Heterogeneous cellular networks (HetNets) are to be deployed for future wireless communication to meet the ever-increasing mobile traffic demand. However, the dense and random deployment of small cells and their uncoordinated operation raise important concerns about energy efficiency. Base station (BS) cooperation is set to play a key role in managing interference in the HetNets. In this paper, we consider BS cooperation in the downlink HetNets where BSs from different tiers within the respective cooperative clusters jointly transmit the same data to a typical user, and further optimize the energy efficiency performance. First, based on the proposed clustering model, we derive the spatial average rate using tools from stochastic geometry. Furthermore, we formulate a power minimization problem with a minimum spatial average rate constraint and derive an approximate result of the optimal received signal strength (RSS) thresholds. Building upon these results, we effectively address the problem of how to design appropriate RSS thresholds, taking into account the trade-off between spatial average rate and energy efficiency. Simulations show that our proposed clustering model is more energy-saving than the geometric clustering model, and under our proposed clustering model, deploying a two-tier HetNet is significantly more energy-saving compared to a macro-only network.