Genomic analyses lead to novel secondary metabolites. Part 3. ECO-0501, a novel antibacterial of a new class

J Antibiot (Tokyo). 2006 Sep;59(9):533-42. doi: 10.1038/ja.2006.74.

Abstract

Genomic analyses of Amycolatopsis orientalis ATCC 43491 strain, deposited as a vancomycin producer, revealed the presence of genetic loci for the production of at least 10 secondary metabolites other than vancomycin. One of these gene clusters, which contained a type I polyketide synthase, was predicted to direct the synthesis of novel class of compound, a glycosidic polyketide ECO-0501 (1). Screening of culture extracts for a compound with the predicted physicochemical properties of the product from this locus, led to the isolation of the 13-O-glucuronide of 13-hydroxy-2,12,14,16,22-pentamethyl-28-(N-methyl-guanidino)-octacosa-2,4,6,8,10,14,20,24-octaenoic acid (2-hydroxy-5-oxo-cyclopent-1-enyl)-amide (ECO-0501, 1). The structure, confirmed by spectral analyses including MS, and ID and 2D NMR experiments, were in accord with that predicted by genomic analyses. ECO-0501 possessed strong antibacterial activity against a series of Gram-positive pathogens including several strains of methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococci (VRE). ECO-0501 was chemically modified by esterification (1a-1c), N-acetylation (1d) and hydrogenation (1e) in order to explore structure activity relationships (SAR).

MeSH terms

  • Actinomycetales / genetics*
  • Actinomycetales / metabolism*
  • Anti-Bacterial Agents / biosynthesis*
  • Anti-Bacterial Agents / chemistry
  • Anti-Bacterial Agents / isolation & purification
  • Anti-Bacterial Agents / pharmacology*
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • Enterococcus / drug effects
  • Fatty Acids, Unsaturated / biosynthesis*
  • Fatty Acids, Unsaturated / chemistry
  • Fatty Acids, Unsaturated / isolation & purification
  • Fatty Acids, Unsaturated / pharmacology*
  • Genes, Bacterial
  • Genomics
  • Guanidines / chemistry
  • Guanidines / isolation & purification
  • Guanidines / pharmacology*
  • Magnetic Resonance Spectroscopy
  • Mass Spectrometry
  • Methicillin Resistance
  • Molecular Sequence Data
  • Multigene Family
  • Phylogeny
  • Sequence Homology, Amino Acid
  • Staphylococcus aureus / drug effects
  • Structure-Activity Relationship
  • Vancomycin Resistance

Substances

  • 13-hydroxy-2,12,14,16,22-pentamethyl-28-(N-methyl-guanidino)-octacosa-2,4,6,8,10,14,20,24-octaenoic acid (2-hydroxy-5-oxo-cyclopent-1-enyl)-amide
  • Anti-Bacterial Agents
  • DNA, Bacterial
  • Fatty Acids, Unsaturated
  • Guanidines

Associated data

  • GENBANK/DQ884174
  • GENBANK/DQ884175
  • GENBANK/DQ884176