MolNFT v1 · #187561 · protein
Cryo-EM structure of human ACKR3 in complex with CXCL12, a small molecule partial agonist CCX662, an extracellular Fab, and an intracellular Fab
7SK8: “Cryo-EM structure of human ACKR3 in complex with CXCL12, a small molecule partial agonist CCX662, an…”. Electron microscopy, 3 ligands (CLR, LMN, GJ9). MolNFT v1 #187561 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7SK8
- Type
- protein
- Length
- 835 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P25106, P48061
- Ligands
- CLR, LMN, GJ9
Structure
electron microscopy · 6 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 306 | — | P25106 |
| B | — | protein | 62 | — | P48061 |
| C | — | protein | 108 | — | — |
| D | — | protein | 127 | — | — |
| E | — | protein | 107 | — | — |
| F | — | protein | 125 | — | — |
Ligands and binding sites
- CLR · Cholesterol · ligand · 6 copies · chains A
- LMN · Lauryl Maltose Neopentyl Glycol · ligand · chains A, F
- GJ9 · (1R)-4-[7-(3-carboxypropoxy)-6-methylquinolin-8-yl]-1-{[2-(4-hydroxypiperidin-1-yl)-1,3-thiazol-4-yl]methyl}-1,4-diazepan-1-ium · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7SK8 · Cryo-EM structure of human ACKR3 in complex with CXCL12, a small molecule partial agonist… · the same entry in another collection · chain F against F, TM-score 1.00
- P25106 · AlphaFold monomer V2.0 prediction for atypical chemokine receptor 3 (P25106) · a predicted model of the same protein · chain A against A, TM-score 0.94
- P48061 · AlphaFold monomer V2.0 prediction for stromal cell-derived factor 1 (P48061) · a predicted model of the same protein · chain B against A, TM-score 0.86
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 P25106
- Every structure of UniProt P48061
- Elsewhere: RCSB PDB 7SK8 · PDBe 7SK8 · UniProt P25106 · UniProt P48061
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