Research workbench
Pf 06882961 bound to the glucagon-like peptide-1 receptor (glp-1R)
Analyse Pf 06882961 bound to the glucagon-like peptide-1 receptor (glp-1R) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7LCK
- Type
- protein
- Length
- 390 residues
- Chains
- 1
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glucagon-like peptide 1 receptor
- UniProt
- P43220
- Ligands
- UK4
- Pockets
- 3 · best druggability 0.85
Structure
electron microscopy · 1 distinct chain · 61% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | Glucagon-like peptide 1 receptor | protein | 390 | 61% helix, 6% strand | P43220 |
Ligands and binding sites
- UK4 · 2-[(4-{6-[(4-cyano-2-fluorophenyl)methoxy]pyridin-2-yl}piperidin-1-yl)methyl]-1-{[(2S)-oxetan-2-yl]methyl}-1H-benzimidazole-6-carboxylic acid · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 799 | 0.85 | 0.88 | 72 | UK4 |
| 2 | 217 | 0.51 | 0.76 | 26 | empty |
| 3 | 95 | 0.35 | 0.74 | 20 | empty |
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7LCK · PF 06882961 bound to the glucagon-like peptide-1 receptor (GLP-1R) · the same entry in another collection · chain R against R, 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 R against A, TM-score 0.81
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
- Elsewhere: RCSB PDB 7LCK · PDBe 7LCK · UniProt P43220
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