Nowadays, there is a lot of interest in the design of advanced nanomaterials in the field of electrochemical aptasensors, which can improve analytical performance. In this work, we have established a synthesis of gold nanostructures supported on hollow carbon N-doped nanocapsules (Au@HNC) for the first time. The TEM, Raman, TGA, FE-SEM, XRD, FT-IR, BET, and EDS mapping were used to morphologically study and characterize the as-prepared Au@HNC nanocapsules. The Au@HNC nanocapsules were used for the ultra-sensitive and fast detection of Helicobacter pylori taking the virtues of good biocompatibility, high electronic conductivity, and large specific surface area. We designed this platform because one of the most well-known problems in the world is Helicobacter pylori infection which causes dangerous stomach diseases. The linearity and detection limit of the Aptamer/Au@HNC aptasensor were found to be 33 CFU mL−1 and 102 to107 CFU mL−1 for Helicobacter pylori, respectively.