title: Identification of S-glutathionylation sites in species-specific proteins by incorporating five sequence-derived features into the general pseudo-amino acid composition.
abstract: As a selective and reversible protein post-translational modification, S-glutathionylation generates mixed disulfides between glutathione (GSH) and cysteine residues, and plays an important role in regulating protein activity, stability, and redox regulation. To fully understand S-glutathionylation mechanisms, identification of substrates and specific S-Glutathionylated sites is crucial. Experimental identification of S-glutathionylated sites is labor-intensive and time consuming, so establishing an effective computational method is much desirable due to their convenient and fast speed. Therefore, in this study, a new bioinformatics tool named SSGlu (Species-Specific identification of Protein S-glutathionylation Sites) was developed to identify species-specific protein S-glutathionylated sites, utilizing support vector machines that combine multiple sequence-derived features with a two-step feature selection. By 5-fold cross validation, the performance of SSGlu was measured with an AUC of 0.8105 and 0.8041 for Homo sapiens and Mus musculus, respectively. Additionally, SSGlu was compared with the existing methods, and the higher MCC and AUC of SSGlu demonstrated that SSGlu was very promising to predict S-glutathionylated sites. Furthermore, a site-specific analysis showed that S-glutathionylation intimately correlated with the features derived from its surrounding sites. The conclusions derived from this study might help to understand more of the S-glutathionylation mechanism and guide the related experimental validation. For public access, SSGlu is freely accessible at http://59.73.198.144:8080/SSGlu/.
authors.affiliation: School of Computer Science and Information Technology, Northeast Normal University, Changchun 130117, China. Electronic address: zhaoxw303@nenu.edu.cn.
authors.forename: Xiaowei
authors.initials: X
authors.lastname: Zhao
authors.affiliation: School of Computer Science and Information Technology, Northeast Normal University, Changchun 130117, China.
authors.forename: Qiao
authors.initials: Q
authors.lastname: Ning
authors.affiliation: School of Computer Science and Information Technology, Northeast Normal University, Changchun 130117, China.
authors.forename: Meiyue
authors.initials: M
authors.lastname: Ai
authors.affiliation: School of Computer Science and Information Technology, Northeast Normal University, Changchun 130117, China.
authors.forename: Haiting
authors.initials: H
authors.lastname: Chai
authors.affiliation: School of Computer Science and Information Technology, Northeast Normal University, Changchun 130117, China.
authors.forename: Guifu
authors.initials: G
authors.lastname: Yang
mesh_terms: D000595:Amino Acid Sequence; D000596:Amino Acids / Q000737:chemistry*; D000818:Animals; D019540:Area Under Curve; D030562:Databases, Protein; D005978:Glutathione / Q000378:metabolism*; D006801:Humans; D020407:Internet; D051379:Mice; D015203:Reproducibility of Results; D013045:Species Specificity; D060388:Support Vector Machine
chemical_list: D000596:Amino Acids; D005978:Glutathione
keywords: Multiple Features; S-glutathionylated sites; Species-specific analysis; Support vector machines; Web server