The action of Ar/O2 plasmas with proteins is mimicked by employing a particle beam experiment with individually controllable and absolutely calibrated sources of O atoms/O2 molecules and of argon ions. It is demonstrated that beams of thermal O atoms and of O2 molecules with fluences up to jO = 8.6 × 1018 cm−2 and jO2 = 5.4 × 1020 cm−2 have no measurable effect on the proteins at room temperature, whereas the combination of an O/O2 beam and of an 100 eV Ar+ ion beam induces very efficient protein removal, which is accompanied by a significant increase of their surface roughness. These observations are attributed to the process of chemical sputtering caused by the simultaneous impact of incident radicals and energetic ions.