title: In silico identification of outer membrane protein (Omp) and subunit vaccine design against pathogenic Vibrio cholerae.
abstract: Virulence-related outer membrane proteins (Omps) are expressed in bacteria (Gram-negative) such as V. cholerae and are vital to bacterial invasion in to eukaryotic cell and survival within macrophages that could be best candidate for development of vaccine against V. cholerae. Applying in silico approaches, the 3-D model of the Omp was developed using Swiss model server and validated byProSA and Procheck web server. The continuous stretch of amino acid sequences 26mer: RTRSNSGLLTWGDKQTITLEYGDPAL and 31mer: FFAGGDNNLRGYGYKSISPQDASGALTGAKY having B-cell binding sites were selected from sequence alignment after B cell epitopes prediction by BCPred and AAP prediction modules of BCPreds. Further, the selected antigenic sequences (having B-cell epitopes) were analyzed for T-cell epitopes (MHC I and MHC II alleles binding sequence) by using ProPred 1 and ProPred respectively. The epitope (9mer: YKSISPQDA) that binds to both the MHC classes (MHC I and MHC II) and covers maximum MHC alleles were identified. The identified epitopes can be useful in designing comprehensive peptide vaccine development against V. cholerae by inducing optimal immune response.
authors: Immunology and Molecular Medicine Laboratory, Department of Life Science, National Institute of Technology, Rourkela, Odisha, 769008 India.
authors: Pradipta Ranjan
authors: PR
authors: Rauta
authors: Immunology and Molecular Medicine Laboratory, Department of Life Science, National Institute of Technology, Rourkela, Odisha, 769008 India.
authors: Sarbani
authors: S
authors: Ashe
authors: Immunology and Molecular Medicine Laboratory, Department of Life Science, National Institute of Technology, Rourkela, Odisha, 769008 India.
authors: Debasis
authors: D
authors: Nayak
authors: Immunology and Molecular Medicine Laboratory, Department of Life Science, National Institute of Technology, Rourkela, Odisha, 769008 India. Electronic address: nayakb@nitrkl.ac.in.
authors: Bismita
authors: B
authors: Nayak
mesh_terms: D000595:Amino Acid Sequence; D001425:Bacterial Outer Membrane Proteins / Q000378:metabolism*; D018984:Epitopes, T-Lymphocyte / Q000737:chemistry / Q000276:immunology; D022223:Vaccines, Subunit / Q000008:administration & dosage*; D014734:Vibrio cholerae / Q000276:immunology* / Q000378:metabolism*
chemical_list: D001425:Bacterial Outer Membrane Proteins; D018984:Epitopes, T-Lymphocyte; D022223:Vaccines, Subunit
keywords: B-Cell epitope; Homology modeling; MHC; T-Cell epitope