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Ideal interdigitated heterojunctions are considered to be the best solution for high-performance organic solar cells. However, the implementation of the ideal interdigitated structure is difficult. In this article, the general application of carbon nanotubes (CNTs) in organic solar cells is first discussed followed by the investigation of electrical roles of CNTs in organic solar cells. Based upon the current research results, we propose a novel inverted interdigitated structure for organic photovoltaic cells, which can be implemented by vertically aligned carbon nanotubes (VA CNTs). The power conversion efficiency of organic solar cells with this interdigitated structure, verified by simulation, exceeds the state-of-the-art performance.