The aim of the study is to conduct modeling of NS3 protease (pro) enzyme and E DENV. These two approach have different means. The first is developed for producing drugs and the second is for producing vaccines. Crystal structures of the related NS3pro from Hepatitis C Virus (HCV) have been used successfully as a model template in drug discovery, in order to provide some insight into the structure function of the protease and the substrate and cofactors binding motif and thus facilitate substrate-based inhibitor design of the dengue 2 virus NS3. The objective of E DENV in silico research is to design dengue virus vaccines with in silico method, using E DENV-2 and E DENV-3 protein as their backbones, which could give immune response toward four dengue virus serotype. The in silico NS3pro research in this review shown, that the development of Dengue drug design will rely upon its structure and reactivity. Our vaccine design are utilized based on different algorithms. We were using Artificial Neural Network (ANN) and Hidden Markov Model (HMM) algorithms. The complexity of virus-lead compound and virus-immune system interaction need to be computed with large computational power. Henceforth, both approach could be utilized for developing real drugs and vaccines at the wet laboratory.