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Journal of Immunology Research
Volume 2017 (2017), Article ID 6412353, 14 pages
Research Article

Vaccinomics Approach for Designing Potential Peptide Vaccine by Targeting Shigella spp. Serine Protease Autotransporter Subfamily Protein SigA

1Department of Biotechnology and Genetic Engineering, Faculty of Life Science, Mawlana Bhashani Science and Technology University, Tangail, Bangladesh
2Biotechnology and Genetic Engineering Discipline, Life Science School, Khulna University, Khulna, Bangladesh
3Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka, Bangladesh
4Enteric and Food Microbiology Laboratory, International Centre for Diarrhoeal Disease Research Bangladesh (icddr,b), Dhaka, Bangladesh

Correspondence should be addressed to K. M. Kaderi Kibria

Received 18 March 2017; Revised 28 June 2017; Accepted 24 July 2017; Published 7 September 2017

Academic Editor: Pedro A. Reche

Copyright © 2017 Arafat Rahman Oany et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Supplementary Material

Table S1: Protein sequences retrieved from NCBI GenBank database for the analysis with appropriate accession numbers and antigenic score. Table S2: Population coverage analysis of the epitopes. Here the combined score for both MHC molecules have been represented. Table S3: The HLA I binding profile analyses of the selected peptides by EPISOPT. Figure S1: Dynamic interaction analysis of the clustered HLA alleles through tree illustration. Figure1A represents the MHC-I and Figure1B represents the MHC-II interaction. Here, HLA molecules are clustered on the basis of their preference for interaction with appropriate peptides. Figure S2: Ramachandran plot of the predicted model, which shows that most of the residues are in the allowed region of the plot, proving the validity of the model. Figure S3: Disorder prediction of the amino acid sequences of SigA. Here, our proposed epitopes localized outside of the disordered regions (15-35 and 520-530) and securing their potentiality for being an effective vaccine candidate. Notes: Amino acids in the input sequence are considered disordered when the blue line is above the gray dashed line, that is, when the confidence score is 0.5. The orange line shows the confidence score of the disordered protein-binding residue predictions. Figure S4: Control docking analysis of the epitope VMAPRTLIL and HLA-E allele. Figure S4A represents the oriented view of the interaction and assuring the perfect binding. Figure S4B represents the cartoon view and the Figure S4C embodies the interacted residues with the peptide. Figure S5: Variability plot for the 44 SigA protein alignment. The analysis was performed by using the PVS (protein Variability Software). The selected peptides were observed in the conserved region highlighted in the table.

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