EP(Electrostatic Precipitator) has been used to keep the natural environment from fly-ash in the industrial fields and operated in intermittent PEC(Pulse Energized Control) mode to improve dust-collecting efficiency. Intermittent PEC mode induces low-frequency harmonic currents into power system, therefore EP transformer vibrates. This continuous transformer vibration developes transformer abnormal audio-noise and if it is too much or operates in the region of natural frequency, transformer will be damaged in the end. EP interruption caused by transformer damage results in power generation stopped, power quality down and economic loss. Therefore, this paper explains harmonic currents and transformer vibration-core vibration, winding vibration, and proposes the measures of suppressing the vibration with EP operated in intermittent PEC mode. And this results is proposed to be used for future EP transformer design or EP control method to operate EP-concerned equipment safely keeping from system faults caused by transformer vibration.