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BMC Bioinformatics. 2012 May 20;13:106. doi: 10.1186/1471-2105-13-106.

Natural product-likeness score revisited: an open-source, open-data implementation.

Author information

  • 1Chemoinformatics and Metabolism, European Bioinformatics Institute (EBI), UK. kalai@ebi.ac.uk

Abstract

BACKGROUND:

Natural product-likeness of a molecule, i.e. similarity of this molecule to the structure space covered by natural products, is a useful criterion in screening compound libraries and in designing new lead compounds. A closed source implementation of a natural product-likeness score, that finds its application in virtual screening, library design and compound selection, has been previously reported by one of us. In this note, we report an open-source and open-data re-implementation of this scoring system, illustrate its efficiency in ranking small molecules for natural product likeness and discuss its potential applications.

RESULTS:

The Natural-Product-Likeness scoring system is implemented as Taverna 2.2 workflows, and is available under Creative Commons Attribution-Share Alike 3.0 Unported License at http://www.myexperiment.org/packs/183.html. It is also available for download as executable standalone java package from http://sourceforge.net/projects/np-likeness/under Academic Free License.

CONCLUSIONS:

Our open-source, open-data Natural-Product-Likeness scoring system can be used as a filter for metabolites in Computer Assisted Structure Elucidation or to select natural-product-like molecules from molecular libraries for the use as leads in drug discovery.

PMID:
22607271
[PubMed - indexed for MEDLINE]
PMCID:
PMC3436723
Free PMC Article

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