Water provides a unique surface for the formation of directed self‐assembly and transformation of secondary structures of peptides and proteins as witnessed in the biological systems. Herein a one‐step transformation of an amyloid‐derived dipeptide is reported from β‐sheet to α‐helix structures on the water surface, facilitated by chiral supramolecular assembly. The study utilizes various analytical techniques to elucidate the structural transformation and the supramolecular packing of the peptide assemblies. Organizations such as spherical aggregates and molecular nanowires containing β‐sheet structure are converted into (2D) molecular sheets comprising a larger planar area yet with a molecular level thickness of α‐helix structure. The conformational features of the β‐sheet to α‐helix structural transformation are dominated by the intermolecular H‐bonding, π–π stacking, and C─H···π interactions. Strikingly, the dynamic changes in the dihedral (intramolecular) angle between the aromatic rings of the dipeptide at the water surface alter the molecular packing and shorten the intermolecular H‐bonds with larger binding energies required for the secondary structural transformation. Thus, the novel one‐step strategy reports herein offers a simple, efficient, and hitherto unprecedented way of chiral supramolecular assembly directed total secondary structural transformation of the dipeptide on water surface.