Complete debridement and disinfection of the root canal system are the primary requirement for successful endodontic treatment. Enterococcus faecalis is the most commonly found organism in a high percentage of root canal failures as a single organism or as a major component of the flora. Primary goal of this study is to assess the antibacterial effect of phytochemical agents namely embelin, vilangin and phenyl vilangin, respectively, against E. faecalis. And this is the first time that these materials are reported for antibacterial activity against the pathogen, E. faecalis. Our second goal is to predict the interaction between the active structure and the protein in the binding mode, and the third goal is to screen for cytotoxicity by brine shrimp lethality bioassay. All the compounds showed low to elevated level of antibacterial activity. Particularly, compound embelin, as well as its combination with NaOCl in the ratio 1:1, exhibits zone of inhibition value of 29 ± 0.89 and 32 ± 0.98 mm at a concentration of 80 µL and the MIC value of embelin was found to be 78.10 µg/mL. All the compounds exhibit low toxicity to high toxicity. The LC 50 value of tested * S. Jayalakshmi