Hepatocellular carcinoma (HCC) is a common and lethal malignancy of the liver. The aim of this study was to reveal the structural characteristics of FAPP2, evaluate its expression in HepG2 and MHCC97H cells, and explore its potential role and molecular mechanism in the clinical treatment of hepatocellular carcinoma. The role of FAPP2 in these two cell lines was evaluated using cell function tests, such as cell proliferation, migration, and invasion tests. The interaction between FAPP2 and other related signaling pathways was further explored by bioinformatics analysis. The structural analysis of FAPP2 shows that it has specific domains and functional sites, which are closely related to its biological function in the cell. FAPP2 expression in HepG2 cells was significantly higher than that in MHCC97H cells. Functional experiments showed that overexpression of FAPP2 promoted the proliferation and migration of HepG2 cells, but no such effect was seen in MHCC97H cells. Bioinformatics analysis revealed a potential association between FAPP2 and the PI3K/Akt signaling pathway.