MolNFT v1 · #175078 · protein
Cryo-EM structure of the P395-bound gpbar-gs complex
7CFM · Guanine nucleotide-binding protein G(S) subunit alpha…: “Cryo-EM structure of the P395-bound gpbar-gs complex”. Electron microscopy, 2 ligands (CLR, FWX), 11 pockets (best druggability 0.83). MolNFT v1 #175078 on GenesisL1: 3D…
- PDB
- 7CFM
- Type
- protein
- Length
- 1,027 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(S) subunit alpha isoforms short; Guanine…
- UniProt
- P63092, P62873, P59768, Q8TDU6
- Ligands
- CLR, FWX
- Pockets
- 11 · best druggability 0.83
Structure
electron microscopy · 5 distinct chains · 37% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 229 | 46% helix, 15% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 340 | 9% helix, 44% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 58 | 62% helix, 0% strand | P59768 |
| N | Nanobody-35 | protein | 127 | 2% helix, 44% strand | — |
| R | G-protein coupled bile acid receptor 1 | protein | 273 | 75% helix, 1% strand | Q8TDU6 |
Ligands and binding sites
- CLR · Cholesterol · ligand · 3 copies · chains R
- FWX · 2-(ethylamino)-6-[3-(4-propan-2-ylphenyl)propanoyl]-7, 8-dihydro-5H-pyrido[4,3-d]pyrimidine-4-carboxamide · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 829 | 0.83 | 0.86 | 75 | empty |
| 2 | 439 | 0.83 | 0.91 | 42 | FWX |
| 3 | 955 | 0.78 | 0.81 | 86 | empty |
| 4 | 1000 | 0.76 | 0.78 | 73 | empty |
| 5 | 611 | 0.71 | 0.79 | 70 | empty |
Interfaces
6 interfaces between chains.
- B–G · 2269 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 1485 Ų buried · 10 hydrogen bonds · protein-protein
- A–R · 1400 Ų buried · 10 hydrogen bonds · protein-protein
- A–N · 765 Ų buried · 4 hydrogen bonds · protein-protein
- B–N · 604 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7CFM · Cryo-EM structure of the P395-bound GPBAR-Gs complex · the same entry in another collection · chain R against R, 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
- Q8TDU6 · AlphaFold monomer V2.0 prediction for G-protein coupled bile acid receptor 1 (Q8TDU6) · 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 0.92
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 P63092
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt Q8TDU6
- Elsewhere: RCSB PDB 7CFM · PDBe 7CFM · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt Q8TDU6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.