MolNFT v1 · #168744 · protein
Gcgr-gs signaling complex bound to a designed glucagon derivative
6WPW · Guanine nucleotide-binding protein G(S) subunit alpha…: “Gcgr-gs signaling complex bound to a designed glucagon derivative”. Electron microscopy, 13 pockets (best druggability 0.81). MolNFT v1 #168744 on GenesisL1: 3D structure…
- PDB
- 6WPW
- Type
- protein
- Length
- 1,176 residues
- Chains
- 6
- 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, P47871
- Pockets
- 13 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 36% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 222 | 45% helix, 15% strand | P63092 |
| D | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 340 | 7% helix, 43% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 59 | 46% helix, 0% strand | P59768 |
| N | NB35 | protein | 128 | 5% helix, 41% strand | — |
| P | Glucagon derivative ZP3780 | protein | 29 | 93% helix, 0% strand | — |
| R | Glucagon receptor | protein | 398 | 59% helix, 2% strand | P47871 |
Pockets
13 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 660 | 0.81 | 0.85 | 56 | empty |
| 2 | 991 | 0.77 | 0.79 | 74 | empty |
| 3 | 1068 | 0.76 | 0.78 | 74 | empty |
| 4 | 198 | 0.70 | 0.87 | 25 | empty |
| 5 | 452 | 0.69 | 0.80 | 55 | empty |
Interfaces
7 interfaces between chains.
- D–G · 2199 Ų buried · 17 hydrogen bonds · protein-protein
- P–R · 2016 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 1552 Ų buried · 20 hydrogen bonds · protein-protein
- C–R · 1418 Ų buried · 12 hydrogen bonds · protein-protein
- C–N · 945 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 6WPW · GCGR-Gs signaling complex bound to a designed glucagon derivative · 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 D against A, TM-score 0.99
- P47871 · AlphaFold monomer V2.0 prediction for glucagon receptor (P47871) · a predicted model of the same protein · chain R against A, TM-score 0.97
- 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
- P63092 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(S) subunit… · a predicted model of the same protein · chain C against A, TM-score 0.83
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 P47871
- Elsewhere: RCSB PDB 6WPW · PDBe 6WPW · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt P47871
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