Computational Methods to Identify Drug Target in Multidrug Resistant Human Pathogens Klebsiella Pneumonia, Vibrio Cholerae and Yersinia Pestis
Iqra Ahmad*, Noor Ul ain Sajid and Sundus Iqbal
Drugabble genome of gram negative, multidrug resistant Klebsiella pneumoniae JM45, Vibrio cholerae O395 and Yersinia pestis D182038, to find the therapeutic potential by using various in silico approaches. After successful screening of druggable candidates, on the basis of set parameters, a potential drug target candidate entE present in all bacterial strains was selected. EntE is crucial for the synthesis of enterobactin which belongs to biosynthesis of siderophore pathway. Siderophores have applications in medicine for antibiotics for improved drug targeting. Therefore, it is one of the most viable candidates for drug development. To this aim molecular modeling was carried out to gain insights into active site and modeling was performed via MODELLER and web servers. Best modeled structure was selected and used for molecular docking studies.
Total 106 compounds library were prepared for docking and compound 103 was the best docked compound with a GOLDScore of 75.7. Moreover, time dependent dynamic behaviour of docked complexes were analysed using MD simulation studies. MD trajectories analysis revealed the flexibility of loop region to stabilize the binding of ligand and target protein and hydrogen bonding pattern was also rearranged. These conformational changes suggested the potential of compound 103 to act as lead compound.