※ User Guide:
Frequently Asked Questions:
1. Q: How to use KprFunc webserver?
A: First, you can find the prediction website in 'WEB SERVER' page of KprFunc (http://kprfunc.biocuckoo.cn/online.php).
For general prediction, you could follow the instructions below:
<1>. Enter protein sequence(s) in FASTA format, which starts with a '>' followed with protein/peptide name.
<2>. Select the general predictor.
<3>. Select the threshold, then click the Submit button.
For functional prediction, you could follow the instructions below:
<1>. Enter protein sequence(s) in ELM format, which including the protein/peptide name, protein sequence, modified position and modified amino acid in each line, with tab or space as separator. (Please make sure the position and amino acid are both correct and matched, otherwise no result will be generated)
<2>. Select the functional predictor.
<3>. Select the threshold, then click the Submit button.
Wait a moment, you can get the results of general or functional propioylation sites.
2 . Q: How to read the KprFunc results?
A: Here we use the fly protein as the example. After clicking "Submit", the prediction results of H2B_DROME propionylation sites with prediction score are shown as follows:
ID: The name/id of the protein sequence that you input to predict.
Position: The position of the site which is predicted to be propionylated or functionally important.
Code: The residue which is predicted to be propionylated or functionally important.
Predictor: The predictor used for this prediction.
Peptide: The predicted propionylated peptide with 30 amino acids upstream and 30 amino acids downstream around the modified residue.
Score: The value calculated by KprFunc model to evaluate the potential of propionylation or functional relevance. The higher the value, the more potential the residue is propionylated or functionally important.
Cutoff: The cutoff value under the threshold. Different threshold means different precision, sensitivity and specificity.
3 . Q: How to get the annotated MS/MS spectra of propionylation sites used in this study?
A: Here we provide the download for annotated MS/MS spectra with two different parameters: pro_only, pro_ace_both.
4 . Q: I have a few questions which are not listed above, how can I contact the authors of KprFunc?
A: Please contact the authors through email for details. Thanks!