This research employs the finite element analysis (FEA) through MIDAS GTS-NX software to analyze the substructure and superstructure interaction with the soil for a hyperboloid cooling tower. The modeling of a shell part of a cooling tower, A-shaped columns and annular raft was designed in SOLIDWORKS. The present study introduces three-layered systems with anisotropic properties considering elastic–plastic behavior using the Mohr–Coulomb profile. The design forces, displacement, and acceleration in the substructure and superstructure were considered for parametric analysis. The soil properties and geometrical parameters from prior research were used to ensure reliability. The study investigates the impact of static and seismic load on hyperboloid cooling tower foundation system. The findings indicate that incorporating soil-structure interaction significantly influences the structural response, offering valuable insights into system performance. From the present analysis it is found that the stress analysis provides insights into structural behavior, which helps to enhance the design efficiency of substructure and superstructure of cooling towers. The methodology and findings will contribute in developing more robust and efficient designs for hyperboloid cooling towers.