Background: The current study is pointed at the characterization of the physico-chemical analysis of the traditional Indian Siddha medicine, Naaga Chendooram (NAC). It is a metal based medicine which cures specially for breast cancer. Literature survey revealed that scientific study was lacking for this drug. Materials and Methods: Naaga chendhooram was made as per Veeramamunivar siddhar method. The ingredients were Zinc, Potassium nitrate, Zingiber officinale, Curcuma longa and Carum copticum and Aspera bidentata. The prepared drug was analysedin Fourier Transform Infra-Red (FTIR) for its chemical properties which helps in identification and localisation of chemical species, scanning electron microscopy (SEM). FT-IR spectroscopy has been used to study the presence of organic substances, physiochemical, organoleptic and biochemical were analysed. Results: Loss on Drying at 105 °C 1.053 ± 0.1747%,Total Ash 91.6 ± 3.7360%, Acid insoluble Ash 0±0%, Water soluble Extractive 6.367 ± 2.779%, Alcohol Soluble Extractive 1.46± 0.73%.,pH 7.5.It has the acid radical-carbonate and sulfates and basic radical- mercury and in the instrumental analysis it has arsenic group. Conclusion: Findings divulges that samples were need more studies to standardize the drug and to determine the importance of Siddha drug preparation technique, which may discloses the scope for chemical modulation by traditional methods in succeeding years.