This study shows that electrophoretic deposition (EPD) is a fast and efficient technique for producing protein nanotube-based biointerfaces. Well-shaped collagen-based nanotubes of controlled dimensions are synthesized by a template method combined with the layer-by-layer (LbL) assembly technique. Separation of nanotubes from the template material and collection of nanotubes on ITO glass carried out by EPD leads to a fairly homogeneous distribution of protein nanotubes at the support surface. Biointerfaces with different and tunable densities of protein nanotubes are obtained by changing either the applied voltage, solution concentration of nanotubes, or deposition time. Moreover, it is proved that the collected nanotubes are template-free and keep their biofunctional outermost layer after EPD. A preliminary study of the behavior of preosteoblasts cells with the elaborated biointerfaces indicates a specific interaction of cells with the nanotubes through filopodia. This contribution paves the way to the easy preparation of a large variety of useful nanostructured collagen and other protein-based interfaces for controlling cell-surface interactions in diverse biomaterials applications.