title: A novel predictor for protein structural class based on integrated information of the secondary structure sequence.
abstract: The structural class has become one of the most important features for characterizing the overall folding type of a protein and played important roles in many aspects of protein research. At present, it is still a challenging problem to accurately predict protein structural class for low-similarity sequences. In this study, an 18-dimensional integrated feature vector is proposed by fusing the information about content and position of the predicted secondary structure elements. The consistently high accuracies of jackknife and 10-fold cross-validation tests on different low-similarity benchmark datasets show that the proposed method is reliable and stable. Comparison of our results with other methods demonstrates that our method is an effective computational tool for protein structural class prediction, especially for low-similarity sequences.
authors.affiliation: Department of Biotechnology, College of Marine Life Science, Ocean University of China, Qingdao, PR China.
authors.forename: Lichao
authors.initials: L
authors.lastname: Zhang
authors.affiliation: College of Mathematical Science, Ocean University of China, Qingdao, PR China. Electronic address: xqzhao62@163.com.
authors.forename: Xiqiang
authors.initials: X
authors.lastname: Zhao
authors.affiliation: College of Mathematics and Information Technology, Hebei Normal University of Science and Technology, Qinhuangdao, PR China.
authors.forename: Liang
authors.initials: L
authors.lastname: Kong
authors.affiliation: College of Mathematical Science, Ocean University of China, Qingdao, PR China.
authors.forename: Shuxia
authors.initials: S
authors.lastname: Liu
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D019295:Computational Biology / Q000379:methods*; D008969:Molecular Sequence Data; D017433:Protein Structure, Secondary; D011506:Proteins / Q000737:chemistry*; D060388:Support Vector Machine
chemical_list: D011506:Proteins
keywords: Position of α-helices and β-strands; Protein structural class; Sequence similarity; Support vector machine