Cryo-EM structure of the ZBTB5 BTB domain filament
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 9b9r
Q-score: 0.315
Park PMC, Park J, Brown J, Hunkeler M, Roy Burman SS, Donovan KA, Yoon H, Nowak RP, Slabicki M, Ebert BL, Fischer ES
Mol Cell (2024) 84 pp. 2511-2524.e8 [ DOI: doi:10.1016/j.molcel.2024.06.010 Pubmed: 38996460 ]
Cryo-EM structure of the ZBTB9 BTB domain filament
Resolution: 8.1 Å
EM Method: Helical reconstruction
Fitted PDBs: 9b9v
Q-score: 0.168
Park PMC, Park J, Brown J, Hunkeler M, Roy Burman SS, Donovan KA, Yoon H, Nowak RP, Slabicki M, Ebert BL, Fischer ES
Mol Cell (2024) 84 pp. 2511-2524.e8 [ DOI: doi:10.1016/j.molcel.2024.06.010 Pubmed: 38996460 ]
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 ]
- Zinc ion (65 Da, Ligand)
- Dimer of ubr5 (Complex from Homo sapiens)
- 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)
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 (Protein from Homo sapiens)
- Rxra (Protein from Homo sapiens)
- Ubr5 in complex with rara/rxra (Complex from Homo sapiens)
- Rara (Protein from Homo sapiens)
Cryo-EM structure of DDB1deltaB-DDA1-DCAF16-BRD4(BD2)-MMH2
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8g46
Q-score: 0.643
Li YD, Ma MW, Hassan MM, Hunkeler M, Teng M, Puvar K, Lumpkin R, Sandoval B, Jin CY, Ficarro SB, Wang MY, Xu S, Groendyke BJ, Sigua LH, Tavares I, Zou C, Tsai JM, Park PMC, Yoon H, Majewski FC, Marto JA, Qi J, Nowak RP, Donovan KA, Slabicki M, Gray NS, Fischer ES, Ebert BL
bioRxiv (2023) [ DOI: doi:10.1101/2023.02.14.528208 Pubmed: 36824856 ]
- Zinc ion (65 Da, Ligand)
- Ternary complex of cullin ring e3 ubiquitin ligase substrate receptor arm (ddb1deltab-dda1-dcaf16) in compound-induced complex with bromodomain 2 of brd4 (148 kDa, Complex from Homo sapiens)
- Dna damage-binding protein 1 (96 kDa, Protein from Homo sapiens)
- Det1- and ddb1-associated protein 1 (12 kDa, Protein from Homo sapiens)
- Bromodomain-containing protein 4 (14 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 16 (24 kDa, Protein from Homo sapiens)
- Tert-butyl [(6s,10p)-4-{4-[(ethanesulfonyl)amino]phenyl}-2,3,9-trimethyl-6h-thieno[3,2-f][1,2,4]triazolo[4,3-a][1,4]diazepin-6-yl]acetate (529 Da, Ligand)
- Water (18 Da, Ligand)
Cryo-EM structure of BCL6 bound to BI-3802
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6xmx
Q-score: 0.285
Slabicki M, Yoon H, Koeppel J, Nitsch L, Roy Burman SS, Di Genua C, Donovan KA, Sperling AS, Hunkeler M, Tsai JM, Sharma R, Guirguis A, Zou C, Chudasama P, Gasser JA, Miller PG, Scholl C, Frohling S, Nowak RP, Fischer ES, Ebert BL
Nature (2020) 588 pp. 164-168 [ DOI: doi:10.1038/s41586-020-2925-1 Pubmed: 33208943 ]
- B-cell lymphoma 6 protein (bcl6) filament (352 kDa, Cellular component from Homo sapiens)
- 2-[6-[[5-chloranyl-2-[(3~{s},5~{r})-3,5-dimethylpiperidin-1-yl]pyrimidin-4-yl]amino]-1-methyl-2-oxidanylidene-quinolin-3-yl]oxy-~{n}-methyl-ethanamide (484 Da, Ligand)
- B-cell lymphoma 6 protein (44 kDa, Protein from Homo sapiens)