Cryo-EM structure of DDB1dB:CRBN:Pomalidomide:SD40
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8tnp
Q-score: 0.507
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ DOI: doi:10.1126/science.adk4422 Pubmed: 38484051 ]
- Protein cereblon (55 kDa, Protein from Homo sapiens)
- S-pomalidomide (273 Da, Ligand)
- Dna damage-binding protein 1 (96 kDa, Protein from Homo sapiens)
- Ternary complex of ddb1db:crbn:pomalidomide with sd40 (201 kDa, Complex)
- Zinc ion (65 Da, Ligand)
- Maltose/maltodextrin-binding periplasmic protein,sd40 (50 kDa, Protein from Homo sapiens)
Cryo-EM structure of DDB1dB:CRBN:PT-179:SD40, conformation 1
Resolution: 2.41 Å
EM Method: Single-particle
Fitted PDBs: 8tnq
Q-score: 0.591
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ DOI: doi:10.1126/science.adk4422 Pubmed: 38484051 ]
- Protein cereblon (55 kDa, Protein from Homo sapiens)
- 2-[(3s)-2,6-dioxopiperidin-3-yl]-5-(morpholin-4-yl)-1h-isoindole-1,3(2h)-dione (343 Da, Ligand)
- Ternary complex of ddb1db:crbn:pt-179 with sd40 (201 kDa, Complex)
- Dna damage-binding protein 1 (96 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Maltose/maltodextrin-binding periplasmic protein,sd40 (50 kDa, Protein from Homo sapiens)
Cryo-EM structure of DDB1dB:CRBN:PT-179:SD40, conformation 2
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8tnr
Q-score: 0.561
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ Pubmed: 38484051 DOI: doi:10.1126/science.adk4422 ]
- Ternary complex of ddb1db:crbn:pt-179 with sd40 (201 kDa, Complex)
- 2-[(3s)-2,6-dioxopiperidin-3-yl]-5-(morpholin-4-yl)-1h-isoindole-1,3(2h)-dione (343 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna damage-binding protein 1 (96 kDa, Protein from Homo sapiens)
- Maltose/maltodextrin-binding periplasmic protein,sd40 (50 kDa, Protein from Homo sapiens)
- Protein cereblon (55 kDa, Protein from Homo sapiens)
Map from local refinement (focused on CRBN) of DDB1dB:CRBN:Pomalidomide:SD40
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ DOI: doi:10.1126/science.adk4422 Pubmed: 38484051 ]
Map from local refinement (focused on CRBN) of DDB1dB:CRBN:PT-179:SD40, conformation 1
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ DOI: doi:10.1126/science.adk4422 Pubmed: 38484051 ]
Map from local refinement (focused on CRBN) of DDB1dB:CRBN:PT-179:SD40, conformation 2
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ DOI: doi:10.1126/science.adk4422 Pubmed: 38484051 ]