The purpose of this research was to isolate bioactive compounds from endophytic fungi isolated from Croton sublyratus leaves. Plant samples were collected from 4 sources. Fungal endophyte were isolated from leaves by surface sterilization method and placed on malt extract agar. Seventy five fungal isolates were obtained and tested for the production of antimicrobial componds by dual culture agar diffusion technique. Fungal isolate CsPr03 was chosen for the study of bioactive compounds because this isolate produced the compounds that were against a large number of test microorganisms. Based on morphology and nucleotide sequencing of ITS regions and crystallization were used to isolate bioactive compounds from malt extract broth, Structure elucidation of the pure compounds were investigated using physical properties and spectroscopic techniques. Two compounds were isolated, compound 1 was curvulin, compound 2 was emodin and compound 3 was hydrolyzed curvulin. Antimicrobial activities of pure compounds were tested. It was found that a curvulin exhibited against Bacillus subtilis ATCC 6633 and Saccharomyces cerevisiae TISTR 5169 with MIC value of 15.62 and 500 µg/ml, respectively. Emodin showed against Candida albicans ATCC 10231 with MIC value 500 µg/ml and compound 3 showed against Staphylococcus aureus ATCC 25923 with MIC value 125 µg/ml.