cryo-EM Structure of Nucleosome containing mouse histone variant H2A.Z
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7m1x
Q-score: 0.391
Lewis TS, Sokolova V, Jung H, Ng H, Tan D
Nucleic Acids Res (2021) 49 pp. 11379-11391 [ Pubmed: 34643712 DOI: doi:10.1093/nar/gkab907 ]
- Histone h3 (Complex from Xenopus laevis)
- Histone h4 (Complex from Xenopus laevis)
- Dna (136-mer) (45 kDa, DNA from unidentified)
- Dna (136-mer) (45 kDa, DNA from unidentified)
- Nucleosome core particle containing variant h2a.z and canonical core histones (Complex)
- Histone variant h2a.z (Complex from Mus musculus)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2a.z (13 kDa, Protein from Mus musculus)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (136-mer) (Complex from unidentified)
- Histone h2b (Complex from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
Nucleosome isolated from metaphase chromosome formed in Xenopus egg extract (oligo fraction)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7kbe
Q-score: 0.445
Arimura Y, Shih RM, Froom R, Funabiki H
Mol Cell (2021) 81 pp. 4377- [ Pubmed: 34478647 DOI: doi:10.1016/j.molcel.2021.08.010 ]
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (157-mer) (47 kDa, DNA from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna (157-mer) (48 kDa, DNA from Xenopus laevis)
- Nucleosome isolated from metaphase chromosome formed in xenopus egg extract (oligo fraction) (Complex from Xenopus laevis)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
The complex of ISWI-nucleosome in the ADP.BeF-bound state
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 6k1p
Q-score: 0.42
Yan L, Wu H, Li X, Gao N, Chen Z
Nat Struct Mol Biol (2019) 26 pp. 258-266 [ DOI: doi:10.1038/s41594-019-0199-9 Pubmed: 30872815 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Nuleosome (Complex from Xenopus laevis)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Dna (Complex from Escherichia coli K-12)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Isw1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- The complex of iswi-nucleosome in the adp-bef-bound state (300 kDa, Complex)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Poised-state Dot1L bound to the H2B-Ubiquitinated nucleosome
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6nog
Q-score: 0.356
Worden EJ, Hoffmann NA, Hicks CW, Wolberger C
Cell (2019) 176 pp. 1490-1501.e12 [ Pubmed: 30765112 DOI: doi:10.1016/j.cell.2019.02.002 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone-lysine n-methyltransferase, h3 lysine-79 specific (47 kDa, Protein from Homo sapiens)
- Ubiquitin (Complex from Homo sapiens)
- Poised state dot1l in complex with the h2b-ub nucleosome (Complex)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- H2b-ub nucleosome (Complex)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Ubiquitin (9 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- 601 dna strand 2 (45 kDa, DNA from synthetic construct)
- Dot1l (Complex from Homo sapiens)
- 601 dna strand 1 (44 kDa, DNA from synthetic construct)
- Histone core (Complex from Xenopus laevis)
Structure of Dot1L-H2BK120ub nucleosome complex
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6nn6
Q-score: 0.371
Anderson CJ, Baird MR, Hsu A, Barbour EH, Koyama Y, Borgnia MJ, McGinty RK
Cell Rep (2019) 26 pp. 1681-1690.e5 [ DOI: doi:10.1016/j.celrep.2019.01.058 Pubmed: 30759380 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dot1l-h2bk120ub nucleosome complex (class 2a) (270 kDa, Complex from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Histone-lysine n-methyltransferase, h3 lysine-79 specific (47 kDa, Protein from Homo sapiens)