MolNFT v1 · #189856 · protein
Cryo-EM structure of a dimeric GPCR-gi complex with peptide
7W0N · Guanine nucleotide-binding protein G(I) subunit alpha-1: “Cryo-EM structure of a dimeric GPCR-gi complex with peptide”. Electron microscopy, 20 pockets (best druggability 0.82). MolNFT v1 #189856 on GenesisL1: 3D structure, binding…
- PDB
- 7W0N
- Type
- protein
- Length
- 1,485 residues
- Chains
- 8
- 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, P62873, P59768, P35414, P0DMC3
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 7 distinct chains · 43% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 226 | 41% helix, 13% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 339 | 10% helix, 38% strand | P62873 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 61 | 57% helix, 0% strand | P59768 |
| Q | Soluble cytochrome B562,APELIN receptor | protein | 297 | 78% helix, 1% strand | P35414 |
| R | Soluble cytochrome B562,APELIN receptor | protein | 298 | 75% helix, 1% strand | P35414 |
| S | SCFV16 | protein | 234 | 3% helix, 31% strand | — |
| D, E | Apelin receptor early endogenous ligand | protein | 15 | 20% helix, 0% strand | P0DMC3 |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 591 | 0.82 | 0.87 | 54 | empty |
| 2 | 1020 | 0.82 | 0.83 | 128 | empty |
| 3 | 791 | 0.82 | 0.84 | 69 | empty |
| 4 | 1147 | 0.81 | 0.82 | 94 | empty |
| 5 | 612 | 0.80 | 0.85 | 56 | empty |
Interfaces
11 interfaces between chains.
- B–C · 1847 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 949 Ų buried · 1 hydrogen bond · protein-protein
- R–D · 907 Ų buried · 8 hydrogen bonds · protein-protein
- Q–E · 845 Ų buried · 4 hydrogen bonds · protein-protein
- A–R · 819 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7W0N · Cryo-EM structure of a dimeric GPCR-Gi complex with peptide · the same entry in another collection · chain E against E, 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 0.97
- P35414 · AlphaFold monomer V2.0 prediction for apelin receptor (P35414) · a predicted model of the same protein · chain R against A, TM-score 0.88
- 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 C against A, TM-score 0.82
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 P62873
- Every structure of UniProt P59768
- Every structure of UniProt P35414
- Every structure of UniProt P0DMC3
- Elsewhere: RCSB PDB 7W0N · PDBe 7W0N · UniProt P63096 · UniProt P62873 · UniProt P59768 · UniProt P35414 · UniProt P0DMC3
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