CLUSEAN: a computer-based framework for the automated analysis of bacterial secondary metabolite biosynthetic gene clusters

J Biotechnol. 2009 Mar 10;140(1-2):13-7. doi: 10.1016/j.jbiotec.2009.01.007.


Bacterial secondary metabolites are an important source of antimicrobial and cytostatic drugs. These molecules are often synthesized in a stepwise fashion by multimodular megaenzymes that are encoded in clusters of genes encoding enzymes for precursor supply and modification. In this work,we present an open source software pipeline, CLUSEAN (CLUster SEquence ANalyzer) that helps to annotate and analyze such gene clusters. CLUSEAN integrates standard analysis tools, like BLAST and HMMer, with specific tools for the identification of the functional domains and motifs in nonribosomal peptide synthetases (NRPS)/type I polyketide synthases (PKS) and the prediction of specificities of NRPS.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Anti-Bacterial Agents / metabolism
  • Bacteria / genetics*
  • Bacteria / metabolism
  • Bacterial Proteins / chemistry
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Computer Simulation
  • Databases, Genetic
  • Genes, Bacterial*
  • Macrolides / metabolism*
  • Multigene Family*
  • Peptide Biosynthesis, Nucleic Acid-Independent
  • Polyketide Synthases* / chemistry
  • Polyketide Synthases* / genetics
  • Polyketide Synthases* / metabolism
  • Protein Structure, Tertiary / genetics
  • Software*


  • Anti-Bacterial Agents
  • Bacterial Proteins
  • Macrolides
  • Polyketide Synthases