Effective elastic constants of biomimetic multilayer structures with hierarchical structures are evaluated based on the potential energy balance method. The effective anisotropic elastic constants are used in analyzing low-velocity impact of biomimetic multilayer structures consisting of mineral and protein. It is shown that displacements of biomimetic multilayer structures strongly depend on the volume fraction of mineral and hierarchical level. The effect of the volume fraction of mineral and hierarchical level on the contact force and stresses at the impact point are also discussed.