A typical drug design approach for AIDS in HIV genomics using various MD methods

Abstract

In our work we are working with HIV genomes and AIDS proteins. In our method we are performing sequence alignment using Needle man wunch algorithm of development and application the approach to calculate free energy and entropy by using non-physical, alchemical path through a thermodynamic series while the drug will interact with the protein. Here we are working in the principle based on protein-protein, protein-peptide, protein-ligand, virtual screening and compulsory free energy estimation for HIV genomics and AIDS proteins.for sequence comparison we are using Needleman Wunsch algorithm.