Formation of different spatial configurations for system of charged rod-like particles is considered theoretically and numerically, including formation of layered structures in the external electric field. Analytical model for a determination of the angle between the axis of a rod and the symmetry axis of electric trap is presented. New algorithm is proposed here for a dynamical simulation of many interacting non-spherical particles. Conditions for a correct replacement of the interaction between uniformly charged rods by the interaction of “bipoles” (i.e., by two similar point charges) are obtained. Study was performed in a wide range of parameters that are similar to conditions of laboratory experiments in a dusty plasma.