We investigated the lipid bilayer self-spreading behavior on glass substrates modified with complex array of nano-architectures. Simple way of constructing a binary array of metallic / organic nano-architectures was established. The metallic nano-architecture was prepared by nano-sphere lithography (NSL) method. By controlling the drying process in NSL, periodic array of donut-shaped organic nano-architectures, 200 nm in diameter and 4 nm in height, was also constructed on the substrate. In the presence of metallic nano-architectures, the self-spreading velocity was significantly reduced due to the energy cost imposed on passing through the nano-architectures. The self-spreading phenomenon was found to be intact even on the metallic / organic binary array substrate. Fluorescence microscope revealed that the organic nano-architectures kept their initial structures during the self-spreading around the architectures.