Drug Discovery Inspired by Mother Nature: Seeking Natural Biochemotypes and the Natural Assembly Rules of the Biochemome

Authors

  • Qiong Gu Research Center for Drug Discovery, School of Pharmaceutical Sciences, and Institute of Human Virology, Sun Yat-Sen University, 132 East Circle at University City, Guangzhou, China.
  • Xin Yan Research Center for Drug Discovery, School of Pharmaceutical Sciences, and Institute of Human Virology, Sun Yat-Sen University, 132 East Circle at University City, Guangzhou, China.
  • Jun Xu Research Center for Drug Discovery, School of Pharmaceutical Sciences, and Institute of Human Virology, Sun Yat-Sen University, 132 East Circle at University City, Guangzhou, China.

DOI:

https://doi.org/10.18433/J3C31S

Abstract

Purpose. The Human Genome Project is producing a new biological ‘periodic table’, which defines all genes for making macromolecules (proteins, DNA, RNA, etc) and the relations between genes and their biological functions. We now need to consider whether to initiate a biochemome project aimed at discovering biochemistry’s ‘periodic table’, which would define all molecular parts for making small molecules (natural products) and the relations between the parts and their functions to regulate genes. By understanding the Biochemome, we might be able to design biofunctional molecules based upon a set of molecular parts for drug innovation. Methods. A number of algorithms for processing chemical structures are used to systematically derive chemoyls (natural building blocks) from a database of compounds identified in Traditional Chinese Medicine (TCM). The rules to combine chemoyls for biological activities are then deduced by mining an annotated TCM structure-activity database (ATCMD). Based upon the rules and the basic chemoyls, a chemical library can be biochemically profiled, virtual synthetic routes can be planned, and lead compounds can be identified for a specific drug target. Conclusions. The Biochemome is the complete set of molecular components (chemoyls) in an organism and Biochemomics studies the rules governing their assembly and their evolution, together with the relations between the Biochemome and drug targets. This approach provides a new paradigm for drug discovery that is based on a comprehensive knowledge of the synthetic origins of biochemical diversity, and helps to direct biomimetic syntheses aimed at assembling quasi-natural product libraries for drug screening.

 

This article is open to POST-PUBLICATION REVIEW. Registered readers (see “For Readers”) may comment by clicking on ABSTRACT on the issue’s contents page.

Downloads

Download data is not yet available.

Downloads

Published

2013-08-02

How to Cite

Gu, Q., Yan, X., & Xu, J. (2013). Drug Discovery Inspired by Mother Nature: Seeking Natural Biochemotypes and the Natural Assembly Rules of the Biochemome. Journal of Pharmacy & Pharmaceutical Sciences, 16(2), 331–341. https://doi.org/10.18433/J3C31S

Issue

Section

CLOSED. Special Issue - Chief Guest Editor: Basil D Roufogalis; Co-Guest Editors: Emanuel Strehler & Srinivas Nammi