9YA9
Cryo-EM structure of ternary complex BCL6-CRBN-DDB1 with BMS-986458 (local refined), a potent and selective BCL6 ligand directed degrader (LDD)
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (A, B) | B-cell lymphoma 6 protein | polymer | 143 | 16431.9 | 2 | UniProt (P41182) | Homo sapiens (human) | BCL-6,B-cell lymphoma 5 protein,BCL-5,Protein LAZ-3,Zinc finger and BTB domain-containing protein 27,Zinc finger protein 51 |
| 2 | C (C) | Protein cereblon | polymer | 467 | 53582.0 | 1 | UniProt (Q96SW2) | Homo sapiens (human) | |
| 3 | D (C) | (3R)-3-(6-{[(3R,4R)-1-{5-chloro-4-[(1-methyl-2-oxo-2,3-dihydro-1H-indol-5-yl)amino]pyrimidin-2-yl}-3-methylpiperidin-4-yl]amino}-1-methyl-1H-indazol-3-yl)piperidine-2,6-dione | non-polymer | 628.1 | 1 | Chemie (A1CTU) | |||
| 4 | E (C) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) |
Sequence modifications
A, B: 5 - 129 (UniProt: P41182)
C: 1 - 442 (UniProt: Q96SW2)
| PDB | External Database | Details |
|---|---|---|
| Gly -13 | - | expression tag |
| Ser -12 | - | expression tag |
| Leu -11 | - | expression tag |
| Asp -10 | - | expression tag |
| Tyr -9 | - | expression tag |
| Lys -8 | - | expression tag |
| Asp -7 | - | expression tag |
| Asp -6 | - | expression tag |
| Asp -5 | - | expression tag |
| Asp -4 | - | expression tag |
| Lys -3 | - | expression tag |
| Glu -2 | - | expression tag |
| Asn -1 | - | expression tag |
| Leu 0 | - | expression tag |
| Tyr 1 | - | expression tag |
| Phe 2 | - | expression tag |
| Gln 3 | - | expression tag |
| Gly 4 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met -24 | - | expression tag |
| Ser -23 | - | expression tag |
| Tyr -22 | - | expression tag |
| Tyr -21 | - | expression tag |
| His -20 | - | expression tag |
| His -19 | - | expression tag |
| His -18 | - | expression tag |
| His -17 | - | expression tag |
| His -16 | - | expression tag |
| His -15 | - | expression tag |
| Asp -14 | - | expression tag |
| Tyr -13 | - | expression tag |
| Asp -12 | - | expression tag |
| Ile -11 | - | expression tag |
| Pro -10 | - | expression tag |
| Thr -9 | - | expression tag |
| Thr -8 | - | expression tag |
| Gly -7 | - | expression tag |
| Leu -6 | - | expression tag |
| Val -5 | - | expression tag |
| Pro -4 | - | expression tag |
| Arg -3 | - | expression tag |
| Gly -2 | - | expression tag |
| Ser -1 | - | expression tag |
| Met 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 86445.7 | |
| Non-Polymers* | Number of molecules | 2 |
| Total formula weight | 693.5 | |
| All* | Total formula weight | 87139.2 |
