ncPRC1RYBP bound to H2AK119Ub/H1.4 chromatosome
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9dde
Q-score: 0.456
Lopez VG, Valencia-Sanchez MI, Abini-Agbomson S, Thomas JF, Lee R, De Ioannes P, Sosa BA, Armache JP, Armache KJ
Nature (2024) 636 pp. 755-761 [ DOI: doi:10.1038/s41586-024-08183-5 Pubmed: 39537923 ]
- Histone h4 (Complex from Xenopus laevis)
- Histone h1.4 (Complex from Homo sapiens)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone h2a (Complex from Xenopus laevis)
- Ring1 and yy1-binding protein (Complex from Homo sapiens)
- Ncprc1rybp bound to h2ak119ub/h1.4 chromatosome (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- E3 ubiquitin-protein ligase ring2 (37 kDa, Protein from Homo sapiens)
- Histone h2b 1.1 (Complex from Xenopus laevis)
- Histones (Complex from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- E3 ubiquitin-protein ligase ring2, ubiquitin-conjugating enzyme e2 d3 (Complex from Homo sapiens)
- Dna (187-mer) (Complex from synthetic construct)
- Dna (187-mer) (57 kDa, DNA from synthetic construct)
- Ncprc1-rybp (Complex from Homo sapiens)
- Dna (187-mer) (57 kDa, DNA from synthetic construct)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Polycomb complex protein bmi-1 (37 kDa, Protein from Homo sapiens)
- Ring1 and yy1-binding protein (24 kDa, Protein from Homo sapiens)
- Ubiquitin (Complex from Homo sapiens)
- Histone h3.2 (Complex from Xenopus laevis)
- Polycomb complex protein bmi-1 (Complex from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
Cryo-EM structure of FoxA1 and GATA4 in complex with H14 chromatosome
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8vg2
Q-score: 0.493
Mol Cell (2024) [ ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Dna (196-mer) (65 kDa, DNA from synthetic construct)
- Histone h1.4 (22 kDa, Protein from Homo sapiens)
- Foxa1 and gata4 in complex with h1.4 chromatosome (Complex from Homo sapiens)
- Hepatocyte nuclear factor 3-alpha (50 kDa, Protein from Homo sapiens)
- Dna (196-mer) (64 kDa, DNA from synthetic construct)
The 4x177 nucleosome array containing H1
Resolution: 9.5 Å
EM Method: Single-particle
Fitted PDBs: 7pet
Q-score: 0.105
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Tetranucleosome from 4x177 nucleosome array (Complex)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (702-mer) (218 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Dna (702-mer) (215 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Trinucleosome of the 4x177 nucleosome array containing H1
Resolution: 7.2 Å
EM Method: Single-particle
Fitted PDBs: 7peu
Q-score: 0.138
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (522-mer) (160 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Dna (522-mer) (161 kDa, DNA from synthetic construct)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Trinucleosome from 4x177 nucleosome array (Complex)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Nucleosome 2 of the 4x177 nucleosome array containing H1
Resolution: 5.1 Å
EM Method: Single-particle
Fitted PDBs: 7pex
Q-score: 0.267
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (177-mer) (54 kDa, DNA from synthetic construct)
- Nucleosome 2 from 4x177 nucleosome array (Complex)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Dna (177-mer) (55 kDa, DNA from synthetic construct)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Nucleosome 4 of the 4x177 nucleosome array containing H1
Resolution: 7.9 Å
EM Method: Single-particle
Fitted PDBs: 7pez
Q-score: 0.203
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Nucleosome 4 from 4x177 nucleosome array (Complex)
- Dna (182-mer) (55 kDa, DNA from synthetic construct)
- Dna (182-mer) (56 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Trinucleosome of the 4x177 nucleosome array containing H1
Resolution: 11.0 Å
EM Method: Single-particle
Fitted PDBs: 7pf0
Q-score: 0.101
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Histones (Complex from Homo sapiens)
- Dna (563-mer) (167 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Trinucleosome from 4x187 nucleosome array (Complex)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- Dna (563-mer) (166 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Nucleosome stack of the 4x187 nucleosome array containing H1
Resolution: 5.1 Å
EM Method: Single-particle
Fitted PDBs: 7pf2
Q-score: 0.217
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Nucleosome stack from 4x187 nucleosome array (Complex)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (541-mer) (232 kDa, DNA from synthetic construct)
- Histones (Complex from Homo sapiens)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Dna (541-mer) (230 kDa, DNA from synthetic construct)
Nucleosome 4 of the 4x187 nucleosome array containing H1
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7pf3
Q-score: 0.351
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Nucleosome 4 from 4x187 nucleosome array (Complex)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Nucleosome 2 of the 4x187 nucleosome array containing H1
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7pf5
Q-score: 0.329
Dombrowski M, Engeholm M, Dienemann C, Dodonova S, Cramer P
Nat Struct Mol Biol (2022) 29 pp. 493-501 [ DOI: doi:10.1038/s41594-022-00768-w Pubmed: 35581345 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Histones (Complex from Homo sapiens)
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Nucleosome 2 from 4x187 nucleosome array (Complex)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)