MolNFT v1 · #138298 · protein

GLUA2 bound to GSG1L in digitonin, state 1

5WEM · Chimera of glutamate receptor 2,GERM cell-specific gene 1…: “GLUA2 bound to GSG1L in digitonin, state 1”. Electron microscopy, 20 pockets (best druggability 0.88). MolNFT v1 #138298 on GenesisL1: 3D structure, binding sites and…

PDB: 5WEM
Type: protein
Length: 3,484 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Chimera of glutamate receptor 2,GERM cell-specific gene 1- like protein
UniProt: P19491, D3Z7H4
Pockets: 20 · best druggability 0.88

Structure

electron microscopy · 2 distinct chains · 43% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Chimera of glutamate receptor 2,GERM cell-specific gene 1- like protein	protein	962	46% helix, 15% strand	P19491, D3Z7H4
B, D	Chimera of glutamate receptor 2,GERM cell-specific gene 1- like protein	protein	780	40% helix, 17% strand	P19491, D3Z7H4

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	761	0.88	0.90	85	empty
2	678	0.85	0.89	95	empty
3	577	0.83	0.89	80	empty
4	715	0.80	0.85	93	empty
5	508	0.79	0.86	74	empty

Interfaces

6 interfaces between chains.

C–D · 3901 Å² buried · 22 hydrogen bonds · protein-protein
A–B · 3890 Å² buried · 25 hydrogen bonds · protein-protein
B–C · 3190 Å² buried · 17 hydrogen bonds · protein-protein
A–D · 2842 Å² buried · 12 hydrogen bonds · protein-protein
B–D · 410 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 10 disulfide (disulfide).

Compared structures

5WEM · GluA2 bound to GSG1L in digitonin, state 1 · the same entry in another collection · chain A against A, TM-score 1.00
D3Z7H4 · AlphaFold monomer V2.0 prediction for germ cell-specific gene 1-like protein (D3Z7H4) · a predicted model of the same protein · chain A against A, TM-score 0.18

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 P19491
Every structure of UniProt D3Z7H4
Elsewhere: RCSB PDB 5WEM · PDBe 5WEM · UniProt P19491 · UniProt D3Z7H4

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