In order to separate and prepare ginkgo antioxidant peptide, Sephadex G—25 gel filtration chromatography, Sephadex G—10 gel filtration chromatography and reverse phase-high performance liquid chromatography (RP-HPLC) were used to purify ginkgo peptide. The purity of the ginkgo peptide was confirmed by HPLC. Liquid chromatography quadrupole time of flight mass showed that the relative molecular mass was 452.21Da. Results of antioxidation test indicated that ginkgo antioxidant peptides exhibited strong scavenging capability to hydroxyl radicals and DPPH radicals with the scavenging rates reached to 80.26% and 83.57%, respectively. 