According to seismic design guidelines, detailed consideration of soil properties is essential for major structures at specific locations to ensure accurate incorporation into the seismic design process. Site response analysis plays a crucial role in evaluating soil behavior and ground motion characteristics at the surface level. Consequently, design spectra and acceleration time histories are modified to reflect the influence of site effects on the overall structural design. In this study, three-directional numerical modeling and simulation of a soil profile in Istanbul were carried out using the OpenSees finite element program, with results validated against the PLAXIS finite element software. The analyses employed a hazard-compatible set of acceleration time histories alongside locally recorded data from the Istanbul Rapid Response Network’s vertical array. The acceleration response spectra and surface-level acceleration time histories obtained from the simulations were subsequently compared with results from one-directional site response analyses and the recorded data from the vertical array.