We use soft lithography to pattern molecularly imprinted polymers (MIPs) at the nanoscale. Patterning occurs via a micro transfer molding process associated with an edge effect. We show using fluorescence microscopy that the nanopatterned synthetic receptors specifically recognize and bind a model target, dansyl-L-phenylalanine. We also demonstrate using AFM a specific swelling of the MIP pattern in the presence of the analyte. We believe that this opens new opportunities for the application of MIPs in microsensors and microbiochips, for example in environmental analysis and biomedical diagnostics.