Web-server guide
We have constructed a user-friendly web-server of SVM-PSSM-DT freely accessible to the public. Moreover, for the convenience of the vast majority of experimental scientists, a step-by-step guide is provided below on how to use the web-server to get the desired results.
Step 1. Open the web-server by clicking the link [79] and you will see the home page as shown in Figure 6. Click on the Read Me button you can obtain the brief introduction about this web-server.
Figure 6  The top page of the web-server. In the top page, you can type or copy and paste the query protein sequences into the input box at the center, obtain the brief introduction about this web-server by clicking on Read Me button and see information about FASTA format by clicking on the Example button right above the input box. Step 2. Either type or copy and paste the query protein sequences into the input box at the center of Figure 6. AS this server need calculate the PSSM profile for every protein sequence through PSI-BLAST, which is a time-consuming operation, thus it receive only a query protein sequence at a time. The input sequence should be in the FASTA format and example sequences in FASTA format can be seen by clicking on the Example button right above the input box.
Step 3. Click on the Submit button to submit the query sequence to the server, then you will see the predicted results on your screen. For example, use the protein 1IGN chain B as a query sequence, you will see on your screen that the predictive result is "DNA-binding protein".