In this paper, fuzzy system modeling using new hierarchical structure is suggested for the complex and uncertain system. The proposed modeling technique Is to decompose the fuzzy rule base structure into the above-rule base and the sub-rule base. By applying hierarchical fuzzy rules, they can be used efficiently and logically. Also, hieratical fuzzy rules can improve the accuracy and the transparency of structure in the fuzzy system. The genetic algorithm is applied for optimization of the parameters and the structure of the fuzzy rules. To show the effectiveness of the proposed method, fuzzy modeling of the complex nonlinear system is provided.