E.coli GroEL + PBZ1587 inhibitor
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 9c0b
Q-score: 0.486
Godek J, Sivinski J, Watson ER, Lebario F, Xu W, Stevens M, Zerio CJ, Ambrose AJ, Zhu X, Trindl CA, Zhang DD, Johnson SM, Lander GC, Chapman E
J Am Chem Soc (2024) 146 pp. 20845-20856 [ Pubmed: 39041457 DOI: doi:10.1021/jacs.4c05057 ]
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 9c0c
Q-score: 0.486
Godek J, Sivinski J, Watson ER, Lebario F, Xu W, Stevens M, Zerio CJ, Ambrose AJ, Zhu X, Trindl CA, Zhang DD, Johnson SM, Lander GC, Chapman E
J Am Chem Soc (2024) 146 pp. 20845-20856 [ Pubmed: 39041457 DOI: doi:10.1021/jacs.4c05057 ]
- E.coli groel apoenzyme (Complex from Escherichia coli)
- 60 kda chaperonin (57 kDa, Protein from Escherichia coli)
Resolution: 3.97 Å
EM Method: Single-particle
Fitted PDBs: 9c0d
Q-score: 0.303
Godek J, Sivinski J, Watson ER, Lebario F, Xu W, Stevens M, Zerio CJ, Ambrose AJ, Zhu X, Trindl CA, Zhang DD, Johnson SM, Lander GC, Chapman E
J Am Chem Soc (2024) 146 pp. 20845-20856 [ Pubmed: 39041457 DOI: doi:10.1021/jacs.4c05057 ]
- E.faecium groel (Complex from Enterococcus faecium)
- Chaperonin groel (57 kDa, Protein from Enterococcus faecium)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8cvp
Q-score: 0.465
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Protein cereblon (50 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Cereblon~ddb1 in the apo form (177 kDa, Complex from Homo sapiens)
Cereblon~DDB1 bound to CC-92480 with DDB1 in the linear conformation
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8d7u
Q-score: 0.515
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Protein cereblon (50 kDa, Protein from Homo sapiens)
- Mezigdomide (567 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Cereblon~ddb1 bound to cc-92480 with ddb1 in the linear conformation (177 kDa, Complex from Homo sapiens)
Cereblon~DDB1 bound to CC-92480 with DDB1 in the twisted conformation
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8d7v
Q-score: 0.45
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Protein cereblon (50 kDa, Protein from Homo sapiens)
- Mezigdomide (567 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Cereblon~ddb1 bound to cc-92480 with ddb1 in the twisted conformation (177 kDa, Complex from Homo sapiens)
Cereblon~DDB1 bound to CC-92480 with DDB1 in the hinged conformation
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8d7w
Q-score: 0.476
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Cereblon~ddb1 bound to cc-92480 with ddb1 in the hinged conformation (177 kDa, Complex from Homo sapiens)
- Protein cereblon (50 kDa, Protein from Homo sapiens)
- Mezigdomide (567 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
Cereblon~DDB1 in the Apo form with DDB1 in the hinged conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d7x
Q-score: 0.488
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Zinc ion (65 Da, Ligand)
- Cereblon~ddb1 in the apo form with ddb1 in the hinged conformation (177 kDa, Complex from Homo sapiens)
- Protein cereblon (50 kDa, Protein from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
Cereblon-DDB1 in the Apo form with DDB1 in the twisted conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d7y
Q-score: 0.453
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Zinc ion (65 Da, Ligand)
- Cereblon~ddb1 in the apo form with ddb1 in twisted conformation (177 kDa, Complex from Homo sapiens)
- Protein cereblon (50 kDa, Protein from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
Cereblon bound to CC-92480, Focused Refinement
Watson ER, Novick S, Matyskiela ME, Chamberlain PP, H de la Pena A, Zhu J, Tran E, Griffin PR, Wertz IE, Lander GC
Science (2022) 378 pp. 549-553 [ Pubmed: 36378961 DOI: doi:10.1126/science.add7574 ]
- Cereblon (Protein from Homo sapiens)
- Cereblon bound to cc-92480 (Complex from Homo sapiens)