Rhamnolipids has been used as capping agent for ZnO nanoparticles to improving the plant micronutrition. ZnO nanoparticles were synthesized using co-precipitation method, and the prepared nanoparticles were capped with Rhamnolipids. The structural, morphological, optical, and particle stability characteristics of the chelated ZnO nanoparticles were investigated. UV–vis spectroscopy was used to investigate the optical properties of ZnO and Rhamnolipids capped ZnO nanoparticles. The stability of Rhamnolipids capped ZnO nanoparticles is higher (38.45 mV) than that of ZnO nanoparticles alone (32.3 mV). The Zn mineral nutrition in plants is improved by Rhamnolipids capped ZnO nanoparticles. In order to get a broad understanding of the binding of capped ZnO nanoparticles, a detailed molecular docking analysis was taken up. Molecular docking analysis reveals that the binding of Zn atom to LasI protein receptor has more neighboring group amino acid residues and greater binding affinity than the binding to LasR receptor.