A novel d-2-hydroxy acid dehydrogenase with high substrate preference for phenylpyruvate originating from lactic acid bacteria: Structural analysis on the substrate specificity

Enzyme Microb Technol. 2019 Jun:125:37-44. doi: 10.1016/j.enzmictec.2019.02.008. Epub 2019 Feb 23.

Abstract

2-Hydroxy acid dehydrogenases (2-HADHs) have been implicated in the synthesis of 2-hydroxy acids from 2-oxo acids that are used in wide areas of industry. d-lactate dehydrogenases (d-LDHs), a subfamily of 2-HADH, have been utilized to this purpose, yet they exhibited relatively low catalytic activity to the 2-oxo acids with large functional groups at C3. In this report, four putative 2-HADHs from Oenococcus oeni, Weissella confusa, Weissella koreensis and Pediococcus claussenii were examined for activity on phenylpyruvate (PPA), a substrate to 3-phenyllactic acid (PLA) with a C3 phenyl group. The 2-HADH from P. claussenii was found to have the highest kcat/Km on PPA with 1,348.03 s-1 mM-1 among the four enzymes with higher substrate preference for PPA than pyruvate. Sequential, structural and mutational analysis of the enzyme revealed that it belonged to the d-LDH family, and phenylalanine at the position 51 was the key residue for the PPA binding to the active site via hydrophobic interaction, whereas in the 2-HADHs from O. oeni and W. confusa the hydrophilic tyrosine undermined the interaction. Because phenyllactate is a potential precursor for pharmaceutical compounds, antibiotics and biopolymers, the enzyme could increase the efficiency of bio-production of valuable chemicals. This study suggests a structural basis for the high substrate preference of the 2-HADH, and further engineering possibilities to synthesize versatile 2-hydroxy acids.

Keywords: Phenyllactic acid; Structural analysis; Substrate specificity; d-2-hydroxy acid dehydrogenase.

MeSH terms

  • Alcohol Oxidoreductases / chemistry*
  • Alcohol Oxidoreductases / genetics
  • Alcohol Oxidoreductases / metabolism*
  • Amino Acid Sequence
  • Bacterial Proteins / chemistry
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Catalytic Domain
  • Hydroxy Acids / metabolism
  • Kinetics
  • Lactate Dehydrogenases / chemistry*
  • Lactate Dehydrogenases / genetics
  • Lactate Dehydrogenases / metabolism
  • Lactates / metabolism
  • Lactobacillales / classification
  • Lactobacillales / enzymology*
  • Lactobacillales / genetics
  • Lactobacillales / metabolism
  • Molecular Docking Simulation
  • Mutagenesis, Site-Directed
  • Phenylpyruvic Acids / metabolism*
  • Phylogeny
  • Recombinant Proteins / chemistry
  • Recombinant Proteins / genetics
  • Recombinant Proteins / isolation & purification
  • Recombinant Proteins / metabolism
  • Sequence Alignment
  • Substrate Specificity

Substances

  • Bacterial Proteins
  • Hydroxy Acids
  • Lactates
  • Phenylpyruvic Acids
  • Recombinant Proteins
  • 3-phenyllactic acid
  • Alcohol Oxidoreductases
  • Lactate Dehydrogenases
  • 2-hydroxyacid dehydrogenase
  • phenylpyruvic acid