Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7v90
Q-score: 0.459
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Dna (145-mer) (46 kDa, DNA from Homo sapiens)
- Dna (145-mer) (43 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (11 kDa, Protein from Homo sapiens)
- Telomeric mononucleosome (Complex from Homo sapiens)
Resolution: 3.92 Å
EM Method: Single-particle
Fitted PDBs: 7v96
Q-score: 0.4
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Dna (275-mer) (87 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Telomeric dinucleosome (Complex from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna (275-mer) (82 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (11 kDa, Protein from Homo sapiens)
Telomeric Dinucleosome in open state
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7v9c
Q-score: 0.109
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Dna (275-mer) (87 kDa, DNA from Homo sapiens)
- Telomeric dinucleosome in open state (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna (275-mer) (82 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
Resolution: 8.0 Å
EM Method: Single-particle
Fitted PDBs: 7v9j
Q-score: 0.107
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna (408-mer) (122 kDa, DNA from Homo sapiens)
- Dna (408-mer) (129 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (11 kDa, Protein from Homo sapiens)
- Telomeric mononucleosome (Complex from Homo sapiens)
Resolution: 8.1 Å
EM Method: Single-particle
Fitted PDBs: 7v9k
Q-score: 0.076
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Dna (539-mer) (161 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna (539-mer) (171 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (11 kDa, Protein from Homo sapiens)
- Telomeric mononucleosome (Complex from Homo sapiens)
Telomeric trinucleosome in open state
Resolution: 11.0 Å
EM Method: Single-particle
Fitted PDBs: 7v9s
Q-score: 0.093
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Dna (408-mer) (129 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (11 kDa, Protein from Homo sapiens)
- Telomeric mononucleosome (Complex from Homo sapiens)
- Dna (408-mer) (122 kDa, DNA from Homo sapiens)
Telomeric tetranucleosome in open state
Resolution: 14.0 Å
EM Method: Single-particle
Fitted PDBs: 7va4
Q-score: 0.043
Soman A, Wong SY, Korolev N, Surya W, Lattmann S, Vogirala VK, Chen Q, Berezhnoy NV, van Noort J, Rhodes D, Nordenskiold L
Nature (2022) 609 pp. 1048-1055 [ DOI: doi:10.1038/s41586-022-05236-5 Pubmed: 36104563 ]
- Dna (539-mer) (171 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna (539-mer) (161 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Telomeric tetranucleosome in open state (Complex from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
Structure of LSD2/NPAC-linker/nucleosome core particle complex: Class 1, free nuclesome
Resolution: 4.02 Å
EM Method: Single-particle
Fitted PDBs: 6r1t
Q-score: 0.339
Marabelli C, Marrocco B, Pilotto S, Chittori S, Picaud S, Marchese S, Ciossani G, Forneris F, Filippakopoulos P, Schoehn G, Rhodes D, Subramaniam S, Mattevi A
Cell Rep (2019) 27 pp. 387-399.e7 [ DOI: doi:10.1016/j.celrep.2019.03.061 Pubmed: 30970244 ]
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Widom dna (Complex from synthetic construct)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Histone h2b (10 kDa, Protein from Xenopus laevis)
- 147 bp nucleosome (198 kDa, Complex)
- Histone h2a (9 kDa, Protein from Xenopus laevis)
- Histone h2a (12 kDa, Protein from Xenopus laevis)
- Histones (Complex from Xenopus laevis)
- Histone h3 (11 kDa, Protein from Xenopus laevis)
Structure of LSD2/NPAC-linker/nucleosome core particle complex: Class 2
Resolution: 4.36 Å
EM Method: Single-particle
Fitted PDBs: 6r1u
Q-score: 0.198
Marabelli C, Marrocco B, Pilotto S, Chittori S, Picaud S, Marchese S, Ciossani G, Forneris F, Filippakopoulos P, Schoehn G, Rhodes D, Subramaniam S, Mattevi A
Cell Rep (2019) 27 pp. 387-399.e7 [ DOI: doi:10.1016/j.celrep.2019.03.061 Pubmed: 30970244 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Lysine-specific histone demethylase 1b (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Putative oxidoreductase glyr1 (13 kDa, Protein from Homo sapiens)
- Putative oxidoreductase glyr1 (Complex from Homo sapiens)
- Histone (Complex from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Lsd2/npac(214-225)/nucleosome (290 kDa, Complex)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Lysine-specific histone demethylase 1b (87 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- Flavin-adenine dinucleotide (785 Da, Ligand)
Structure of LSD2/NPAC-linker/nucleosome core particle complex: Class 3
Resolution: 4.61 Å
EM Method: Single-particle
Fitted PDBs: 6r25
Q-score: 0.186
Marabelli C, Marrocco B, Pilotto S, Chittori S, Picaud S, Marchese S, Ciossani G, Forneris F, Filippakopoulos P, Schoehn G, Rhodes D, Subramaniam S, Mattevi A
Cell Rep (2019) 27 pp. 387-399.e7 [ DOI: doi:10.1016/j.celrep.2019.03.061 Pubmed: 30970244 ]
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Lysine-specific histone demethylase 1b (Complex from Homo sapiens)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- H2b (13 kDa, Protein from Xenopus laevis)
- Npac (1 kDa, Protein from Homo sapiens)
- Lsd2/npac(214-225)/nucleosome (290 kDa, Complex)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Lysine-specific histone demethylase 1b (87 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- H4 (11 kDa, Protein from Xenopus laevis)
- Histones (Complex from Xenopus laevis)
- Npac (Complex from Homo sapiens)
- Water (18 Da, Ligand)