cryo-EM structure of H2BK34ub nucleosome
Resolution: 3.48 Å
EM Method: Single-particle
Fitted PDBs: 7xd0
Q-score: 0.457
Ai H, Sun M, Liu A, Sun Z, Liu T, Cao L, Liang L, Qu Q, Li Z, Deng Z, Tong Z, Chu G, Tian X, Deng H, Zhao S, Li JB, Lou Z, Liu L
Nat Chem Biol (2022) 18 pp. 972-980 [ Pubmed: 35739357 DOI: doi:10.1038/s41589-022-01067-7 ]
- H2bk34ub nucleosome (Complex from Homo sapiens)
- Dna (146-mer) (44 kDa, DNA from synthetic construct)
- Histone domain-containing protein (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from synthetic construct)
- Dna (146-mer) (45 kDa, DNA from synthetic construct)
- Histone h2a (11 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
- Ubiquitin-60s ribosomal protein l40 (8 kDa, Protein from synthetic construct)
Cryo-EM map of human telomerase-DNA-TPP1-POT1 complex (sharpened map)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7qxb
Q-score: 0.278
Sekne Z, Ghanim GE, van Roon AM, Nguyen THD
Science (2022) 375 pp. 1173-1176 [ Pubmed: 35201900 DOI: doi:10.1126/science.abn6840 ]
- Telomerase reverse transcriptase and telomeric rna (Complex from Homo sapiens)
- Histones (Complex from Homo sapiens)
- Human telomerase rna (145 kDa, RNA from Homo sapiens)
- Telomeric dna (Complex from Homo sapiens)
- Tpp1-pot1 (Complex from Homo sapiens)
- Protection of telomeres protein 1 (71 kDa, Protein from Homo sapiens)
- Adrenocortical dysplasia homolog (mouse), isoform cra_a (49 kDa, Protein from Homo sapiens)
- Histone h2b (18 kDa, Protein from Homo sapiens)
- Telomeric dna (9 kDa, DNA from Homo sapiens)
- Histone h2a (14 kDa, Protein from Homo sapiens)
- Complex of telomeric dna-bound human telomerase with tpp1-pot1 (Complex)
- Telomerase reverse transcriptase (127 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1093/nar/gkab907 Pubmed: 34643712 ]
- Dna (136-mer) (Complex from unidentified)
- Histone h2a.z (13 kDa, Protein from Mus musculus)
- Dna (136-mer) (45 kDa, DNA from unidentified)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h4 (Complex from Xenopus laevis)
- Nucleosome core particle containing variant h2a.z and canonical core histones (Complex)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Histone variant h2a.z (Complex from Mus musculus)
- Histone h3 (Complex from Xenopus laevis)
- Dna (136-mer) (45 kDa, DNA from unidentified)
- Histone h2b (Complex from Xenopus laevis)
- Histone h2b 1.1 (13 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- [ DOI: doi:10.1016/j.molcel.2021.08.010 Pubmed: 34478647 ]
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (157-mer) (48 kDa, DNA from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Nucleosome isolated from metaphase chromosome formed in xenopus egg extract (oligo fraction) (Complex from Xenopus laevis)
- Dna (157-mer) (47 kDa, DNA from Xenopus laevis)
The catalytic core lobe of human telomerase in complex with a telomeric DNA substrate
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7bg9
Q-score: 0.346
Ghanim GE, Fountain AJ, van Roon AM, Rangan R, Das R, Collins K, Nguyen THD
Nature (2021) 593 pp. 449-453 [ DOI: doi:10.1038/s41586-021-03415-4 Pubmed: 33883742 ]
- Human telomerase catalytic core in complex with a telomeric dna substrate (Complex)
- Rna (256-mer) (145 kDa, RNA from Homo sapiens)
- Histone (Complex from Homo sapiens)
- Dna (5'-d(p*tp*tp*ap*gp*gp*g)-3') (5 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Telomerase reverse transcriptase,telomerase reverse transcriptase (149 kDa, Protein from Homo sapiens)
- Histone h2b (18 kDa, Protein from Homo sapiens)
- Histone h2a (14 kDa, Protein from Homo sapiens)
- Telomerase reverse transcriptase (Complex from Homo sapiens)
Cryo-EM structure of a chromatosome containing human linker histone H1.4
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 7k5y
Q-score: 0.527
Zhou BR, Feng H, Kale S, Fox T, Khant H, de Val N, Ghirlando R, Panchenko AR, Bai Y
Mol Cell (2021) 81 pp. 166-182.e6 [ Pubmed: 33238161 DOI: doi:10.1016/j.molcel.2020.10.038 ]
- Scfv20 (29 kDa, Protein from Mus musculus)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Histone h1.4 (21 kDa, Protein from Homo sapiens)
- Dna (197-mer) (60 kDa, DNA from Homo sapiens)
- Chromatosome containing human linker histone h1.4 (Complex from human)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (197-mer) (61 kDa, DNA from Homo sapiens)
Structure of human cGAS (K394E) bound to the nucleosome (focused refinement of cGAS-NCP subcomplex)
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 6y5e
Q-score: 0.43
Pathare GR, Decout A, Gluck S, Cavadini S, Makasheva K, Hovius R, Kempf G, Weiss J, Kozicka Z, Guey B, Melenec P, Fierz B, Thoma NH, Ablasser A
Nature (2020) 587 pp. 668-672 [ Pubmed: 32911482 DOI: doi:10.1038/s41586-020-2750-6 ]
- Histone h4 (Complex from Homo sapiens)
- Dna (153-mer) (46 kDa, DNA from Homo sapiens)
- Pentanedial (100 Da, Ligand)
- Dna (153-mer) (47 kDa, DNA from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Histone h3.2 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (11 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (11 kDa, Protein from Homo sapiens)
- Cyclic gmp-amp synthase (42 kDa, Protein from Homo sapiens)
- Cryo em structure of cgas-ncp1 complex (240 kDa, Complex)
- Dna (Complex from Homo sapiens)
- Protein (Complex from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
cryo-EM structure of human H2A.B nucleosome
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 6m4g
Q-score: 0.493
Zhou M, Dai L, Li C, Shi L, Huang Y, Guo Z, Wu F, Zhu P, Zhou Z
EMBO J (2021) 40 pp. e105907-e105907 [ DOI: doi:10.15252/embj.2020105907 Pubmed: 33073403 ]
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Dna (93-mer) (45 kDa, DNA from Homo sapiens)
- H2a.b nucleosome (Complex from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (93-mer) (45 kDa, DNA from Homo sapiens)
- Histone h2a-bbd type 2/3 (12 kDa, Protein from Homo sapiens)
OCT4-SOX2-bound nucleosome - SHL-6
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 6t90
Q-score: 0.451
Michael AK, Grand RS, Isbel L, Cavadini S, Kozicka Z, Kempf G, Bunker RD, Schenk AD, Graff-Meyer A, Pathare GR, Weiss J, Matsumoto S, Burger L, Schubeler D, Thoma NH
Science (2020) 368 pp. 1460-1465 [ Pubmed: 32327602 DOI: doi:10.1126/science.abb0074 ]
- Pentanedial (100 Da, Ligand)
- Histones (Complex from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Ternary complex of oct4-sox2 and shl-6 nucleosome (Complex)
- Dna (146-mer) (45 kDa, DNA from synthetic construct)
- Green fluorescent protein,pou domain, class 5, transcription factor 1 (70 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Transcription factor sox-2 (12 kDa, Protein from Homo sapiens)
- G protein/gfp fusion protein,pou domain, class 5, transcription factor 1 (oct4) (Complex from Homo sapiens)
- Dna (146-mer) (46 kDa, DNA from synthetic construct)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Sox2 (Complex from Homo sapiens)
Structure of human Sox11 transcription factor in complex with a nucleosome
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6t7a
Q-score: 0.37
Dodonova SO, Zhu F, Dienemann C, Taipale J, Cramer P
Nature (2020) 580 pp. 669-672 [ Pubmed: 32350470 DOI: doi:10.1038/s41586-020-2195-y ]
- Histone h2a type 1-b/e (16 kDa, Protein from Homo sapiens)
- Sox11 transcription factor, histones (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (Complex from synthetic construct)
- Histone h2b type 1-k (13 kDa, Protein from Homo sapiens)
- Structure of human sox11 transcription factor in complex with a nucleosome (218 kDa, Complex)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Transcription factor sox-11 (12 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)