Microbes are wonderful organisms which contribute more to the environment by playing vital role in Biodegradation and Bioremediation technology. Bacterial alkaline Pectinases repose on varied applications in fruit juice processing industry at different phases as juice clarifiers, colour and yield enhancers, in fruit mashing, in Bio scouring and as peel removers. Pectinases build upon to tierce of world enzyme production. This study aims at isolation of such Pectinolytic bacteria with a prominent status in research and for their commercial application. Bacteria are used for the production keeping in view the incontestable fact that they posses dissipated growth. Food and food byproducts processed industrial waste acts as a low-priced substrate owing to a potential economical process. Soil samples from various fruit industrial waste are screened for Pectinolytic bacteria. Isolated strains are improved by Recombinant DNA technology for commercialization. Different carbon and nitrogen sources are adopted in production media to identify the maximum conceding substrate. Assay for the pectinase enzyme was carried out for further characterisation of the enzyme and bacteria. Clarification and crystallization was done for the isolated pectinase enzyme and different optimal conditions are provided to enhance the growth conditions for these Pectinolytic bacteria. Tentative identification reveals that it is a Bacillus sps. Purification of Pectinase was carried out. Structural analysis is exercised using Bioinformatics tools to validate the present study.