Purification, characterization, gene cloning and nucleotide sequencing of D: -stereospecific amino acid amidase from soil bacterium: Delftia acidovorans

J Ind Microbiol Biotechnol. 2005 Dec;32(11-12):567-76. doi: 10.1007/s10295-005-0246-x. Epub 2005 Jun 16.

Abstract

The D-amino acid amidase-producing bacterium was isolated from soil samples using an enrichment culture technique in medium broth containing D-phenylalanine amide as a sole source of nitrogen. The strain exhibiting the strongest activity was identified as Delftia acidovorans strain 16. This strain produced intracellular D-amino acid amidase constitutively. The enzyme was purified about 380-fold to homogeneity and its molecular mass was estimated to be about 50 kDa, on sodium dodecyl sulfate polyacrylamide gel electrophoresis. The enzyme was active preferentially toward D-amino acid amides rather than their L-counterparts. It exhibited strong amino acid amidase activity toward aromatic amino acid amides including D-phenylalanine amide, D-tryptophan amide and D-tyrosine amide, yet it was not specifically active toward low-molecular-weight D-amino acid amides such as D-alanine amide, L-alanine amide and L-serine amide. Moreover, it was not specifically active toward oligopeptides. The enzyme showed maximum activity at 40 degrees C and pH 8.5 and appeared to be very stable, with 92.5% remaining activity after the reaction was performed at 45 degrees C for 30 min. However, it was mostly inactivated in the presence of phenylmethanesulfonyl fluoride or Cd2+, Ag+, Zn2+, Hg2+ and As3+ . The NH2 terminal and internal amino acid sequences of the enzyme were determined; and the gene was cloned and sequenced. The enzyme gene damA encodes a 466-amino-acid protein (molecular mass 49,860.46 Da); and the deduced amino acid sequence exhibits homology to the D-amino acid amidase from Variovorax paradoxus (67.9% identity), the amidotransferase A subunit from Burkholderia fungorum (50% identity) and other enantioselective amidases.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amidohydrolases* / chemistry
  • Amidohydrolases* / genetics
  • Amidohydrolases* / isolation & purification
  • Amidohydrolases* / metabolism
  • Amino Acid Sequence
  • Cloning, Molecular
  • Delftia acidovorans / enzymology*
  • Delftia acidovorans / genetics
  • Delftia acidovorans / isolation & purification
  • Molecular Sequence Data
  • Sequence Analysis, DNA
  • Soil Microbiology*
  • Stereoisomerism
  • Substrate Specificity

Substances

  • Amidohydrolases
  • D-amino acid amidase

Associated data

  • GENBANK/AB154822