MolNFT v1 · #189121 · protein
Cryo-EM structure of the GIPR/GLP-1R/GCGR triagonist peptide 20-bound human gcgr-gs complex
7V35 · Guanine nucleotide-binding protein G(S) subunit alpha…: “Cryo-EM structure of the GIPR/GLP-1R/GCGR triagonist peptide 20-bound human gcgr-gs complex”. Electron microscopy, 1 ligand (D6M), 20 pockets (best druggability 0.84). MolNFT…
- PDB
- 7V35
- Type
- protein
- Length
- 1,140 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, P54311, P63212, P47871
- Ligands
- D6M
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 6 distinct chains · 35% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 207 | 38% helix, 13% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 7% helix, 35% strand | P54311 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 49 | 39% helix, 0% strand | P63212 |
| N | Nanobody-35 | protein | 126 | 2% helix, 44% strand | — |
| P | Peptide 20 | protein | 28 | 89% helix, 0% strand | — |
| R | Glucagon receptor | protein | 392 | 63% helix, 1% strand | P47871 |
Ligands and binding sites
- D6M · N-hexadecanoyl-L-glutamic acid · ligand · chains P, R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 856 | 0.84 | 0.86 | 83 | empty |
| 2 | 836 | 0.74 | 0.79 | 66 | empty |
| 3 | 1175 | 0.72 | 0.76 | 71 | empty |
| 4 | 58 | 0.67 | 0.95 | 19 | empty |
| 5 | 700 | 0.67 | 0.76 | 87 | empty |
Interfaces
7 interfaces between chains.
- P–R · 1849 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 1834 Ų buried · 10 hydrogen bonds · protein-protein
- A–R · 1426 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1367 Ų buried · 17 hydrogen bonds · protein-protein
- A–N · 923 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 1 covalent, 1 modified (disulfide, covalent ligand, nonstandard).
Compared structures
- 7V35 · Cryo-EM structure of the GIPR/GLP-1R/GCGR triagonist peptide 20-bound human GCGR-Gs… · 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 0.98
- P47871 · AlphaFold monomer V2.0 prediction for glucagon receptor (P47871) · a predicted model of the same protein · chain R against A, TM-score 0.95
- 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 0.62
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 P54311
- Every structure of UniProt P63212
- Every structure of UniProt P47871
- Elsewhere: RCSB PDB 7V35 · PDBe 7V35 · UniProt P63092 · UniProt P54311 · UniProt P63212 · UniProt P47871
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