Monomeric E6AP-E6-p53 ternary complex
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 8r1f
Q-score: 0.316
Sandate CR, Chakraborty D, Kater L, Kempf G, Thoma NH
bioRxiv (2023) [ DOI: doi:10.1101/2023.11.01.565136 ]
- Monomeric e6ap-e6-p53 ternary complex (176 kDa, Complex from Homo sapiens)
- Cellular tumor antigen p53 (46 kDa, Protein from Homo sapiens)
- Ubiquitin-like protein smt3,protein e6 (31 kDa, Protein from Human papillomavirus type 16)
- Ubiquitin-protein ligase e3a (103 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Dimeric ternary structure of E6AP-E6-p53
Resolution: 3.99 Å
EM Method: Single-particle
Fitted PDBs: 8r1g
Q-score: 0.175
Sandate CR, Chakraborty D, Kater L, Kempf G, Thoma NH
bioRxiv (2023) [ DOI: doi:10.1101/2023.11.01.565136 ]
- Dimeric e6ap-e6-p53 ternary complex (352 kDa, Complex from Homo sapiens)
- Cellular tumor antigen p53 (46 kDa, Protein from Homo sapiens)
- Ubiquitin-like protein smt3,protein e6 (31 kDa, Protein from Human papillomavirus type 16)
- Ubiquitin-protein ligase e3a (103 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of dimeric UBR5
Resolution: 3.36 Å
EM Method: Single-particle
Fitted PDBs: 8p82
Q-score: 0.299
Tsai JM, Aguirre JD, Li YD, Brown J, Focht V, Kater L, Kempf G, Sandoval B, Schmitt S, Rutter JC, Galli P, Sandate CR, Cutler JA, Zou C, Donovan KA, Lumpkin RJ, Cavadini S, Park PMC, Sievers Q, Hatton C, Ener E, Regalado BD, Sperling MT, Slabicki M, Kim J, Zon R, Zhang Z, Miller PG, Belizaire R, Sperling AS, Fischer ES, Irizarry R, Armstrong SA, Thoma NH, Ebert BL
Mol Cell (2023) 83 pp. 2753-2767.e10 [ DOI: doi:10.1016/j.molcel.2023.06.028 Pubmed: 37478846 ]
- Dimer of ubr5 (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- E3 ubiquitin-protein ligase ubr5 (313 kDa, Protein from Homo sapiens)
Cryo-EM structure of full-length human UBR5 (homotetramer)
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 8p83
Q-score: 0.2
Tsai JM, Aguirre JD, Li YD, Brown J, Focht V, Kater L, Kempf G, Sandoval B, Schmitt S, Rutter JC, Galli P, Sandate CR, Cutler JA, Zou C, Donovan KA, Lumpkin RJ, Cavadini S, Park PMC, Sievers Q, Hatton C, Ener E, Regalado BD, Sperling MT, Slabicki M, Kim J, Zon R, Zhang Z, Miller PG, Belizaire R, Sperling AS, Fischer ES, Irizarry R, Armstrong SA, Thoma NH, Ebert BL
Mol Cell (2023) 83 pp. 2753- [ DOI: doi:10.1016/j.molcel.2023.06.028 Pubmed: 37478846 ]
- Tetramer of ubr5 (Complex from Homo sapiens)
- E3 ubiquitin-protein ligase ubr5 (313 kDa, Protein from Homo sapiens)
Cryo-EM density map of UBR5 in complex with MCRS1
Mark KG, Kolla S, Aguirre JD, Garshott DM, Schmitt S, Haakonsen DL, Xu C, Kater L, Kempf G, Martinez-Gonzalez B, Akopian D, See SK, Thoma NH, Rape M
Cell (2023) 186 pp. 3460-3475.e23 [ Pubmed: 37478862 DOI: doi:10.1016/j.cell.2023.06.015 ]
- Ubr5 in complex with mcrs1 (Complex from Homo sapiens)
- Ubr5 (Protein from Homo sapiens)
- Mcrs1 (Protein from Homo sapiens)
Negative stain map of UBR5 (dimer) in complex with RARA/RXRA
Tsai JM, Aguirre JD, Li YD, Brown J, Focht V, Kater L, Kempf G, Sandoval B, Schmitt S, Rutter JC, Galli P, Sandate CR, Cutler JA, Zou C, Donovan KA, Lumpkin RJ, Cavadini S, Park PMC, Sievers Q, Hatton C, Ener E, Regalado BD, Sperling MT, Slabicki M, Kim J, Zon R, Zhang Z, Miller PG, Belizaire R, Sperling AS, Fischer ES, Irizarry R, Armstrong SA, Thoma NH, Ebert BL
Mol Cell (2023) 83 pp. 2753-2767.e10 [ DOI: doi:10.1016/j.molcel.2023.06.028 Pubmed: 37478846 ]
- Ubr5 in complex with rara/rxra (Complex from Homo sapiens)
- Ubr5 (Protein from Homo sapiens)
- Rara (Protein from Homo sapiens)
- Rxra (Protein from Homo sapiens)
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 [ DOI: doi:10.1038/s41586-023-06282-3 Pubmed: 37407816 ]
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 [ DOI: doi:10.1038/s41586-023-06282-3 Pubmed: 37407816 ]
- Nucleosome core particle (Complex)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Nucleosomal dna (Complex from synthetic construct)
- Dna (124-mer) (47 kDa, DNA from synthetic construct)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Clock-bmal1 bound to a nucleosome at shl -6.2 (Complex)
- Dna (124-mer) (47 kDa, DNA from synthetic construct)
- Circadian locomoter output cycles protein kaput (43 kDa, Protein from Mus musculus)
- Basic helix-loop-helix arnt-like protein 1 (43 kDa, Protein from Mus musculus)
- Histone octamer (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Clock-bmal1 heterodimer (Complex from Mus musculus)
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 [ DOI: doi:10.1038/s41586-023-06282-3 Pubmed: 37407816 ]
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 [ DOI: doi:10.1038/s41586-023-06282-3 Pubmed: 37407816 ]
- Nucleosomal core particle (Complex)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Nucleosomal dna (Complex from synthetic construct)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Dna (124-mer) (46 kDa, DNA from synthetic construct)
- Dna (124-mer) (47 kDa, DNA from synthetic construct)
- Circadian locomoter output cycles protein kaput (43 kDa, Protein from Mus musculus)
- Basic helix-loop-helix arnt-like protein 1 (43 kDa, Protein from Mus musculus)
- Histone octamer (Complex from Homo sapiens)
- Clock-bmal1 bound to a nucleosome shl+5.8 (Complex)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Clock-bmal1 heterodimer (Complex from Mus musculus)