We study the membrane wrapping mode corrections to the Kaluza-Klein (KK) 6-brane in eleven dimensions. We examine the localized KK6-brane in the extended space in $E_{7(7)}$ exceptional field theory. In order to discuss the physical origin of the localization in the extended space, we consider a probe M2-brane in eleven dimensions. We show that a three-dimensional $mathcal{N} = 4$ gauge theory is naturally interpreted as a membrane generalization of the two-dimensional $mathcal{N} = (4,4)$ gauged linear sigma model for the fundamental string. We point out that the vector field in the $mathcal{N}= 4$ model is identified as a dual coordinate of the KK6-brane geometry. We find that the BPS vortex in the gauge theory gives rise to the violation of the isometry along the dual direction. We then show that the vortex corrections are regarded as an instanton effect in M-theory induced by the probe M2-brane wrapping around the M-circle.