title: Identification of the core regulators of the HLA I-peptide binding process.
abstract: During the display of peptide/human leukocyte antigen (HLA) -I complex for further immune recognition, the cleaved and transported antigenic peptides have to bind to HLA-I protein and the binding affinity between peptide epitopes and HLA proteins directly influences the immune recognition ability in human beings. Key factors affecting the binding affinity during the generation, selection and presentation processes of HLA-I complex have not yet been fully discovered. In this study, a new method describing the HLA class I-peptide interactions was proposed. Three hundred and forty features of HLA I proteins and peptide sequences were utilized for analysis by four candidate algorithms, screening the optimal classifier. Features derived from the optimal classifier were further selected and systematically analyzed, revealing the core regulators. The results validated the hypothesis that features of HLA I proteins and related peptides simultaneously affect the binding process, though with discrepant redundancy. Besides, the high relative ratio (16/20) of the amino acid composition features suggests the unique role of sequence signatures for the binding processes. Integrating biological, evolutionary and chemical features of both HLA I molecules and peptides, this study may provide a new perspective of the underlying mechanisms of HLA I-mediated immune reactions.
authors.affiliation: Institute of Health Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences; University of Chinese Academy of Sciences, Shanghai 200031, People's Republic of China.
authors.forename: Yu-Hang
authors.initials: YH
authors.lastname: Zhang
authors.affiliation: Institute of Health Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences; University of Chinese Academy of Sciences, Shanghai 200031, People's Republic of China.
authors.forename: Zhihao
authors.initials: Z
authors.lastname: Xing
authors.affiliation: School of Life Sciences and Biotechnology, Shanghai Jiaotong University, Shanghai 200240, People's Republic of China.
authors.forename: Chenglin
authors.initials: C
authors.lastname: Liu
authors.affiliation: School of Life Sciences, Shanghai University, Shanghai 200444, People's Republic of China.
authors.forename: ShaoPeng
authors.initials: S
authors.lastname: Wang
authors.affiliation: Institute of Health Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences; University of Chinese Academy of Sciences, Shanghai 200031, People's Republic of China.
authors.forename: Tao
authors.initials: T
authors.lastname: Huang
authors.affiliation: School of Life Sciences, Shanghai University, Shanghai 200444, People's Republic of China.
authors.forename: Yu-Dong
authors.initials: YD
authors.lastname: Cai
authors.affiliation: Institute of Health Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences; University of Chinese Academy of Sciences, Shanghai 200031, People's Republic of China.
authors.forename: Xiangyin
authors.initials: X
authors.lastname: Kong
mesh_terms: D000465:Algorithms; D000915:Antibody Affinity; D000939:Epitopes / Q000737:chemistry / Q000276:immunology; D015395:Histocompatibility Antigens Class I / Q000737:chemistry / Q000276:immunology*; D006801:Humans; D010455:Peptides / Q000737:chemistry / Q000276:immunology*; D011485:Protein Binding
chemical_list: D000939:Epitopes; D015395:Histocompatibility Antigens Class I; D010455:Peptides