Investigating the physiological roles of low-efficiency D-mannonate and D-gluconate dehydratases in the enolase superfamily: pathways for the catabolism of L-gulonate and L-idonate

Biochemistry. 2014 Sep 9;53(35):5692-9. doi: 10.1021/bi500837w. Epub 2014 Aug 27.

Abstract

The sequence/function space in the D-mannonate dehydratase subgroup (ManD) of the enolase superfamily was investigated to determine how enzymatic function diverges as sequence identity decreases [Wichelecki, D. J., et al. (2014) Biochemistry 53, 2722-2731]. That study revealed that members of the ManD subgroup vary in substrate specificity and catalytic efficiency: high-efficiency (kcat/KM = 10(3)-10(4) M(-1) s(-1)) for dehydration of D-mannonate, low-efficiency (kcat/KM = 10-10(2) M(-1) s(-1)) for dehydration of D-mannonate and/or D-gluconate, and no activity. Characterization of high-efficiency members revealed that these are ManDs in the D-glucuronate catabolic pathway {analogues of UxuA [Wichelecki, D. J., et al. (2014) Biochemistry 53, 4087-4089]}. However, the genomes of organisms that encode low-efficiency members of the ManDs subgroup encode UxuAs; therefore, these must have divergent physiological functions. In this study, we investigated the physiological functions of three low-efficiency members of the ManD subgroup and identified a novel physiologically relevant pathway for L-gulonate catabolism in Chromohalobacter salexigens DSM3043 as well as cryptic pathways for L-gulonate catabolism in Escherichia coli CFT073 and L-idonate catabolism in Salmonella enterica subsp. enterica serovar Enteritidis str. P125109. However, we could not identify physiological roles for the low-efficiency members of the ManD subgroup, allowing the suggestion that these pathways may be either evolutionary relics or the starting points for new metabolic potential.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Chromohalobacter / enzymology
  • Chromohalobacter / genetics
  • Escherichia coli Proteins / genetics
  • Escherichia coli Proteins / metabolism
  • Gene Knockout Techniques
  • Halomonas / enzymology
  • Halomonas / genetics
  • Hydro-Lyases / genetics
  • Hydro-Lyases / metabolism*
  • Kinetics
  • Metabolic Networks and Pathways
  • Molecular Sequence Data
  • Oxidation-Reduction
  • Salmonella enteritidis / enzymology
  • Salmonella enteritidis / genetics
  • Substrate Specificity
  • Sugar Acids / metabolism

Substances

  • Bacterial Proteins
  • Escherichia coli Proteins
  • Sugar Acids
  • idonic acid
  • gulonic acid
  • Hydro-Lyases
  • gluconate dehydratase
  • mannonate dehydratase

Associated data

  • UniProtKB/E1V4Y1
  • UniProtKB/Q1QT83
  • UniProtKB/Q1QT84
  • UniProtKB/Q1QT88
  • UniProtKB/Q8FHD0