Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
Resolution: 6.2 Å
EM Method: Single-particle
Fitted PDBs: 8osj
Q-score: 0.219
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Nucleosome core particle (Complex)
- Clock-bmal1 heterodimer (Complex from Mus musculus)
- Dna (124-mer) (47 kDa, DNA from synthetic construct)
- Circadian locomoter output cycles protein kaput (43 kDa, Protein from Mus musculus)
- Histone octamer (Complex from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (124-mer) (47 kDa, DNA from synthetic construct)
- Basic helix-loop-helix arnt-like protein 1 (43 kDa, Protein from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Nucleosomal dna (Complex from synthetic construct)
- Clock-bmal1 bound to a nucleosome at shl -6.2 (Complex)
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
Cryo-EM structure of CLOCK-BMAL1 bound to a nucleosomal E-box at position SHL+5.8 (composite map)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8osk
Q-score: 0.267
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Clock-bmal1 heterodimer (Complex from Mus musculus)
- Clock-bmal1 bound to a nucleosome shl+5.8 (Complex)
- Circadian locomoter output cycles protein kaput (43 kDa, Protein from Mus musculus)
- Dna (124-mer) (46 kDa, DNA from synthetic construct)
- Histone octamer (Complex from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Nucleosomal core particle (Complex)
- Basic helix-loop-helix arnt-like protein 1 (43 kDa, Protein from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (124-mer) (47 kDa, DNA from synthetic construct)
- Nucleosomal dna (Complex from synthetic construct)
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Clock-bmal1 heterodimer (Complex from Mus musculus)
- Histone octamer (Complex from Homo sapiens)
- Nucleosomal core particle (Complex from Homo sapiens)
- Clock-bmal1 bound to a nucleosome shl+5.8 (Complex from Homo sapiens)
- Nucleosomal dna (Complex from synthetic construct)
Cryo-EM map of MYC-MAX-OCT4-LIN28 complex
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Myc-max and oct4-bound nucleosome (Complex)
- Histone h3.1 (Protein from Homo sapiens)
- Histone h2b type 1-j (Protein from Homo sapiens)
- Oct4-gfp (Protein from Homo sapiens)
- Human_max (Protein from Homo sapiens)
- Oct4-gfp (Complex from Homo sapiens)
- Histone h4 (Protein from Homo sapiens)
- Histone h2a type 1-b/e (Protein from Homo sapiens)
- Human_cmyc (Protein from Homo sapiens)
- Histones, human_cmyc and human_max (Complex from Homo sapiens)
Resolution: 4.9 Å
EM Method: Single-particle
Fitted PDBs: 8osl
Q-score: 0.177
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Nucleosome core particle (Complex)
- Basic helix-loop-helix arnt-like protein 1 (43 kDa, Protein from Mus musculus)
- Clock-bmal1 heterodimer (Complex from Mus musculus)
- Circadian locomoter output cycles protein kaput (43 kDa, Protein from Mus musculus)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Histone octamer (Complex from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Nucleosomal dna (Complex from synthetic construct)
- Clock-bmal1 bound to a nucleosome at shl -6.2 (Complex)
Cryo-EM structure of CLOCK-BMAL1 bound to the native Por enhancer nucleosome (map 1)
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
MAX-MAX bound to a nucleosome at SHL+5.1 and SHL-6.9.
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Histone h3.1 (Protein from Homo sapiens)
- Histone h2a type 1-b/e (Protein from Homo sapiens)
- Dna (Complex from Synthetic construct)
- Max (Protein from Homo sapiens)
- Histone h4 (Protein from Homo sapiens)
- Max (Complex from Homo sapiens)
- Histones (Complex from Homo sapiens)
- Max-max bound to a nucleosome at shl+5.1 and shl-6.9 (Complex)
- Histone h2b type 1-j (Protein from Homo sapiens)
- Dna (127-mer) (DNA from synthetic construct)
OCT4 and MYC-MAX co-bound to a nucleosome
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8ots
Q-score: 0.404
Michael AK, Stoos L, Crosby P, Eggers N, Nie XY, Makasheva K, Minnich M, Healy KL, Weiss J, Kempf G, Cavadini S, Kater L, Seebacher J, Vecchia L, Chakraborty D, Isbel L, Grand RS, Andersch F, Fribourgh JL, Schubeler D, Zuber J, Liu AC, Becker PB, Fierz B, Partch CL, Menet JS, Thoma NH
Nature (2023) 619 pp. 385-393 [ Pubmed: 37407816 DOI: doi:10.1038/s41586-023-06282-3 ]
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Oct4 (Complex from Homo sapiens)
- Myc-max and oct4-bound nucleosome (Complex)
- Dna (127-mer) (39 kDa, DNA from synthetic construct)
- Dna (127-mer) (39 kDa, DNA from synthetic construct)
- Protein max (9 kDa, Protein from Homo sapiens)
- Histone octamer (Complex from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Nucleosome-bound factors (Complex)
- Cmyc-max heterodimer (Complex from Homo sapiens)
- Nucleosomal core particle (Complex)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Pentanedial (100 Da, Ligand)
- Green fluorescent protein,pou domain, class 5, transcription factor 1 (59 kDa, Protein from Homo sapiens)
- Nucleosomal dna (Complex from synthetic construct)
- Myc proto-oncogene protein (11 kDa, Protein from Homo sapiens)