Self-assembly of kagome lattices, entangled webs and linear fibers with vibrating patchy particles in two dimensions

A vibrating version of patchy particles in two dimensions is introduced to study self-assembly of kagome lattices, disordered networks of looping structures, and linear arrays. Discontinuous molecular dynamics simulations in the canonical ensemble are used to characterize the molecular architectures and thermodynamic conditions that result in each of those morphologies, as well as the time evolution of lattice formation. Several versions of the new model are tested and analysed in terms of their ability to produce kagome lattices. Due to molecular flexibility, particles with just attractive sites adopt a polarized-like configuration and assemble into linear arrays. Particles with additional repulsive sites are able to form kagome lattices, but at low temperature connect as entangled webs. Abundance of hexagonal motifs, required for the kagome lattice, is promoted even for very small repulsive sites but hindered when the attractive range is large. Differences in behavior between the new flexible model and previous ones based on rigid bodies offer opportunities to test and develop theories about the relative stability, kinetics of formation and mechanical response of the observed morphologies.