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Mesoscopic $N-$atom systems derive their structural and dynamical propertiesfrom processes coupled across multiple scales in space and time. An efficientmethod for understanding these systems in the friction dominated regime fromthe underlying N-atom formulation is presented. The method integrates notionsof multiscale analysis, Trotter factorization, and a hypothesis that themomenta conjugate to coarse-grained variables can be treated as a stationaryrandom process. The method is demonstrated for Lactoferrin, Nudaurelia CapensisOmega Virus, and Cowpea Chlorotic Mottle Virus to assess its accuracy andscaling with system size.

A Multiscale Factorization Method for Simulating Mesoscopic Systems with Atomic Precision