In this paper, we propose a framework for privacy-preserving outsourced drug discovery in the cloud, which we refer to as POD. Specifically, POD is designed to allow the cloud to securely use multiple drug formula providers' drug formulas to train Support Vector Machine (SVM) provided by the analytical model provider. In our approach, we design secure computation protocols to allow the cloud server to perform commonly used integer and fraction computations. To securely train the SVM, we design a secure SVM parameter selection protocol to select two SVM parameters and construct a secure sequential minimal optimization protocol to privately refresh both selected SVM parameters. The trained SVM classifier can be used to determine whether a drug chemical compound is active or not in a privacy-preserving way. Lastly, we prove that the proposed POD achieves the goal of SVM training and chemical compound classification without privacy leakage to unauthorized parties, as well as demonstrating its utility and efficiency using three real-world drug datasets.