The Siracusa area, located in the southeastern coast of Sicily (Italy), is mainly characterized by the outcropping of a limestone formation. This lithotype, which is overlain by soft sediments such as sandy clays and detritus, can be considered as the local bedrock. Records of ambient noise, processed through spectral ratio techniques, were used to assess the dynamic properties of a sample survey of both reinforced concrete and masonry buildings. The results show that experimental periods of existing buildings are always lower than those proposed by the European seismic code. This disagreement could be related to the role played by stiff masonry infills, as well as the influence of adjacent buildings, especially in downtown Siracusa. Numerical modeling was also used to study the effect of local geology on the seismic site response of the Siracusa area. Seismic urban scenarios were simulated considering a moderate magnitude earthquake (December 13th, 1990) to assess the shaking level of the different outcropping formations. Spectral acceleration at different periods, peak ground acceleration, and velocity were obtained through a stochastic approach adopting an extended source model code. Seismic ground motion scenario highlighted that amplification mainly occurs in the sedimentary deposits that are widespread to the south of the study area as well as on some spot areas where coarse detritus and sandy clay outcrop. On the other hand, the level of shaking appears moderate in all zones with outcropping limestone and volcanics.