WAP-Palm is a web tool for identifying protein palmitoylation sites based on
weight amino acid composition, auto-correlation functions and position specific
scoring matrix profiles. Window size -9 to +9 is employed to construct the
prediction model. Users can submit one or multiple protein sequences containing
minimum 19 amino acids in FASTA format to the system. The system efficiently returns the predictions, including
protein name, the position of site, flanking amino acids and SVM probability.
Datasets can be downloaded from here:
Note: WAP-Palm uses evolutionary sequence features, which are
extracted from a position specific scoring matrix (PSSM) profile, created by
PSI-BLAST. To obtain the PSSM profile of the predicted protein, we have to run
PSI-BLAST, which may take up to a few minutes for some sequences, depending on
the sequence length.
Citation: Shaoping Shi, Xingyu Sun, Jianding Qiu*, Shengbao Suo,
Xiang Chen, Shuyun Huang, Ruping Liang. The prediction of palmitoylation site
locations using a multiple feature extraction methods, Journal of Molecular
Graphics and Modelling, 2013, 40: 125-130.