Crystal structure of a dinucleotide-binding protein (Y56F) of ABC transporter endogenously bound to uridylyl-3'-5'-phospho-guanosine

Structure

x-ray diffraction · 1 distinct chain · 51% helix, 18% strand (DSSP).

Ligands and binding sites

• FGO · [(1s,3r,3ar,6as)-3-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-5,5-bis(oxidanyl)-1,3,3A,4,6,6A-hexahydrocyclopenta[c]furan-1-yl]methyl [(2R,3S,4R, 5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-2-(hydroxymethyl)-4-oxidanyl-oxolan-3-yl] hydrogen phosphate · ligand · 2 copies · chains A, B
• NA · Sodium ion · metal · chains B
• CO2 · Carbon dioxide · ion · 3 copies · chains A
• CO3 · Carbonate ion · ion · chains B
• EDO · 1,2-ethanediol · additive · 4 copies · chains A, B
• GOL · Glycerol · additive · 3 copies · chains A, B
• PEG · Di(hydroxyethyl)ether · additive · chains B

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

Pockets

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

Compared structures

• 7C0O · Crystal structure of a dinucleotide-binding protein (Y56F) of ABC transporter… · the same entry in another collection · chain A against A, TM-score 1.00

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 Q5SLB4
• Elsewhere: RCSB PDB 7C0O · PDBe 7C0O · UniProt Q5SLB4