In this work, we determined the levels of trace metals in protein fractions isolated from rock oysters by neutron activation analysis (NAA) and particle induced X-ray emission (PIXE). Proteins were extracted from mantles and hepatopancreases of rock oysters and fractionated by size-exclusion high performance liquid chromatography (HPLC). The protein fractions from mantles and hepatopancreases are found to be abundant in Fe, Cu, Zn, Mn, Pb, and Ag. HPLC profiles of Fe, Cu, Zn, and Ag indicate that those elements are bound to proteins extracted from mantles and hepatopancreases.