Structure of a hexasome-nucleosome complex with a dyad-to-dyad distance of 103 bp.
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 9gd0
Q-score: 0.528
Engeholm M, Roske JJ, Oberbeckmann E, Dienemann C, Lidschreiber M, Cramer P, Farnung L
Mol Cell (2024) 84 pp. 3423- [ Pubmed: 39270644 DOI: doi:10.1016/j.molcel.2024.08.022 ]
- Dna (250-mer) (76 kDa, DNA from synthetic construct)
- Dna (250-mer) (77 kDa, DNA from synthetic construct)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Hexasome-nucleosome complex with a dyad-to-dyad distance of 103 bp. (Complex from Xenopus laevis)
Structure of Chd1 bound to a hexasome-nucleosome complex with a dyad-to-dyad distance of 103 bp.
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 9gd1
Q-score: 0.332
Engeholm M, Roske JJ, Oberbeckmann E, Dienemann C, Lidschreiber M, Cramer P, Farnung L
Mol Cell (2024) 84 pp. 3423- [ Pubmed: 39270644 DOI: doi:10.1016/j.molcel.2024.08.022 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (261-mer) (80 kDa, DNA from synthetic construct)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- Dna (261-mer) (81 kDa, DNA from synthetic construct)
- Chromo domain-containing protein 1 (168 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Chd1 bound to a hexasome-nucleosome complex with a dyad-to-dyad distance of 103 bp (Complex from Saccharomyces cerevisiae S288C)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
Structure of Chd1 bound to a dinucleosome with a dyad-to-dyad distance of 103 bp.
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 9gd2
Q-score: 0.295
Engeholm M, Roske JJ, Oberbeckmann E, Dienemann C, Lidschreiber M, Cramer P, Farnung L
Mol Cell (2024) 84 pp. 3423- [ Pubmed: 39270644 DOI: doi:10.1016/j.molcel.2024.08.022 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (248-mer) (77 kDa, DNA from synthetic construct)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- Chromo domain-containing protein 1 (168 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna (248-mer) (76 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Hexasome-nucleosome complex with a dyad-to-dyad distance of 103 bp. (Complex from Xenopus laevis)
Structure of a mononucleosome bound by one copy of Chd1 with the DBD on the exit-side DNA.
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9gd3
Q-score: 0.465
Engeholm M, Roske JJ, Oberbeckmann E, Dienemann C, Lidschreiber M, Cramer P, Farnung L
Mol Cell (2024) 84 pp. 3423- [ Pubmed: 39270644 DOI: doi:10.1016/j.molcel.2024.08.022 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (231-mer) (71 kDa, DNA from synthetic construct)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- Chromo domain-containing protein 1 (168 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Chd1 bound to a hexasome-nucleosome complex with a dyad-to-dyad distance of 103 bp (Complex from Saccharomyces cerevisiae S288C)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna (231-mer) (71 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 stack of the 4x177 nucleosome array containing H1
Resolution: 6.0 Å
EM Method: Single-particle
Fitted PDBs: 7pev
Q-score: 0.224
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 4x177 nucleosome array (Complex)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (520-mer) (218 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Dna (520-mer) (215 kDa, DNA from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
Nucleosome 1 of the 4x177 nucleosome array containing H1
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 7pew
Q-score: 0.29
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)
- Nucleosome 1 from 4x177 nucleosome array (Complex)
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Dna (176-mer) (53 kDa, DNA from synthetic construct)
- Dna (176-mer) (54 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- 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 3 of the 4x177 nucleosome array containing H1
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7pey
Q-score: 0.281
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 (202-mer) (52 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Dna (203-mer) (53 kDa, DNA from synthetic construct)
- Nucleosome 3 from 4x177 nucleosome array (Complex)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)