NAD(P)H/quinone acceptor oxidoreductase type 1 (QR1) protects cells from cytotoxic andneoplastic effects of quinones though two-electron reduction. Kinetic experiments, docking, and bindingaffinity calculations were performed on a series of structurally varied quinone substrates. A good correlationbetween calculated and measured binding affinities from kinetic determinations was obtained. Theexperimental and theoretical studies independently support a model in which quinones (with one to threefused aromatic rings) bind in the QR1 active site utilizing a
-stacking interaction with the isoalloxazinering of the FAD cofactor.