An algorithm was proposed to optimize the subsystems partition method and signal coordination scheme for the long arterial considering breakpoint cost based on the classical signal coordination scheme model in order to prevent the occurrence of few or infeasible bandwidth in a long arterial signal coordination progression. Whether each intersection is a green wave segmentation point was described by a series of binary variables. The bandwidth and loop integer constraints in the algorithm were revised according to the different coordination connection between two intersections which belong to a same subsystem or not. The actual bandwidth sum with the loss at the beginning of each subsystem was taken as the optimization objective by considering the bandwidth loss at the breakpoint between two subsystems. The subsystems partition and signal coordination scheme for long arterial considering breakpoint cost was proposed. Results show that proposed model can effectively increase the subsystem bandwidth and improve the main arterial efficiency by comparing the solutions of MAXBAND-81 with proposed model. The optimal subsystem partition method and the maximum bandwidth sum can be obtained by proposed model in the global scope when the limit number of subsystems cannot be determined before operation.