Background: Chloroquine causes serious toxicity by accumulating in lysosomes.Results: Depletion of α-tocopherol transfer protein caused more severe chloroquine toxicity in both cultured cells and mice.Conclusion: α-Tocopherol transfer protein plays a role in protecting chloroquine toxicity by preventing chloroquine accumulation in the lysosomes.Significance: This study describes a novel mechanism for the clearance of lysosomotropic amines.