Nucleic Acids Res., 50, 2022
6T9L	SAGA DUB module bound to a ubiqitinated nucleosome Descriptor: Histone H2A, Histone H2B, Histone H2B 1.1, ... Authors: Wang, H, Cramer, P. Deposit date: 2019-10-28 Release date: 2020-01-29 Last modified: 2020-02-19 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Structure of the transcription coactivator SAGA. Nature, 577, 2020
8SN2	Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c (UbcH5c chemically conjugated to histone H2A) 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 (3.6 Å) Cite: Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
5B24	The crystal structure of the nucleosome containing cyclobutane pyrimidine dimer Descriptor: DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... Authors: Horikoshi, N, Tachiwana, H, Kagawa, W, Osakabe, A, Kurumizaka, H. Deposit date: 2015-12-31 Release date: 2016-03-02 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (3.6 Å) Cite: Crystal structure of the nucleosome containing ultraviolet light-induced cyclobutane pyrimidine dimer Biochem.Biophys.Res.Commun., 471, 2016
5ZBB	Crystal structure of Rtt109-Asf1-H3-H4 complex Descriptor: DI(HYDROXYETHYL)ETHER, DNA damage response protein Rtt109, putative, ... Authors: Zhang, L, Serra-Cardona, A, Zhou, H, Wang, M, Yang, N, Zhang, Z, Xu, R.M. Deposit date: 2018-02-10 Release date: 2018-07-25 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (3.6 Å) Cite: Multisite Substrate Recognition in Asf1-Dependent Acetylation of Histone H3 K56 by Rtt109. Cell, 174, 2018
8TXW	Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 2) 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: 2023-08-24 Release date: 2024-01-17 Last modified: 2024-03-20 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell, 84, 2024
8CEO	Yeast RNA polymerase II transcription pre-initiation complex with core Mediator and the +1 nucleosome Descriptor: DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB2, ... Authors: Wang, H, Cramer, P. Deposit date: 2023-02-02 Release date: 2023-03-08 Last modified: 2023-04-19 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Yeast PIC-Mediator structure with RNA polymerase II C-terminal domain. Proc.Natl.Acad.Sci.USA, 120, 2023
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: 2022-10-12 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Structural basis of nucleosome disassembly and reassembly by RNAPII elongation complex with FACT. Science, 377, 2022
6MUO	CENP-A nucleosome bound by two copies of CENP-C(CD) and one copy CENP-N(NT) Descriptor: Centromere protein C, Centromere protein N, DNA/RNA (147-MER), ... Authors: Allu, P.K, Black, B.E. Deposit date: 2018-10-23 Release date: 2019-07-24 Last modified: 2024-03-13 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Structure of the Human Core Centromeric Nucleosome Complex. Curr.Biol., 29, 2019
3AN2	The structure of the centromeric nucleosome containing CENP-A Descriptor: 147 mer DNA, Histone H2A type 1-B/E, Histone H2B type 1-J, ... Authors: Tachiwana, H, Kagawa, W, Shiga, T, Saito, K, Osakabe, A, Hayashi-Takanaka, Y, Park, S.-Y, Kimura, H, Kurumizaka, H. Deposit date: 2010-08-27 Release date: 2011-07-20 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (3.6 Å) Cite: Crystal structure of the human centromeric nucleosome containing CENP-A Nature, 476, 2011

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