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Two new water-soluble polysaccharide fractions (SCP II-1 and SCP II-2) were obtained from silkworm cordycepsusing DEAE Sepharose FF and Superose 6 columns chromatography. The characterization of their basic structure was studied by high performance liquid chromatography, high performance ion chromatography, infrared spectroscopy and atomic force microscope (AFM). The results showed that the molecular weight of SCP II-1 and SCP II-2 were 35.2 kDa and 23.4 kDa, and they were mainly composed of ribose, mannose, glucose, and galactose in mol