Several researches have been studied to enhance the seismic performance of nuclear power plants (NPPs) by application of seismic isolation. If a seismic base isolation system is applied to NPPs, seismic performance of nuclear power plants should be reevaluated considering the soil-structure interaction effect. The seismic fragility analysis method has been used as a quantitative seismic safety evaluation method for the NPP structures and equipment. In this study, the seismic performance of an isolated NPP is evaluated by seismic fragility curves considering the soil-structure interaction effect. The designed seismic isolation is introduced to a containment building of Shin-Kori NPP which is KSNP (Korean Standard Nuclear Power Plant), to improve its seismic performance. The seismic analysis is performed considering the soil-structure interaction effect by using the linearized model of seismic isolation with SASSI (System for Analysis of Soil-Structure Interaction) program. Finally, the seismic fragility is evaluated based on soil-isolation-structure interaction analysis results.