Organic solvents like 2-Pentanone and 2-Hexanone which are widely used in industrial production play an important role in the source of chemical pollution. Based on the current gaps in 2-Pentanone and 2-Hexanone cytotoxicity studies, the earthworms in the soil, which are susceptible to solvent leakage and volatilization, were selected as the receptor. The cytotoxicity of 2-Pentanone and 2-Hexanone was revealed by measuring the multiple intracellular indicators of oxidative stress. At the molecular level, changes in the structure and function of antioxidant enzyme catalase (CAT) were characterized in vitro by a variety of spectroscopy methods and molecular docking. The results show that 2-Pentanone and 2-Hexanone that induced the accumulation of intracellular reactive oxygen species can eventually decrease the cell viability of coelomocytes, accompanied by the regular changes of antioxidant activity and lipid peroxidation level. In addition, the exposure of 2-Pentanone and 2-Hexanone can shrink the backbone structure of CAT, quench the uorescence and misfold the secondary structure. The decrease in enzyme activity should be attributed to the structural changes induced by surface binding. This study discussed the toxicological effects and mechanisms of commonly used organic solvents at the cellular and molecular level, which creatively proposed a new combined method.