X-ray structure of Salmonella typhimurium uridine phosphorylase complexed with 5-fluorouracil and molecular modelling of the complex of 5-fluorouracil with uridine phosphorylase from Vibrio cholerae

• Published in: Acta crystallographica. Section D, Biological crystallography. Biological crystallography., 2012-08, Vol.68 (8), p.968-974
• Main Authors: Lashkov, Alexander A., Sotnichenko, Sergey E., Prokofiev, Igor I., Gabdulkhakov, Azat G., Agapov, Igor I., Shtil, Alexander A., Betzel, Christian, Mironov, Alexander S., Mikhailov, Al'bert M.
• Format: Article
• Language: English
• Subjects: 5-fluorouracil; Atomic structure; bacterial uridine phosphorylases; Catalysis; Catalytic Domain; Cholera; Cluster Analysis; Design engineering; Enzyme Inhibitors - pharmacology; Enzymes; Fluorouracil - pharmacology; Inhibitors; Ligands; Microbiology; molecular docking; Phosphorylases; Protein Binding; Protein Conformation; Protein Structure, Secondary; Protein Structure, Tertiary; Salmonella; Salmonella typhimurium; Salmonella typhimurium - enzymology; Solvents; Uridine Phosphorylase - chemistry; Vibrio; Vibrio cholerae; Vibrio cholerae - enzymology; X-rays
• ISSN: 1399-0047; 0907-4449; 1399-0047
• DOI: 10.1107/S090744491201815X

Uridine phosphorylase (UPh), which is a key enzyme in the reutilization pathway of pyrimidine nucleoside metabolism, is a validated target for the treatment of infectious diseases and cancer. A detailed analysis of the interactions of UPh with the therapeutic ligand 5‐fluorouracil (5‐FUra) is important for the rational design of pharmacological inhibitors of these enzymes in prokaryotes and eukaryotes. Expanding on the preliminary analysis of the spatial organization of the active centre of UPh from the pathogenic bacterium Salmonella typhimurium (StUPh) in complex with 5‐FUra [Lashkov et al. (2009), Acta Cryst. F65, 601–603], the X‐ray structure of the StUPh–5‐FUra complex was analysed at atomic resolution and an in silico model of the complex formed by the drug with UPh from Vibrio cholerae (VchUPh) was generated. These results should be considered in the design of selective inhibitors of UPhs from various species.