Crystal structure of EIF4E bound to glycerol and EIF4G1 peptide

Structure

x-ray diffraction · 4 distinct chains · 35% helix, 27% strand (DSSP).

Ligands and binding sites

• MGO · [[(2R,3S,4R,5R)-5-(6-amino-3-methyl-4-oxo-5H-imidazo[4, 5-c]pyridin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] phosphono hydrogen phosphate · ligand · chains A, B
• SO4 · Sulfate ion · ion · 4 copies · chains A, B
• GOL · Glycerol · additive · 2 copies · chains A, B
• PGE · Triethylene glycol · additive · chains A

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

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Interfaces

3 interfaces between chains.

• A–E · 725 Ų buried · 11 hydrogen bonds · protein-protein
• B–F · 696 Ų buried · 11 hydrogen bonds · protein-protein
• A–B · 500 Ų buried · 3 hydrogen bonds · protein-protein

Compared structures

• 2W97 · Crystal Structure of eIF4E Bound to Glycerol and eIF4G1 peptide · the same entry in another collection · chain F against F, TM-score 1.00
• P06730 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E (P06730) · a predicted model of the same protein · chain A against A, TM-score 0.98
• Q04637 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4 gamma 1… · a predicted model of the same protein · chain F against A, TM-score 0.69

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 P06730
• Every structure of UniProt Q04637
• Elsewhere: RCSB PDB 2W97 · PDBe 2W97 · UniProt P06730 · UniProt Q04637