Research workbench
Glp-1 peptide hormone bound to glucagon-like peptide-1 (glp-1) receptor
Analyse Glp-1 peptide hormone bound to glucagon-like peptide-1 (glp-1) receptor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6X18
- Type
- protein
- Length
- 1,289 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, P01275, P43220
- Pockets
- 15 · best druggability 0.83
Structure
electron microscopy · 6 distinct chains · 40% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 355 | 50% helix, 12% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 7% helix, 47% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 56 | 59% helix, 0% strand | P59768 |
| N | NANOBODY35 | protein | 126 | 7% helix, 43% strand | — |
| P | Glucagon | protein | 30 | 87% helix, 0% strand | P01275 |
| R | Glucagon-like peptide 1 receptor | protein | 384 | 65% helix, 7% strand | P43220 |
Pockets
15 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 684 | 0.83 | 0.87 | 55 | empty |
| 2 | 902 | 0.77 | 0.80 | 60 | empty |
| 3 | 969 | 0.77 | 0.80 | 65 | empty |
| 4 | 579 | 0.76 | 0.83 | 59 | empty |
| 5 | 131 | 0.63 | 0.87 | 27 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2214 Ų buried · 20 hydrogen bonds · protein-protein
- P–R · 1800 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1520 Ų buried · 33 hydrogen bonds · protein-protein
- A–R · 1160 Ų buried · 13 hydrogen bonds · protein-protein
- A–N · 933 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 6X18 · GLP-1 peptide hormone bound to Glucagon-Like peptide-1 (GLP-1) Receptor · 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 1.00
- 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 0.95
- P01275 · AlphaFold monomer V2.0 prediction for pro-glucagon (P01275) · a predicted model of the same protein · chain P against A, TM-score 0.80
- P43220 · AlphaFold monomer V2.0 prediction for glucagon-like peptide 1 receptor (P43220) · a predicted model of the same protein · chain R against A, TM-score 0.79
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 P01275
- Every structure of UniProt P43220
- Elsewhere: RCSB PDB 6X18 · PDBe 6X18 · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt P01275 · UniProt P43220
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