Crystal structure of human natd (NAA40) bound to a bisubstrate analogue with a C-3 linker

Structure

x-ray diffraction · 3 distinct chains.

Ligands and binding sites

• WZG · [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]methyl (3R)-3-hydroxy-2,2-dimethyl-4-[(3-{[2-(methylsulfanyl) ethyl]amino}-3-oxopropyl)amino]-4-oxobutyl dihydrogen diphosphate (non-preferred name) · ligand · 2 copies · chains D, E, A, B
• ACE · Acetyl group · ligand · 2 copies · chains D, E, A, B
• SO4 · Sulfate ion · ion · 5 copies · chains D, A
• NH2 · Amino group · ion · 2 copies · chains D, E, A, B
• GOL · Glycerol · additive · 3 copies · chains D, A
• BTB · 2-[bis-(2-hydroxy-ethyl)-amino]-2-hydroxymethyl-propane-1,3-diol · additive · chains D

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

Compared structures

• 7KPU · Crystal structure of human NatD (NAA40) bound to a bisubstrate analogue with a C-3 linker · the same entry in another collection · chain D against D, TM-score 1.00
• Q86UY6 · AlphaFold monomer V2.0 prediction for N-alpha-acetyltransferase 40 (Q86UY6) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q86UY6
• Elsewhere: RCSB PDB 7KPU · PDBe 7KPU · UniProt Q86UY6