I am a beginner in the field of structural bioinformatics. I have done some modeling projects however I am always confused in minimizing the modeled structure. One of my teachers told me to minimize the modeled structure after generating the final model. On the other hand, another instructor with whom I did modeling project did not recommend me to minimize the modeled structure. He told that it is worthless to minimize the modeled structure as the structure has already suffered a lot of constraints as it was built using the template structure. In that case, the conformation of the minimized structure will be worse than before. Both fellows tried to convince me in their own respect but still I am confused myself. Could anyone please clarify this so that I will decide whether or not to apply this step in modeling my proteins.