MolNFT v1 · #190321 · protein
The structure of the GPCR-G-protein complex
7WU9 · Prostaglandin E2 receptor EP3 subtype: “The structure of the GPCR-G-protein complex”. Electron microscopy, 10 pockets (best druggability 0.82). MolNFT v1 #190321 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7WU9
- Type
- protein
- Length
- 1,030 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prostaglandin E2 receptor EP3 subtype; Guanine nucleotide-binding protein G(I) subunit…
- UniProt
- P43115, P63096, P62873, P59768
- Pockets
- 10 · best druggability 0.82
Structure
electron microscopy · 5 distinct chains · 34% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | Prostaglandin E2 receptor EP3 subtype | protein | 274 | 81% helix, 2% strand | P43115 |
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 135 | 44% helix, 22% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 336 | 8% helix, 45% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 53 | 60% helix, 0% strand | P59768 |
| S | SCFV16 | protein | 232 | 5% helix, 47% strand | — |
Pockets
10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1024 | 0.82 | 0.83 | 84 | empty |
| 2 | 939 | 0.82 | 0.83 | 105 | empty |
| 3 | 870 | 0.75 | 0.79 | 94 | empty |
| 4 | 404 | 0.70 | 0.81 | 57 | empty |
| 5 | 189 | 0.57 | 0.80 | 27 | empty |
Interfaces
6 interfaces between chains.
- B–G · 1836 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 1010 Ų buried · 7 hydrogen bonds · protein-protein
- R–A · 853 Ų buried · 3 hydrogen bonds · protein-protein
- A–S · 573 Ų buried · 3 hydrogen bonds · protein-protein
- B–S · 437 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7WU9 · Cryo-EM structure of the human EP3-Gi signaling complex · the same entry in another collection · chain S against S, 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
- P43115 · AlphaFold monomer V2.0 prediction for prostaglandin E2 receptor EP3 subtype (P43115) · a predicted model of the same protein · chain R against A, TM-score 0.92
- 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 0.90
- 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 0.71
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 P43115
- Every structure of UniProt P63096
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Elsewhere: RCSB PDB 7WU9 · PDBe 7WU9 · UniProt P43115 · UniProt P63096 · UniProt P62873 · UniProt P59768
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