MolNFT v1 · #136779 · protein
Cereblon in complex with DDB1 and cc-220
5V3O: “Cereblon in complex with DDB1 and cc-220”. X-ray diffraction, 2 ligands (8W7, ZN). MolNFT v1 #136779 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5V3O
- Type
- protein
- Length
- 1,450 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q16531, Q96SW2
- Ligands
- 8W7, ZN
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 1087 | — | Q16531 |
| C | — | protein | 363 | — | Q96SW2 |
Ligands and binding sites
- 8W7 · (3S)-3-[4-({4-[(morpholin-4-yl)methyl]phenyl}methoxy)-1-oxo-1,3-dihydro-2H-isoindol-2-yl]piperidine-2,6-dione · ligand · chains C
- ZN · Zinc ion · metal · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5V3O · Cereblon in complex with DDB1 and CC-220 · the same entry in another collection · chain A against A, TM-score 1.00
- Q96SW2 · AlphaFold monomer V2.0 prediction for protein cereblon (Q96SW2) · a predicted model of the same protein · chain C against A, TM-score 0.99
- Q16531 · AlphaFold monomer V2.0 prediction for DNA damage-binding protein 1 (Q16531) · a predicted model of the same protein · chain A against A, TM-score 0.85
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q16531
- Every structure of UniProt Q96SW2
- Elsewhere: RCSB PDB 5V3O · PDBe 5V3O · UniProt Q16531 · UniProt Q96SW2
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