MolNFT v1 · #137132 · protein
Structure of the human glp-1 receptor complex with pf-06372222
5VEW · Glucagon-like peptide 1 RECEPTOR,ENDOLYSIN chimera: “Structure of the human glp-1 receptor complex with pf-06372222”. X-ray diffraction, 2 ligands (97Y, OLA), 13 pockets (best druggability 0.69). MolNFT v1 #137132 on GenesisL1: 3D…
- PDB
- 5VEW
- Type
- protein
- Length
- 847 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glucagon-like peptide 1 RECEPTOR,ENDOLYSIN chimera
- EC
- 3.2.1.17
- UniProt
- P43220, P00720
- Ligands
- 97Y, OLA
- Pockets
- 13 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 73% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glucagon-like peptide 1 RECEPTOR,ENDOLYSIN chimera (EC 3.2.1.17) | protein | 423 | 74% helix, 3% strand | P43220, P00720 |
| B | Glucagon-like peptide 1 RECEPTOR,ENDOLYSIN chimera (EC 3.2.1.17) | protein | 424 | 73% helix, 3% strand | P43220, P00720 |
Ligands and binding sites
- 97Y · N-{4-[(R)-(3,3-dimethylcyclobutyl)({6-[4-(trifluoromethyl)-1H-imidazol-1-yl]pyridin-3-yl}amino)methyl]benzene-1-carbonyl}-beta-alanine · ligand · 2 copies · chains A, B
- OLA · Oleic acid · ligand · chains A
- OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 684 | 0.69 | 0.77 | 52 | empty |
| 2 | 419 | 0.68 | 0.80 | 53 | empty |
| 3 | 527 | 0.65 | 0.76 | 49 | empty |
| 4 | 224 | 0.60 | 0.80 | 27 | empty |
| 5 | 199 | 0.56 | 0.80 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 563 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 modified (disulfide, oxidation).
Compared structures
- 5VEW · Structure of the human GLP-1 receptor complex with PF-06372222 · the same entry in another collection · chain A against A, TM-score 1.00
- P43220 · AlphaFold monomer V2.0 prediction for glucagon-like peptide 1 receptor (P43220) · a predicted model of the same protein · chain A against A, TM-score 0.56
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 P43220
- Every structure of UniProt P00720
- Elsewhere: RCSB PDB 5VEW · PDBe 5VEW · UniProt P43220 · UniProt P00720
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.