Structural and mechanistic insights into polyketide macrolactonization from polyketide-based affinity labels

Nat Chem Biol. 2006 Oct;2(10):531-6. doi: 10.1038/nchembio822. Epub 2006 Sep 10.

Abstract

Polyketides are a diverse class of natural products having important clinical properties, including antibiotic, immunosuppressive and anticancer activities. They are biosynthesized by polyketide synthases (PKSs), which are modular, multienzyme complexes that sequentially condense simple carboxylic acid derivatives. The final reaction in many PKSs involves thioesterase-catalyzed cyclization of linear chain elongation intermediates. As the substrate in PKSs is presented by a tethered acyl carrier protein, introduction of substrate by diffusion is problematic, and no substrate-bound type I PKS domain structure has been reported so far. We describe the chemical synthesis of polyketide-based affinity labels that covalently modify the active site serine of excised pikromycin thioesterase from Streptomyces venezuelae. Crystal structures reported here of the affinity label-pikromycin thioesterase adducts provide important mechanistic insights. These results suggest that affinity labels can be valuable tools for understanding the mechanisms of individual steps within multifunctional PKSs and for directing rational engineering of PKS domains for combinatorial biosynthesis.

Publication types

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

MeSH terms

  • Binding Sites
  • Biphenyl Compounds / chemistry
  • Biphenyl Compounds / pharmacology
  • Catalysis
  • Crystallization
  • Cyclization
  • Enzyme Activation / drug effects
  • Enzyme Inhibitors / chemistry
  • Enzyme Inhibitors / pharmacology
  • Macrolides / chemistry*
  • Macrolides / metabolism
  • Models, Molecular
  • Molecular Conformation
  • Organophosphonates / chemistry
  • Organophosphonates / pharmacology
  • Protein Conformation
  • Protein Structure, Tertiary
  • Stereoisomerism
  • Streptomyces / enzymology
  • Structure-Activity Relationship
  • Thiolester Hydrolases / antagonists & inhibitors
  • Thiolester Hydrolases / chemistry*
  • Thiolester Hydrolases / metabolism
  • X-Ray Diffraction

Substances

  • Biphenyl Compounds
  • Enzyme Inhibitors
  • Macrolides
  • Organophosphonates
  • Thiolester Hydrolases
  • picromycin

Associated data

  • PDB/2H7X
  • PDB/2H7Y
  • PubChem-Substance/14710692
  • PubChem-Substance/14710693
  • PubChem-Substance/14710694
  • PubChem-Substance/14710695
  • PubChem-Substance/14710696
  • PubChem-Substance/14710697
  • PubChem-Substance/14710698
  • PubChem-Substance/14710699
  • PubChem-Substance/14710700
  • PubChem-Substance/14710701
  • PubChem-Substance/14710702
  • PubChem-Substance/14710703
  • PubChem-Substance/14710704
  • PubChem-Substance/14710705
  • PubChem-Substance/14710706
  • PubChem-Substance/14710707
  • PubChem-Substance/14710708
  • PubChem-Substance/14710709
  • PubChem-Substance/14710710
  • PubChem-Substance/14710711