title: B and T Cell Epitope-Based Peptides Predicted from Evolutionarily Conserved and Whole Protein Sequences of Ebola Virus as Vaccine Targets.
abstract: Ebola virus (EBV) has become a serious threat to public health. Different approaches were applied to predict continuous and discontinuous B cell epitopes as well as T cell epitopes from the sequence-based and available three-dimensional structural analyses of each protein of EBV. Peptides '(79) VPSATKRWGFRSGVPP(94) ' from GP1 and '(515) LHYWTTQDEGAAIGLA(530) ' from GP2 of Ebola were found to be the consensus peptidic sequences predicted as linear B cell epitope of which the latter contains a region (519) TTQDEG(524) that fulfilled all the criteria of accessibility, hydrophilicity, flexibility and beta turn region for becoming an ideal B cell epitope. Different nonamers as T cell epitopes were obtained that interacted with different numbers of MHC class I and class II alleles with a binding affinity of <100 nm. Interestingly, these alleles also bound to the MHC class I alleles mostly prevalent in African and South Asian regions. Of these, 'LANETTQAL' and 'FLYDRLAST' nonamers were predicted to be the most potent T cell epitopes and they, respectively, interacted with eight and twelve class I alleles that covered 63.79% and 54.16% of world population, respectively. These nonamers were found to be the core sequences of 15mer peptides that interacted with the most common class II allele, HLA-DRB1*01:01. They were further validated for their binding to specific class I alleles using docking technique. Thus, these predicted epitopes may be used as vaccine targets against EBV and can be validated in model hosts to verify their efficacy as vaccine.
authors.affiliation: Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka, 1000, Bangladesh.
authors.forename: T
authors.initials: T
authors.lastname: Yasmin
authors.affiliation: Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka, 1000, Bangladesh.
authors.forename: A H M Nurun
authors.initials: AH
authors.lastname: Nabi
mesh_terms: D000349:Africa / Q000453:epidemiology; D001208:Asia / Q000453:epidemiology; D019295:Computational Biology; D003198:Computer Simulation; D017124:Conserved Sequence / Q000235:genetics; D046129:Ebola Vaccines / Q000276:immunology*; D029043:Ebolavirus / Q000276:immunology*; D018604:Epitope Mapping; D018985:Epitopes, B-Lymphocyte / Q000235:genetics / Q000276:immunology / Q000378:metabolism*; D018984:Epitopes, T-Lymphocyte / Q000235:genetics / Q000276:immunology / Q000378:metabolism*; D019143:Evolution, Molecular; D005787:Gene Frequency; D006680:HLA Antigens / Q000235:genetics / Q000378:metabolism; D059811:HLA-DRB1 Chains / Q000378:metabolism; D019142:Hemorrhagic Fever, Ebola / Q000453:epidemiology / Q000276:immunology / Q000517:prevention & control*; D006801:Humans; D011485:Protein Binding; D014759:Viral Envelope Proteins / Q000276:immunology*
chemical_list: D046129:Ebola Vaccines; D018985:Epitopes, B-Lymphocyte; D018984:Epitopes, T-Lymphocyte; D006680:HLA Antigens; D059811:HLA-DRB1 Chains; C487961:HLA-DRB1*01:01 antigen; D014759:Viral Envelope Proteins; C113189:envelope glycoprotein, Ebola virus