Abstract: Four local and two commercial maize varieties were used as experimental material, to evaluate the biodiversity among them by using SDS-PAGE technique. Variations were observed in protein profile shown by all of them and some similarities also. Kisan-90 was different from the rest, as it was variable in the banding pattern. There were similarities in Kotli White and Sarhad White, where as they shared two common bands. Poonch Yellow and Kotli Yellow had similarity at least for one band. All the rest of accessions were different. Kisan-90 however was prominent in protein profile in the gel.