Antimicrobial Peptide Pore Nucleation: Energy Landscape & Leakage Assay (2D)

This is the genuine 2D counterpart to the 3D toroidal-pore renderer: instead of one rendered lipid patch, a whole population of independent membrane vesicles is evolved under the identical line-tension-vs-peptide-tension energy balance, each with its own stochastic pore radius R(t). The main plot draws the real pore free-energy landscape E(R) and shows every vesicle riding it live — vesicles left of the critical radius R* roll back to reseal, while a thermal fluctuation that carries one past the peak sends it runaway into rupture, a direct picture of Kramers barrier-crossing. Below it, the population's sealed / transient / ruptured fractions trace out a live leakage-kinetics curve, the same population-level readout real dye-leakage and patch-clamp bactericidal assays report and which a single rendered pore cannot show.