MolNFT v1 · #157613 · protein

Metabotropic glutamate receptor 5 apo form

6N52: “Metabotropic glutamate receptor 5 apo form”. Electron microscopy, 1 ligand (NAG), 20 pockets (best druggability 0.79). MolNFT v1 #157613 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6N52
Type: protein
Length: 1,548 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Metabotropic glutamate receptor 5
UniProt: P41594
Ligands: NAG
Pockets: 20 · best druggability 0.79

Structure

electron microscopy · 1 distinct chain · 43% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Metabotropic glutamate receptor 5	protein	774	43% helix, 14% strand	P41594

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A, B

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

Pockets

20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	441	0.79	0.87	69	empty
2	432	0.78	0.86	67	empty
3	192	0.74	0.90	50	empty
4	193	0.73	0.89	55	empty
5	293	0.73	0.86	45	empty

Interfaces

1 interface between chains.

A–B · 760 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 20 disulfide, 4 glycan (disulfide, N-glycosylation).

Compared structures

6N52 · Metabotropic Glutamate Receptor 5 Apo Form · the same entry in another collection · chain A against A, TM-score 1.00
P41594 · AlphaFold monomer V2.0 prediction for metabotropic glutamate receptor 5 (P41594) · a predicted model of the same protein · chain A against A, TM-score 0.88

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 P41594
Elsewhere: RCSB PDB 6N52 · PDBe 6N52 · UniProt P41594

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