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Utilizing the WDSP Predictor for Protein Sequence Prediction

The WDSP Predictor is a tool that assists in predicting protein sequences by allowing users to input their job name, email address, random number seeds, and protein sequence for analysis. The results are then displayed on a result page, and users receive an email notification upon job completion. The predictor requires sequences to be in FASTA format and prohibits unnatural amino acids, with only one sequence allowed per submission. It runs a PSIBLAST search on the selected database and provides the prediction result with the highest score.

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Utilizing the WDSP Predictor for Protein Sequence Prediction

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  1. How to use WDSP predictor? WDSPdb 3.0 http://www.wdspdb.com/wdspdb3/ 1

  2. The WDSP predictor Entrance of WDSP predictor in navigation bar The job name Email address to receive prediction result Random number seeds for running the predictor Usage of the WDSP predictor BLAST searching database Inputting sequences for predicting Submit button 2

  3. The pipeline of using WDSP predictor 1. Input the job name. The length of name should be shorter than 20. 2. Leave an email address for receiving the prediction results. The server will check if you have entered a valid address. 3. Choose the random seed(s) for WDSP running. And the predictor will output the result having the highest score. 4. Select the sequence database for running PSIBLAST 5. Input the protein sequences in standard FASTA format. The unnatural amino acids are not allowed. Only one sequence will be submitted to WDSP. If two or more sequences are inputted, only the first one will be run. The length must be >= 40 residues. 6. Click the button “SUBMIT” to submit the job 3

  4. The link to the job result After the job submitted, the predictor will jump to the page including the result information The job name submitted The input sequence The link to the result page The email address for receiving to the link of prediction result 4

  5. The link to the job result • The WDSP predictor will take some time to run the job. • Before the job complete, the result page will be shown as following. 5

  6. The predicted result When the job is complete, the result page will present as following. The job name submitted The sequence identifier WDSP prediction result Note: for the he interpretation of the prediction result please refer to the guide of “Protein detail page” and the Help page. 6

  7. The email from WDSP predictor • When your task is complete, the WDSP predictor also send an email to the address you inputted • The contents of the email are as follows The job name submitted The sequence identifier The link to result page. • > “UpFL6N9Lvs” is the unique Job_ID generated by WDSP predictor for each job. • The result link composed as follow: http://www.wdspdb.com/wdspdb3/output/kiYSWy 7

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