First-time crystallization and preliminary X-ray crystallographic analysis of a bacterial-archaeal type UMP kinase, a key enzyme in microbial pyrimidine biosynthesis

Biochim Biophys Acta. 2005 Mar 14;1747(2):271-5. doi: 10.1016/j.bbapap.2004.11.010. Epub 2004 Dec 9.

Abstract

UMP phosphorylation, a key step for pyrimidine nucleotide biosynthesis, is catalyzed in bacteria by UMP kinase (UMPK), an enzyme specific for UMP that is dissimilar to the eukaryotic UMP/CMP kinase or to other nucleoside monophosphate kinases. UMPK is allosterically regulated and participates in pyrimidine-triggered gene repression. As first step towards determining UMPK structure, the putative UMPK-encoding gene of the hyperthermophilic archaeon Pyrococcus furiosus was cloned and overexpressed in Escherichia coli. The protein product was purified and confirmed to be a genuine UMPK. It was crystallized at 294 K in hanging drops by the vapor diffusion technique using 3.5-4 M Na formate. Cubic 0.2-mm crystals diffracted synchrotron X-rays to 2.4-angstroms resolution. Space group was I23 (a=b=c=144.95 angstroms), and the asymmetric unit contained two monomers, with 52% solvent content. The self-rotation function suggests that the enzyme is hexameric, which agrees with biochemical studies on bacterial UMPKs.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Catalysis
  • Crystallization / methods
  • Crystallography, X-Ray / methods
  • Diffusion
  • Escherichia coli / genetics
  • Eukaryotic Cells / metabolism
  • Genome, Archaeal
  • Nucleoside-Phosphate Kinase / chemistry*
  • Nucleoside-Phosphate Kinase / genetics
  • Nucleoside-Phosphate Kinase / isolation & purification
  • Nucleoside-Phosphate Kinase / metabolism
  • Pyrimidines / biosynthesis*
  • Recombinant Proteins / chemistry
  • Recombinant Proteins / genetics
  • Recombinant Proteins / isolation & purification
  • Solvents
  • Temperature

Substances

  • Pyrimidines
  • Recombinant Proteins
  • Solvents
  • uridine monophosphate kinase
  • Nucleoside-Phosphate Kinase
  • pyrimidine