A MnAl2O4·ZnAl2O4 nanomaterial was synthesized by co-precipitation and characterized by XRD, SEM, EDS, TEM, AFM, FTIR, PL, CV and EIS. The photocatalytic activity of the nanocomposite against MV dye and its MDR anti-bacterial functions were studied. The nanocomposite shows excellent photocatalytic as well as anti-bacterial activity. A MnAl2O4·ZnAl2O4 nanomaterial/Nafion/GCE electrode was fabricated and implemented as the working electrode of a 3-CP sensor. The sensor exhibited good sensitivity, with the lowest detection limit, fast response time, large linear dynamic range (LDR), and long-term stability in the chemical environment. The estimated sensitivity is 70.07 μA mM−1 cm−2. The LDR, limit of detection (LOD), and limit of quantification (LOQ) are 0.1 nM to 0.01 M, 0.0014 ± 0.0001 nM, and 0.004 nM, respectively. The MnAl2O4·ZnAl2O4 nanomaterial/Nafion/GCE is a promising fabricated sensor probe for the selective detection of 3-CP for the environmental safety and healthcare fields on a large scale.