Kinetic and crystallographic analyses support a sequential-ordered bi bi catalytic mechanism for Escherichia coli glucose-1-phosphate thymidylyltransferase

J Mol Biol. 2001 Nov 2;313(4):831-43. doi: 10.1006/jmbi.2001.5073.

Abstract

Glucose-1-phosphate thymidylyltransferase is the first enzyme in the biosynthesis of dTDP-l-rhamnose, the precursor of l-rhamnose, an essential component of surface antigens, such as the O-lipopolysaccharide, mediating virulence and adhesion to host tissues in many microorganisms. The enzyme catalyses the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis. To shed more light on the catalytic properties of glucose-1-phosphate thymidylyltransferase from Escherichia coli, specifically distinguishing between ping pong and sequential ordered bi bi reaction mechanisms, the enzyme kinetic properties have been analysed in the presence of different substrates and inhibitors. Moreover, three different complexes of glucose-1-phosphate thymidylyltransferase (co-crystallized with dTDP, with dTMP and glucose-1-phosphate, with d-thymidine and glucose-1-phosphate) have been analysed by X-ray crystallography, in the 1.9-2.3 A resolution range (R-factors of 17.3-17.5 %). The homotetrameric enzyme shows strongly conserved substrate/inhibitor binding modes in a surface cavity next to the topological switch-point of a quasi-Rossmann fold. Inspection of the subunit tertiary structure reveals relationships to other enzymes involved in the biosynthesis of nucleotide-sugars, including distant proteins such as the molybdenum cofactor biosynthesis protein MobA. The precise location of the substrate relative to putative reactive residues in the catalytic center suggests that, in keeping with the results of the kinetic measurements, both catalysed reactions, i.e. dTDP-glucose biosynthesis and pyrophosphorolysis, follow a sequential ordered bi bi catalytic mechanism.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Binding Sites
  • Catalysis
  • Crystallography, X-Ray
  • Enzyme Inhibitors / chemistry
  • Enzyme Inhibitors / metabolism
  • Escherichia coli / enzymology*
  • Glucose / analogs & derivatives*
  • Glucose / metabolism
  • Glucosephosphates / metabolism
  • Hydrogen Bonding
  • Kinetics
  • Models, Chemical*
  • Models, Molecular
  • Molecular Sequence Data
  • Nucleotidyltransferases / antagonists & inhibitors
  • Nucleotidyltransferases / chemistry*
  • Nucleotidyltransferases / isolation & purification
  • Nucleotidyltransferases / metabolism
  • Protein Structure, Quaternary
  • Protein Structure, Tertiary
  • Protein Subunits
  • Recombinant Fusion Proteins / chemistry
  • Recombinant Fusion Proteins / metabolism
  • Rhamnose / metabolism
  • Sequence Alignment
  • Structure-Activity Relationship
  • Thymine Nucleotides / metabolism

Substances

  • Enzyme Inhibitors
  • Glucosephosphates
  • Protein Subunits
  • Recombinant Fusion Proteins
  • Thymine Nucleotides
  • deoxythymidine diphosphate-glucose
  • glucose-1-phosphate
  • Nucleotidyltransferases
  • glucose-1-phosphate thymidylyltransferase
  • Glucose
  • Rhamnose

Associated data

  • PDB/1H5R
  • PDB/1H5S
  • PDB/1H5T