MolNFT v1 · #140925 · protein

Structure of the glucagon receptor in complex with a glucagon analogue

5YQZ · Glucagon RECEPTOR,ENDOLYSIN,GLUCAGON receptor: “Structure of the glucagon receptor in complex with a glucagon analogue”. X-ray diffraction, 2 ligands (NAG, PO4), 8 pockets (best druggability 0.76). MolNFT v1 #140925 on GenesisL1: 3D…

PDB: 5YQZ
Type: protein
Length: 586 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glucagon RECEPTOR,ENDOLYSIN,GLUCAGON receptor; Glucagon analogue
EC: 3.2.1.17
UniProt: P47871, D9IEF7
Ligands: NAG, PO4
Pockets: 8 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 69% helix, 5% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
R	Glucagon RECEPTOR,ENDOLYSIN,GLUCAGON receptor (EC 3.2.1.17)	protein	558	68% helix, 6% strand	P47871, D9IEF7
P	Glucagon analogue	protein	28	93% helix, 0% strand	—

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains R
PO4 · Phosphate ion · ion · chains R
OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · 6 copies · chains R

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	464	0.76	0.85	51	empty
2	371	0.73	0.84	41	empty
3	158	0.70	0.89	32	empty
4	215	0.52	0.76	29	empty
5	185	0.47	0.75	24	empty

Interfaces

1 interface between chains.

R–P · 1981 Å² buried · 20 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).

Compared structures

5YQZ · Structure of the glucagon receptor in complex with a glucagon analogue · the same entry in another collection · chain R against R, TM-score 1.00
P47871 · AlphaFold monomer V2.0 prediction for glucagon receptor (P47871) · a predicted model of the same protein · chain R against A, TM-score 0.63

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 P47871
Every structure of UniProt D9IEF7
Elsewhere: RCSB PDB 5YQZ · PDBe 5YQZ · UniProt P47871 · UniProt D9IEF7

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.