MolNFT v1 · #187999 · protein
Molecular recognition of formylpeptides and diverse agonists by the formylpeptide receptors FPR1 and FPR2
7T6T · Guanine nucleotide-binding protein G(I) subunit alpha-1: “Molecular recognition of formylpeptides and diverse agonists by the formylpeptide receptors FPR1 and FPR2”. Electron microscopy, 1 ligand (PLM), 9 pockets (best druggability…
- PDB
- 7T6T
- Type
- protein
- Length
- 908 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(I) subunit alpha-1; Guanine nucleotide-binding…
- UniProt
- P63096, P54311, P63212, P21462
- Ligands
- PLM
- Pockets
- 9 · best druggability 0.82
Structure
electron microscopy · 5 distinct chains · 43% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 217 | 48% helix, 15% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 336 | 7% helix, 48% strand | P54311 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 54 | 52% helix, 0% strand | P63212 |
| L | Synthetic peptide | protein | 5 | 0% helix, 0% strand | — |
| R | Fmet-leu-phe receptor | protein | 296 | 78% helix, 2% strand | P21462 |
Ligands and binding sites
- PLM · Palmitic acid · ligand · 2 copies · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 687 | 0.82 | 0.86 | 65 | empty |
| 2 | 1121 | 0.71 | 0.75 | 73 | empty |
| 3 | 373 | 0.62 | 0.78 | 41 | empty |
| 4 | 76 | 0.49 | 0.83 | 13 | PLM |
| 5 | 161 | 0.46 | 0.76 | 24 | empty |
Interfaces
5 interfaces between chains.
- B–C · 2188 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1257 Ų buried · 19 hydrogen bonds · protein-protein
- A–R · 1103 Ų buried · 12 hydrogen bonds · protein-protein
- L–R · 653 Ų buried · 7 hydrogen bonds · protein-protein
- B–R · 58 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide, 1 modified (disulfide, formylation).
Compared structures
- 7T6T · Structure of the human FPR1-Gi complex with fMLFII · the same entry in another collection · chain R against R, TM-score 1.00
- P54311 · 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
- 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 0.81
- P63212 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain C against A, TM-score 0.71
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 P63096
- Every structure of UniProt P54311
- Every structure of UniProt P63212
- Every structure of UniProt P21462
- Elsewhere: RCSB PDB 7T6T · PDBe 7T6T · UniProt P63096 · UniProt P54311 · UniProt P63212 · UniProt P21462
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