Epitope-based immunoinformatics study of a novel PilQ 380–706 -PilA fusion protein from Pseudomonas aeruginosa

Faezi, Sobhan and Bahrmand, Ahmad Reza and Sardari, Soroush and Nikokar, L and Khanaki, Korosh and Siadat, Seyed Davar and Goudarzi, Gholamreza and Elmi, A and Mahdavi, M (2019) Epitope-based immunoinformatics study of a novel PilQ 380–706 -PilA fusion protein from Pseudomonas aeruginosa. Gene Reports, 15. ISSN 24520144

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nfections with Pseudomonas aeruginosa (P. aeruginosa) have been a long-standing challenge for clinical therapy, because of the complexity of pathogenesis and its widespread resistance to antibiotics. The main aim of the present study was to design and analyze a novel PilQ 380–706 -PilA fusion protein as a vaccine candidate using immunoinformatics tools. The potential antigenic B and T-cell epitopes were determined. Hydrophobicity, hydrophilicity, flexibility, and surface accessibility of the protein were assessed by online algorithm tools. Allergenicity of the protein was analyzed for the safety concern. Most promising T cell epitopes were selected based on their binding efficiency with commonly occurring MHC class II alleles. The 3D structure model of the fusion protein was generated using RaptorX and I-TASSER servers and validated by Ramachandran plot using RAMPAGE server. Among 19 antigenic epitopes, 12 of them demonstrated the hydrophilic property. Two potential continuous B-cell epitopes were found in the sequence positions 20–41 and 95–152. Based on the prediction tools, the PilQ-PilA was not determined as an allergenic protein. Five epitopes were found to interact with the H2-IAd allele, and also five epitopes with H2-IAb. Among them, it was found that “IPVRQVMIEARIVEA”, “PVRQVMIEARIVEAN” and “VRQVMIEARIVEANV” were potential T-cell epitopes as they interacted with mouse MHC class-II alleles. Ramachandran plot showed about 93.2% residues were present in the favored region. Based on the present study, it could be concluded that these predicted epitopes may be efficient for recognition by B and T-cells to generate a specific immune response.

Item Type: Article
Subjects: R Medicine > R Medicine (General)
Divisions: Faculty of Medicine, Health and Life Sciences > School of Medicine
Depositing User: samira sepahvandy
Date Deposited: 17 Apr 2019 06:17
Last Modified: 17 Apr 2019 06:17
URI: http://eprints.lums.ac.ir/id/eprint/1648

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