Developing a cheap, stable and effective photocatalyst is necessary for remediation of persistent organic pollutants. To address this challenge, we proposed a unique interfacial engineering technique and proper bandgap matching strategy to synthesize MWCNTs/ZnO/Chitosan ternary nanocomposite for effective photocatalytic application. The features of the prepared samples were determined by FESEM, TEM, EDX, elemental mapping, AFM, FT-IR, XRD, UV–Vis spectroscopy and BET surface analysis. The obtained results showed successful fabrication of synthesized nanocomposites with enhanced surface area. Degradation effect of nanostructures on methylene blue (MB) and antibacterial activity against Escherichia coli (E. coli), Staphylococcus aureus (S. aureus) and Bacillus subtilis (B. subtilis) pathogenic strains were investigated. The proposed photocatalytic mechanism illustrated the electron transfer facilitated by MWCNTs/ZnO/Chitosan structure which results in spatial separation of electron–hole pairs. Compared with ZnO and ZnO/Chitosan, the prepared MWCNTs/ZnO/Chitosan ternary nanocomposite showed high usage of UV illumination and superior separation of photogenerated electron–hole pairs. MWCNTs/ZnO/Chitosan illustrated 86.26% adsorption rate and outstanding increased photocatalytic activity on MB degradation efficiency of 98.76% after 20 min. Stability of photocatalyst reached from 98.76% initial decolorization to 85% at the fourth cycle. In addition, the ternary nanocomposite also exhibited remarkable bactericidal activity against gram-positive (S. aureus) and (B. subtilis) and gram-negative (E. coli) bacteria strains. Due to the obtained results, the prepared nanocomposite would be an efficient candidate photocatalyst with antibacterial properties.