Tuberculosis (TB) disease has become one of the major public health concerns globally, especially in developing countries. Numerous research studies have already been carried out for TB, but we are still struggling for a complete and quick cure for it. The progress of Mycobacterium tuberculosis (MTB) strains resistant to existing drugs makes its cure and control very complicated. Therefore, it is the need of the hour to search for newer and effective drugs that can inhibit an increasing number of putative drug targets. We applied the drug repurposing concept to identify promising FDA-approved drugs against five key-regulatory genes (FurB, IdeR, KstR, MosR, and RegX3) of the MTB. The FDA drugs were virtually screened using a structure-based approach by GOLD versions 5.2, and subjected to rigid docking followed by an induced-fit docking algorithm to enhance the accuracy and prioritize drugs for repurposing. We found 11 candidate drugs (including ZINC03871613, ZINC03871614, ZINC03871615 as top scorer candidate drugs) that were frequently present within the top 20 GoldScore ranks and showed promising results. Furthermore, molecular dynamics simulation was performed to monitor the effect of the top scorer drugs on the structural stability of all the five targets, indicating that inhibitors preferentially bind to the active site of the targets. This work suggests that these known FDA-approved drugs open new application domains in the form of anti-tuberculosis agents.