Haemophilus Influenzae (H. Influenzae) is the gram negative bacteria causes infection at respiratory tract in human. Rd KW20 strain is mostly responsible for this disease. According to WHO statistics it kills 386,000 child per year in all over the world. In this approach we have identified some drug target protein which can be used as novel drug against this deadly pathogen. The metabolic pathways which are absent in the human but present in H. Influenza are taken as unique metabolic pathways. Here there are four such unique pathways are present only in case of bacteria, but not available in human. The genes present in these unique pathways were analyzed and listed on the basis of essentiality. These genes are crucial for survival of the pathogen and shortlisted from the Database of Essential Genes (DEG). The essential genes are blasted against the human genome through using BLASTP tool to shortlist the non-homologous genes. The gene named ponA, known as penicillin-binding protein is the best gene used for target against pathogen. The three-dimensional structure of this protein is predicted using Modeler 9.14, DeepView, RasWin and PyMol software. The active site for this gene is identified using CastP and the energically stabilized structure is chosen using Ramachandran plot
