Catalytic redox reactions and size matching effect between the target molecule and sensing material are reliable methods for highly efficient determination of heavy metal ions. In this work, the electrochemical determination of methylmercury (CH3Hg+) was carried out gold nanoparticles (AuNPs) incorporated into four zirconium-based metal organic frameworks (MOF) with different pore diameters, namely MOF-801, (University of Oslo) UiO-66, UiO-67, UiO-68. The work relates the role of dicarboxylic ligands of different lengths to the AuNPs load capacity and the adsorption and reduction of CH3Hg+. The voltammetric properties of CH3Hg+ at different modified electrodes were studied by differential pulse anodic stripping voltammetry (DPASV). It was found that the CH3Hg+ electrochemical behavior was greatly influenced by the pore confinement effect of MOFs. Under the optimal conditions, the pore sizes of Au/UiO-67 are matched to CH3Hg+ molecule and they showed the highest response current. The possible reduction process of CH3Hg+ at the sensitive interface was explored by X-ray photoelectron spectroscopy (XPS) and chronoamperometry (CA). These four Au/MOFs modified GCE can also be used in detection of CH3Hg+ spiked in river water, confirming their potential application in the rapid detection of methylmercury in environmental samples.