Identification of new promising plant-based lead compounds for inhibition of prokaryotic replicative DNA polymerases: combination of in silico and in vitro studies

Abstract

Emerging widespread bacterial resistance to current antibiotics with traditional targets is one of the major global concerns. Therefore, so many investigations are exploring the potential of other druggable macromolecules of bacteria such as replication machinery components that are not addressed by previous antibiotics. DNA polymerase is the major part of this machine. However, a few studies have been done on it so far. In this respect, we report the discovery of four new plant-based leads against DNA polymerase (pol) IIIC (three leads) and pol IIIE (one lead) of Gram-positive and negative bacteria by combining a sequentially constrained high-throughput virtual screenings on Traditional Chinese Medicine Database with in vitro assays. The compounds displayed relatively good levels of inhibitory effect. They were active against their designated targets at micromolar concentrations. The IC₅₀ values for them are ranged from 25 to 111 μM. In addition, they showed minimum inhibitory concentrations in the range of 8–128 μg/mL against five representatives of pathogenic bacteria species. However, they were inactive against Pseudomonas aeruginosa. Given these results, these leads hold promise for future modification and optimization to be more effective in lower concentrations and also against most of the important bacterial species.

Communicated by Ramaswamy H. Sarma

Keywords:

• DNA polymerase III
• inhibitor
• antibiotic
• virtual screening
• bacteria

Acknowledgements

The authors would like to thank the University of Sistan and Baluchestan Research Council for providing necessary facility and technical help.

Disclosure statement

No potential conflict of interest was reported by the authors.