Crystal structure of beta secetase in complex with 2-amino-3,6- dimethyl-6-(2-phenylethyl)-3,4,5,6-tetrahydropyrimidin-4-one

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 41% strand (DSSP).

Ligands and binding sites

• 0B3 · (6R)-2-amino-3,6-dimethyl-6-(2-phenylethyl)-5,6-dihydropyrimidin-4(3H)-one · ligand · chains A
• IOD · Iodide ion · ion · 2 copies · chains A
• GOL · Glycerol · additive · 4 copies · 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, 1 with a druggability of 0.5 or more.

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

• 3WB4 · Crystal Structure of beta secetase in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
• P56817 · AlphaFold monomer V2.0 prediction for beta-secretase 1 (P56817) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P56817
• Elsewhere: RCSB PDB 3WB4 · PDBe 3WB4 · UniProt P56817