Cryo-EM map of Eaf3 CHD bound to H3K36me3 nucleosome
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7yi1
Q-score: 0.572
Guan H, Wang P, Zhang P, Ruan C, Ou Y, Peng B, Zheng X, Lei J, Li B, Yan C, Li H
Nature (2023) 620 pp. 669-675 [ Pubmed: 37468628 DOI: doi:10.1038/s41586-023-06349-1 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Eaf3 (Complex from Xenopus laevis)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone h3 (Complex)
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Dna (Complex from Saccharomyces cerevisiae S288C)
- Rpd3s complex with h3k36me3 nucleosome (723 MDa, Complex from Xenopus laevis)
- Histone h4/h2a/h2b 1.1 (Complex from synthetic construct)
RNA polymerase II-Spt4/5-nucleosome-Chd1 structure
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7nkx
Q-score: 0.444
Farnung L, Ochmann M, Engeholm M, Cramer P
Nat Struct Mol Biol (2021) 28 pp. 382-387 [ Pubmed: 33846633 DOI: doi:10.1038/s41594-021-00578-6 ]
- Beryllium trifluoride ion (66 Da, Ligand)
- Rna (21 kDa, RNA from synthetic construct)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase ii-spt4/5-chd1-nucleosome (Complex)
- Zinc ion (65 Da, Ligand)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae)
- Chromatin elongation factor spt4 (11 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae)
- Transcription elongation factor spt5 (116 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae)
- Chromo domain-containing protein 1 (168 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (139-mer) (56 kDa, DNA from synthetic construct)
- Dna (128-mer) (54 kDa, DNA from synthetic construct)
Structure of a Yeast Centromeric Nucleosome at 2.7 Angstrom resolution
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6uph
Q-score: 0.623
Migl D, Kschonsak M, Arthur CP, Khin Y, Harrison SC, Ciferri C, Dimitrova YN
Structure (2020) 28 pp. 363-370.e3 [ Pubmed: 32004465 DOI: doi:10.1016/j.str.2019.12.002 ]
- Histone h3-like centromeric protein cse4 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (119-mer) (45 kDa, DNA from unidentified)
- Dna (Complex from unidentified)
- Histone h4, histone h2a, histone h2b.1 (Complex from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Yeast centromeric nucleosome (240 MDa, Complex)
- Histone h3-like centromeric protein cse4 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2a (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Histone h2b.1 (16 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Histone h4 (13 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Dna (119-mer) (45 kDa, DNA from unidentified)