Databases of the thiotemplate modular systems (CSDB) and their in silico recombinants (r-CSDB)

J Ind Microbiol Biotechnol. 2013 Jun;40(6):653-9. doi: 10.1007/s10295-013-1252-z. Epub 2013 Mar 16.


Modular biosynthetic clusters are responsible for the synthesis of many important pharmaceutical products. They include polyketide synthases (PKS clusters), non-ribosomal synthetases (NRPS clusters), and mixed clusters (containing both PKS and NRPS modules). The ClustScan database (CSDB) contains highly annotated descriptions of 170 clusters. The database has a hierarchical organization, which allows easy extraction of DNA and protein sequences of polypeptides, modules, and domains as well as an organization of the annotation so as to be able to predict the product chemistry to view it or export it in a standard SMILES format. The recombinant ClustScan database contains information about predicted recombinants between PKS clusters. The recombinants are generated by modeling homologous recombination and are associated with annotation and prediction of product chemistry automatically generated by the model. The database contains over 20,000 recombinants and is a resource for in silico approaches to detecting promising new compounds. Methods are available to construct the corresponding recombinants in the laboratory.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Biosynthetic Pathways / genetics*
  • Computer Simulation*
  • Databases, Genetic*
  • Homologous Recombination / genetics
  • Internet
  • Molecular Sequence Annotation
  • Multigene Family / genetics*
  • Peptide Synthases / chemistry
  • Peptide Synthases / genetics*
  • Peptide Synthases / metabolism
  • Polyketide Synthases / chemistry
  • Polyketide Synthases / genetics*
  • Polyketide Synthases / metabolism
  • Recombinant Fusion Proteins / chemistry
  • Recombinant Fusion Proteins / genetics*
  • Recombinant Fusion Proteins / metabolism


  • Recombinant Fusion Proteins
  • Polyketide Synthases
  • Peptide Synthases
  • non-ribosomal peptide synthase