MolNFT v1 · #177808 · protein
The structure of formyl peptide receptor 1 in complex with gi and peptide agonist fmlf
7EUO · Fmet-leu-phe receptor: “The structure of formyl peptide receptor 1 in complex with gi and peptide agonist fmlf”. Electron microscopy, 1 ligand (CLR), 13 pockets (best druggability 0.82). MolNFT v1 #177808 on GenesisL1: 3D structure…
- PDB
- 7EUO
- Type
- protein
- Length
- 1,138 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fmet-leu-phe receptor; Guanine nucleotide-binding protein G(I) subunit alpha-1; Guanine…
- UniProt
- P21462, P63096, P62873, P59768
- Ligands
- CLR
- Pockets
- 13 · best druggability 0.82
Structure
electron microscopy · 6 distinct chains · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | Fmet-leu-phe receptor | protein | 295 | 79% helix, 3% strand | P21462 |
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 218 | 44% helix, 17% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 336 | 7% helix, 46% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 54 | 50% helix, 0% strand | P59768 |
| S | SCFV16 | protein | 232 | 3% helix, 47% strand | — |
| C | Peptide agonist fmlf | protein | 3 | 0% helix, 0% strand | — |
Ligands and binding sites
- CLR · Cholesterol · ligand · 2 copies · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 839 | 0.82 | 0.84 | 64 | empty |
| 2 | 969 | 0.70 | 0.75 | 67 | empty |
| 3 | 447 | 0.68 | 0.80 | 58 | empty |
| 4 | 537 | 0.68 | 0.78 | 41 | empty |
| 5 | 218 | 0.57 | 0.79 | 29 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2186 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 1270 Ų buried · 10 hydrogen bonds · protein-protein
- R–A · 1090 Ų buried · 7 hydrogen bonds · protein-protein
- A–S · 559 Ų buried · 4 hydrogen bonds · protein-protein
- R–C · 518 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide, 1 modified (disulfide, formylation).
Compared structures
- 7EUO · The structure of formyl peptide receptor 1 in complex with Gi and peptide agonist fMLF · the same entry in another collection · chain C against C, TM-score 1.00
- P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain B against A, TM-score 0.99
- P21462 · AlphaFold monomer V2.0 prediction for fmet-leu-phe receptor (P21462) · a predicted model of the same protein · chain R against A, TM-score 0.95
- P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain G against A, TM-score 0.87
- P63096 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.80
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 P21462
- Every structure of UniProt P63096
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Elsewhere: RCSB PDB 7EUO · PDBe 7EUO · UniProt P21462 · UniProt P63096 · UniProt P62873 · UniProt P59768
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