In the present investigation, pectin, the polysaccharide content in fruits is used as a basis for screening different varieties of Apple (Pyrus malus L.) of the same season of Kashmir (J&K). Different varieties of apple fruit of Kashmir (J&K) of the same season viz American, Delicious and Maharaj-ji were collected from the local gardens of Kashmir and pectin content present was extracted. The yield of pectin content was found to be maximum in Maharaj-ji (20.60 %) followed by Delicious (14.40 %) and American (11.60 %). The pectin extracted was then evaluated for its in vitro antibacterial activity against different pathogenic bacterial cultures. The results investigated that pectin extracted from Delicious variety showed potent antibacterial activity against Klebsiella pneumoniae (MIC value: 0.8 mg/ml) followed by Streptococcus pyogenes (MIC value: 0.3 mg/ml), E.coli (MIC value: 0.7 mg/ml) and Lactococcus sp. (MIC value: 0.7 mg/ml). The pectin extracted from other varieties showed no potency against any of the bacterial cultures. Further the pectin extracted from each of the variety was evaluated for in vitro antifungal activity against Aspergillus niger, Candida albicans and Saccharomyces cerevisae. It was observed that pectin extracted from any of the variety showed no potency against any of the test fungal cultures. The results of the antimicrobial activity of the pectin extracted from each of the varieties were compared with that of standard pectin and Azithromycin. It was observed that standard pectin also not showed antifungal activity similarly to that of extracted pectin. The results thus confirmed that pectin can be utilized as a potent antibacterial agent and can be utilized as an index for screening different apple varieties of Kashmir (J & K). Furthermore our study validates the use of Delicious variety for the treatment of the infections borne by the tested organisms. The pectin extracted was further assayed for cellular toxicity against sheep fresh blood erythrocytes but no hemolysis against sheep fresh blood erythrocytes was observed.