The complex nonlinearities of hypersonic vehicles can lead to strong couplings between variables, which will bring great challenges to flight control. For this purpose, this paper proposes a novel coupling analysis method for the longitudinal dynamics of a hypersonic vehicle, based on which a coordination controller is designed to reduce the negative effects of the couplings. Initially, according to the coupling characteristics of the hypersonic vehicle, a novel coupling analysis method based on the dynamic equations is proposed to describe the dynamic coupling relationships between variables. Then, a coordination control scheme is designed by combining sliding mode control and the dynamic coupling matrix obtained. Subsequently, the asymptotic stability of the closed-loop system is proved by using Lyapunov theory, and the simulation results are given to verify the effectiveness of the proposed dynamic coupling matrix-based coordination control.