In this work, we consider a bilayer-membrane which is crossed by an assembly of (parallel) nanopores formed generally by peptide molecules. The deformations and thermal fluctuations of this bilayer-membrane give rise to repulsive effective pair-interactions between the parallel nanopores. Some recent experiment has revealed that the repulsive effective pair-potentials, as function of distance between adjacent nanopores, are of Born-Mayer type (soft-potential). Beside the repulsive forces, the nanopores mutually attract through the van der Waals forces. Our main goal is an extensive theoretical study of the structural and thermodynamical properties of the nanopores we consider as a dense gas system. When the bath temperature is fixed to some value (room temperature), the only remaining pertinent parameter of discussion is the nanopore-density, denoted as n, or equivalently, the peptide-molar-fraction, P/L. First, we propose a closer expression of the effective pair-potentials taking into account recent experimental measurements dealt with many lipid-bilayers (Gramicidin/DLPC, Gramicidin/C12EO5...). Second, we classify these effective pair-potentials in terms of the nanopore-density, and in particular, we show the existence of a typical nanopore-density, nc, below which the total pair-potential exhibits an energy-barrier which prevents the coagulation of the nanopores. When the nanopore-density reaches threshold, nc, the energy-barrier ceases to exist, and beyond this threshold, one assists to a complete coagulation of the nanopores. Third, we determine an exact theoretical expression of the structure factor of the nanopores, as a function of the wave-vector, within the framework of Random Phase Approximation, using a hard-disk model as a reference system. Finally, from the obtained structure factor, we extract the thermodynamical properties of the integrated nanopores, such as the virial pressure (state of equation), the isothermal compressibility and the chemical potential which are nanopore-density dependent.
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