Abstract: CIC- type chloride ion channel proteins play important role in regulating the metabolism process of biological system. On the base of CIC-ec1 crystal structure，in accordance with the principle of homology modeling，using SWISS-MODEL net server，constructed the spatial structure of a kind of CIC-0 chloride ion channel protein， and analyzed the reasonableness of the obtained structure. Through measuring the Z-score of the structure，analyzing the fluctuation of space coordinates of the structure，and comparing the modeling CIC-0 structure with template structure，discovered that the spatial structure of CIC-0 protein by homology modeling complied with the requirement of further study，which makes the further simulation and computation be easy.

Key words: homology modeling, chloride channel protein, SWISS-MODEL