Effect of antibacterial compound

If one is to determine how adding an antibacterial compound to a bacterial culture effects protein expression / protein components of the bacterial cell, what is a typical protocol followed after cell lysis? From what I found after an online research, SDS-Page and 2D- electrophoresis seem to be the most common.

I believe comparing the spots in the 'graph' between the bacterial cells which were added the antibacterial compound and the control allow for pointing out differences in proteins but how would one go about to determine which protein? Is there a better way to indicate how a compound is affecting protein expression and thus the proteomic constituents of a bacterial cell?