The aim of the current study was to develop a nanostructured double-layer for hydrophobic molecules delivery system. The developed double-layer consisted of polyethylene glycol-based polymeric (PEG) followed by gelatin sub coating of the core hydrophobic molecules containing sodium citrate. The polymeric composition ratio of PEG and the amount of the sub coating gelatin were optimized using the two-level fractional method. The nanoparticles were characterized using AFM and FT-IR techniques. The size of these nano capsules was in the range of 39-76 nm depending on drug loading concentration. The drug was effectively loaded into PEG-Gelatin nanoparticles (≈47%). The hydrophobic molecules-release characteristics in terms of controlled-release duration and dissolution efficiency were examined in various dissolution media, such as physiological pH (7.4) and simulated stomach fluid (3.4). Consequently, the optimized double-layer for hydrophobic molecules delivery system showed a gradual release of hydrophobic molecules in the and in physiological pH, indicating its novelty for using as a platform for hydrophobic molecules delivery.