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Study of endophyte bacteria from Purwoceng roots (Pimpinella pruatjan Molk.) lead to characterized endophyte bacteria that can produce the same secondary metabolite compound as its host. Secondary metabolite from this bacteria can be used as antibacterial against Pseudomonas aeruginosa. This research aims to determine antibacterial activity of secondary metabolites purwoceng root endophyte bacteria against P. aeruginosa growth, characterize the group of secondary metabolites produce by endophyte bacteria and identify potential endophyte bacteria using molecular character 16S rRNA gene sequence. Method used in this research such as antibacterial activity assay to determine potency of antibacterial compound produce by endophyte bacteria against P. aeruginosa growth, thin layer chromatography (TLC) assay to characterize the group of antibacterial compound and sequencing of 16S rRNA gene to determine the strain of potential endophyte bacteria. The result of bacterial activity showed GP2, GP14 and DG1 isolate produce antibacterial compounds by forming inhibitory zone in antibacterial activity assay. Antibacterial compounds produce by GP2, GP14 and DG1 isolate belong to alkaloid family which has the ability as antibacterial. Based on molecular identification GP14 and DG1 isolate has the similarity with Bacillus subtilis by 99%, while GP2 isolate has the similarity with Enterococcus faecalis by 99%.