From Table 4 and Figure 5 we can see that among the seven predictive methods, the proposed method has the highest performance with ACC of 80.00%, MCC of 0.674 and AUC of 87.40% and DBPPred is the known reported predictive method with the best predictive performance (ACC = 76.90%, MCC = 0.538 and AUC = 79.10%). So the independent prediction of SVM-PSSM-DT is improved by ACC of 3.105%, MCC of 0.136 and AUC of 8.30% when compared with the DBPPred method, indicating that SVM-PSSM-DT is an effective prediction model for DNA-binding protein identification.