Quartz crystal microbalance (QCM) sensors have been used to detect a variety of biomolecules due to their simplicity, specificity and sensitivity, real-time measurement, low cost and no labeling requirements. A new QCM sensor was prepared by using molecular imprinting method for selective recognition of amitrole. N-metacryloyl-(L)-tryptophan methyl ester (MATrp) was selected as a proper functional monomer and polymerized with ethylene glycol dimethacrylate (EGDMA). Pesticide imprinted poly(ethylene glycol dimetacrylate-N-metacryloyl-(L)-tryptophan methyl ester) [poly(EGDMA-MATrp)] nanofilms were attached to gold surfaces of QCM sensor chips and were characterized by several techniques such as atomic force microscope (AFM), an ellipsometer, FTIR-ATR and contact angle measurements. Kinetic and affinity binding of amitrole was investigated by binding the pesticide imprinted and nonimprinted sensor chips to QCM sensor chips. The imprinted nanofilms were found to show more sensitivity towards the target molecule than the nonimprinted ones. Furthermore, adsorption kinetics were determined by passing pesticide solutions at different concentrations through QCM sensor systems. The most proper model was found to be Langmuir adsorption model for these affinity systems. In addition, competitive adsorption experiments were performed to display selectivity of the pesticide imprinted nanofilms. The prepared sensor was also efficiently applied for the selective detection of amitrole in green pepper.