Abstract. Biological systems in nano-scale, due to the weak electrostatic interactions and structural connectivity therein, are flexible so that they undergo conformational transition subject to thermal fluctuations and external noises. In the presence of barriers, nature utilizes the fluctuations to give rise to self-organization, typically accompanied by conformational transitions. In two opposing membranes with like-charges, the cooperative coupling between the undulation and charge fluctuations give rise to a dynamic instability to spontaneous growth of the in-phase membrane undulation, and thus a great reduction of the energy barrier to fusion. The multivalent counter-ions, the Ca 2+ for example, enhance the necessary charge density fluctuation leading to surface charge inversion and overcondensation.Key words: membrane fusion, conformational transitions, thermal fluctuations, self-organization, charge fluctuations, dynamic instability, charge inversion, over-condensation Among various levels of biological worlds, we will focus upon the mesoscopic scale over length larger than 1 nm. This is precisely the level of concern to biologists, where cells and their constituent biopolymers like proteins and DNAs, membranes, and other subcellular structures are the main entities on the scene. Consider a cell membrane associated with bound proteins and immersed in a fluctuating, aqueous environment. What we observe here is complex and diverse conformations, yet accompanied with high orders for biological functions, the so called self-organization; lipid self-assembles to form a bilayer and functions as a barrier to permeation of polar molecules and ions, while the proteins fold in the bilayer to form channels for specific ions to cross the barrier.Then what are the basic physical features of this biological self-organization? First, the biological entities in this mesoscopic level, polymers and membranes, are typical soft condensed matter. Structurally interconnected with monomers, they have collective excitations of energy as low as the order of thermal energy. Such a low energy is also ubiquitous since the relevant interaction in the scale is the weak