PDB: 11986 resultsInfo pagesStatus searchChemie searchBIRD

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2RI7	Crystal structure of PHD finger-linker-bromodomain Y17E mutant from human BPTF in the H3(1-9)K4ME2 bound state Descriptor: GLYCEROL, ISOPROPYL ALCOHOL, Nucleosome-remodeling factor subunit BPTF, ... Authors: Li, H, Patel, D.J. Deposit date: 2007-10-10 Release date: 2007-12-11 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.45 Å) Cite: Structural Basis for Lower Lysine Methylation State-Specific Readout by MBT Repeats of L3MBTL1 and an Engineered PHD Finger. Mol.Cell, 28, 2007
9B2U	Haspin bound to H3 tail Descriptor: Histone H3.2, Serine/threonine-protein kinase haspin Authors: Hicks, C.W, Wolberger, C. Deposit date: 2024-03-16 Release date: 2025-01-22 Method: ELECTRON MICROSCOPY (3.64 Å) Cite: Haspin binds to nucleosomes using a unique DNA binding mechanism To be published
7XYG	Cryo-EM structure of Fft3-nucleosome complex with Fft3 bound to SHL+3 position of the nucleosome Descriptor: ATP-dependent helicase fft3, DNA (167-MER), Histone H2A, ... Authors: Nan, Z, Tao, J, Yangao, H. Deposit date: 2022-06-01 Release date: 2023-12-06 Last modified: 2024-06-12 Method: ELECTRON MICROSCOPY (4.2 Å) Cite: Cryo-EM structure of Fft3-nucleosome complex with Fft3 bound to SHL+3 position of the nucleosome (Class II Fft3-nucleosome complex) To Be Published
9B1E	Cryo-EM structure of native SWR1 bound to nucleosome (composite structure) Descriptor: ADENOSINE-5'-DIPHOSPHATE, Actin-like protein ARP6, BERYLLIUM TRIFLUORIDE ION, ... Authors: Louder, R.K, Park, G, Wu, C. Deposit date: 2024-03-13 Release date: 2024-10-09 Last modified: 2024-12-11 Method: ELECTRON MICROSCOPY (4.4 Å) Cite: Molecular basis of global promoter sensing and nucleosome capture by the SWR1 chromatin remodeler. Cell, 187, 2024
4KUD	Crystal structure of N-terminal acetylated Sir3 BAH domain D205N mutant in complex with yeast nucleosome core particle Descriptor: Histone H2A.2, Histone H2B.1, Histone H3, ... Authors: Yang, D, Fang, Q, Wang, M, Ren, R, Wang, H, He, M, Sun, Y, Yang, N, Xu, R.M. Deposit date: 2013-05-22 Release date: 2013-08-07 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (3.203 Å) Cite: N alpha-acetylated Sir3 stabilizes the conformation of a nucleosome-binding loop in the BAH domain. Nat.Struct.Mol.Biol., 20, 2013
9K9L	Cryo-EM structure of the human CENP-A-H4 octasome. Descriptor: Histone H3-like centromeric protein A, Histone H4, Widom601 DNA FW (145-MER), ... Authors: Nozawa, K, Takizawa, Y, Kurumizaka, H. Deposit date: 2024-10-27 Release date: 2025-04-30 Last modified: 2025-06-25 Method: ELECTRON MICROSCOPY (3.66 Å) Cite: Cryo-EM Analysis of a Unique Subnucleosome Containing Centromere-Specific Histone Variant CENP-A. Genes Cells, 30, 2025
8YV8	Cryo-EM structure of CDCA7 bound to nucleosome including hemimethylated CpG site in Widom601 positioning sequence. Descriptor: Cell division cycle-associated protein 7, DNA (132-MER), Histone H2A type 1-B/E, ... Authors: Kikuchi, A, Shikimachi, R, Nishiyama, A, Funabiki, H, Arita, K. Deposit date: 2024-03-28 Release date: 2024-07-31 Last modified: 2025-03-12 Method: ELECTRON MICROSCOPY (3 Å) Cite: CDCA7 is an evolutionarily conserved hemimethylated DNA sensor in eukaryotes. Sci Adv, 10, 2024
9EIL	SIRT6 bound to an H3K27Ac nucleosome Descriptor: DNA (185-MER), Histone H2A type 1, Histone H2B, ... Authors: Markert, J, Wang, Z, Cole, P, Farnung, L. Deposit date: 2024-11-26 Release date: 2025-07-09 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Structural and enzymatic plasticity of SIRT6 deacylase activity. J.Biol.Chem., 301, 2025
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: 2024-06-19 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, 67, 2024
8YJF	Structure of human SPT16 MD-CTD and MCM2 HBD chaperoning a histone H3-H4 tetramer and an H2A-H2B dimer Descriptor: DNA replication licensing factor MCM2, FACT complex subunit SPT16, Histone H2A type 1-D, ... Authors: Gan, S.L, Yang, W.S, Xu, R.M. Deposit date: 2024-03-01 Release date: 2024-03-20 Last modified: 2024-06-19 Method: X-RAY DIFFRACTION (4.4 Å) Cite: Structure of a histone hexamer bound by the chaperone domains of SPT16 and MCM2. Sci China Life Sci, 67, 2024
6YOV	OCT4-SOX2-bound nucleosome - SHL+6 Descriptor: DNA (142-MER), Green fluorescent protein,POU domain, class 5, ... Authors: Michael, A.K, Kempf, G, Cavadini, S, Bunker, R.D, Thoma, N.H. Deposit date: 2020-04-15 Release date: 2020-05-06 Last modified: 2024-11-13 Method: ELECTRON MICROSCOPY (3.42 Å) Cite: Mechanisms of OCT4-SOX2 motif readout on nucleosomes. Science, 368, 2020
8VMI	PRC2_AJ119-450 bound to H3K4me3 Descriptor: EZH2, Histone H3.1, Histone H3.1t, ... Authors: Cookis, T, Nogales, E. Deposit date: 2024-01-13 Release date: 2025-01-15 Last modified: 2025-05-28 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Structural basis for the inhibition of PRC2 by active transcription histone posttranslational modifications. Nat.Struct.Mol.Biol., 32, 2025
8Z50	Crystal structure of the ASF1-H3T-H4 complex Descriptor: Histone H3.1t, Histone H4, Histone chaperone ASF1A Authors: Xu, L. Deposit date: 2024-04-18 Release date: 2024-07-03 Last modified: 2024-07-10 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Structural insights into instability of the nucleosome driven by histone variant H3T. Biochem.Biophys.Res.Commun., 727, 2024
8RUP	Chromosome Passenger Complex (CPC) localization module in complex with H3.T3p-nucleosome Descriptor: Baculoviral IAP repeat-containing protein 5, Borealin, DNA (147-MER), ... Authors: Ruza, R.R, Barr, F.A. Deposit date: 2024-01-31 Release date: 2025-02-05 Method: ELECTRON MICROSCOPY (2.42 Å) Cite: A pivot-tether model for nucleosome recognition by the chromosomal passenger complex Biorxiv, 2025
8Q3E	High Resolution Structure of Nucleosome Core with Bound Foamy Virus GAG Peptide Descriptor: DNA (145-MER), GLY-GLY-TYR-ASN-LEU-ARG-PRO-ARG-THR-TYR-GLN-PRO-GLN-ARG-TYR-GLY-GLY-GLY, Histone H2A type 1-B/E, ... Authors: De Falco, L, Batchelor, L.K, Dyson, P.J, Davey, C.A. Deposit date: 2023-08-04 Release date: 2024-03-27 Method: X-RAY DIFFRACTION (2.174 Å) Cite: Viral peptide conjugates for metal-warhead delivery to chromatin. Rsc Adv, 14, 2024
8Q36	Structure of Nucleosome Core with a Bound Metallopeptide Conjugate (Foamy Virus GAG Peptide-Au[I] Compound) Descriptor: DNA (145-MER), GAG structural protein, Histone H2A type 1-B/E, ... Authors: De Falco, L, Batchelor, L.K, Dyson, P.J, Davey, C.A. Deposit date: 2023-08-03 Release date: 2024-03-27 Method: X-RAY DIFFRACTION (2.604 Å) Cite: Viral peptide conjugates for metal-warhead delivery to chromatin. Rsc Adv, 14, 2024
8Q3M	Structure of Nucleosome Core with a Bound Kaposi Sarcoma Associated Herpesvirus LANA Peptide Having a Methionine to Ornithine Substitution Descriptor: DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-K, ... Authors: De Falco, L, Batchelor, L.K, Dyson, P.J, Davey, C.A. Deposit date: 2023-08-04 Release date: 2024-03-27 Method: X-RAY DIFFRACTION (2.503 Å) Cite: Viral peptide conjugates for metal-warhead delivery to chromatin. Rsc Adv, 14, 2024
8Q3X	Structure of Nucleosome Core with a Bound Metallopeptide Conjugate (Kaposi Sarcoma Associated Herpesvirus LANA Peptide-Au[I] Compound) Descriptor: 4-diphenylphosphanylbenzoic acid, DNA (145-MER), GOLD ION, ... Authors: De Falco, L, Batchelor, L.K, Dyson, P.J, Davey, C.A. Deposit date: 2023-08-04 Release date: 2024-03-27 Method: X-RAY DIFFRACTION (2.301 Å) Cite: Viral peptide conjugates for metal-warhead delivery to chromatin. Rsc Adv, 14, 2024
8JL9	Cryo-EM structure of the human nucleosome with scFv Descriptor: DNA (193-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... Authors: Oishi, T, Hatazawa, S, Kujirai, T, Kato, J, Kobayashi, Y, Ogasawara, M, Akatsu, M, Takizawa, Y, Kurumizaka, H. Deposit date: 2023-06-02 Release date: 2023-10-04 Last modified: 2023-11-08 Method: ELECTRON MICROSCOPY (2.65 Å) Cite: Contributions of histone tail clipping and acetylation in nucleosome transcription by RNA polymerase II. Nucleic Acids Res., 51, 2023
8HAL	Cryo-EM structure of the CBP catalytic core bound to the H4K12acK16ac nucleosome, class 1 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: 2024-11-20 Method: ELECTRON MICROSCOPY (4.4 Å) Cite: Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
8HAG	Cryo-EM structure of the p300 catalytic core bound to the H4K12acK16ac nucleosome, class 1 (3.2 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: 2024-10-16 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
8HAM	Cryo-EM structure of the CBP catalytic core bound to the H4K12acK16ac nucleosome, class 2 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: 2024-10-16 Method: ELECTRON MICROSCOPY (4.5 Å) Cite: Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
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: 2024-10-23 Method: ELECTRON MICROSCOPY (4.2 Å) Cite: Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
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: 2024-11-13 Method: ELECTRON MICROSCOPY (3.9 Å) Cite: Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023
8HAI	Cryo-EM structure of the p300 catalytic core bound to the H4K12acK16ac nucleosome, class 1 (4.7 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: 2024-11-13 Method: ELECTRON MICROSCOPY (4.7 Å) Cite: Epigenetic mechanisms to propagate histone acetylation by p300/CBP. Nat Commun, 14, 2023

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