Cryo-EM structure of GLUA2-1XSTZ complex at 6.4 ångström resolution

Structure

electron microscopy · 2 distinct chains · 42% helix, 16% strand (DSSP).

Ligands and binding sites

• ZK1 · {[7-morpholin-4-yl-2,3-dioxo-6-(trifluoromethyl)-3,4-dihydroquinoxalin-1(2H)-yl]methyl}phosphonic acid · ligand · 4 copies · chains A, B, C, D
• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A, B, C, D

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

Pockets

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

Interfaces

6 interfaces between chains.

• A–B · 3294 Ų buried · 11 hydrogen bonds · protein-protein
• C–D · 3011 Ų buried · 12 hydrogen bonds · protein-protein
• B–C · 2601 Ų buried · 14 hydrogen bonds · protein-protein
• A–D · 2544 Ų buried · 17 hydrogen bonds · protein-protein
• B–D · 261 Ų buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 7 disulfide, 4 glycan (disulfide, N-glycosylation).

Compared structures

• 5KBT · Cryo-EM structure of GluA2-1xSTZ complex at 6.4 Angstrom resolution · the same entry in another collection · chain D against D, TM-score 1.00
• O88602 · AlphaFold monomer V2.0 prediction for voltage-dependent calcium channel gamma-2 subunit… · 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 O88602
• Elsewhere: RCSB PDB 5KBT · PDBe 5KBT · UniProt P19491 · UniProt O88602