Fe3 O4 magnetic structure was synthesized with co-precipitation method. Surface of magnetic core was modified with hydrophobic BMIM[PF6 ] ionic liquid. The samples became antibacterial by loading gold, copper and silver nanoparticles and denoted as Fe3 O4 /IL/X (X=Ag, Au, Cu). X-ray diffraction (XRD), scanning electron microscopy (SEM), energy dispersive X-ray (EDX), thermal gravimetric analysis (TGA), Atomic absorption spectroscopy (AAS), Fourier transform infrared (FTIR) and vibration sample magnetometer (VSM) technics were applied for catalysts characterization, metal concentration analysis and morphology monitoring. Modified nanostructures were used for inactivation of Escherichia coli as the gram negative and Staphylococcus aureus as the gram positive of bacteria. Transmition electron micrscopy (TEM) images indicated that highest bacteria cell walls destruction is achieved when the surface of the magnetic nanostructure is coated with gold particles. Hydrogen bonds between cell wall and ionic liquid and gradual release of metals from Fe3 O4 /IL surface facilitate the metals arrive to outer layer of bacteria. Minimum inhibitory concentration (MIC) study approved the positive effect of ionic liquid