To study the throughput scheduling problem under interference temperature in cognitive radio networks, an immune algorithm-based suboptimal method was proposed based on its NP-hard feature. The problem is modeled as a constrained optimization problem to maximize the total throughput of the secondary users( SUs). The mapping between the throughput scheduling problems and the immune algorithm is given. Suitable immune operators are designed such as binary antibody encoding, antibody initialization based on pre-knowledge, a proportional clone to its affinity and an adaptive mutation operator associated with the evolutionary generation. The simulation results showthat the proposed algorithm can obtain about 95% of the optimal throughput and operate with much lower liner computational complexity.