Journal
NUCLEIC ACIDS RESEARCH
Volume 36, Issue 21, Pages 6882-6892Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkn685
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Funding
- Ministry of Science, Education and Sports, Republic of Croatia [058-0000000-3475]
- German Academic Exchange Service
- Ministry of Science, Education and Sports, Republic of Croatia cooperation
- Leverhulme Trust
- Japanese Bio-Industry Association
- The School of Pharmacy, University of London
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The program package ClustScan (Cluster Scanner) is designed for rapid, semi-automatic, annotation of DNA sequences encoding modular biosynthetic enzymes including polyketide synthases (PKS), non-ribosomal peptide synthetases (NRPS) and hybrid (PKS/NRPS) enzymes. The program displays the predicted chemical structures of products as well as allowing export of the structures in a standard format for analyses with other programs. Recent advances in understanding of enzyme function are incorporated to make knowledge-based predictions about the stereochemistry of products. The program structure allows easy incorporation of additional knowledge about domain specificities and function. The results of analyses are presented to the user in a graphical interface, which also allows easy editing of the predictions to incorporate user experience. The versatility of this program package has been demonstrated by annotating biochemical pathways in microbial, invertebrate animal and metagenomic datasets. The speed and convenience of the package allows the annotation of all PKS and NRPS clusters in a complete Actinobacteria genome in 23 man hours. The open architecture of ClustScan allows easy integration with other programs, facilitating further analyses of results, which is useful for a broad range of researchers in the chemical and biological sciences.
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