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We consider here the effect of Fermi resonance on the rate of stochastic transitions over potential barriers. As a typical phenomenon for Fermi resonance we investigate the fading of the energy between the oscillations in different degrees of freedom. Due to this fading phenomenon we see from time to time rather large amplitudes of oscillations along the reaction path which may support transitions over reaction barriers in the underdamped regime. As as an application we study the influence of Fermi resonance on enzyme reactions. In particular we investigate the possible effect of Fermi resonance on the breaking of peptide bonds.