In the context of sustainable development, research regarding chirality has aroused enormous attention. Concurrently, chiral self-assembly is one of the most important subjects in supramolecular research, which can broaden the applications of chiral materials. This study focuses on the morphology control of amphiphilic rod-coil molecules composed of the rigid hexaphenyl unit and flexible oligoethylene and butoxy groups containing lateral methyl groups, carried out using an enantioseparation application. The methyl side chain being located on different blocks influences the driving force through steric hindrance, which determines the direction and degree of tilted packing during the π-π stacking of the self-assembly process. Interestingly, the amphiphilic rod-coil molecules aggregated into long helical nano-fibers, which further hierarchically aggregated into nano-sheets or nano-tubes upon increasing the concentration of the THF/H2O solution. In particular, the hierarchical-chiral assembly effectively amplified the chirality and was validated by the strong Cotton signals; playing a vital role in the enantioselective nucleophilic substitution reaction. These results provide new insights into the applications of chiral self-assemblies and soft chiral materials.