Anoop Kumar1,2, Roma Pandey3, Inderjit S Yadav4, Mausumi Bharadwaj1. 1. Division of Molecular Genetics and Biochemistry, National Institute of Cancer prevention and research (NICPR) formerly Institute of Cytology and Preventive Oncology, Noida, India. 2. Molecular Diagnostic Laboratory, National Institute of Biologicals, Noida, India. 3. Department of Biotechnology, Mangalmay Institute of Management and Technology, Greater Noida, India. 4. School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, Punjab, India.
Abstract
BACKGROUND: Chronic infection with Hepatitis C Virus (HCV) poses a major risk for liver disease like cirrhosis, liver failure and hepatocellular carcinoma. In terms of percentage, the prevalence of HCV in India was found to be low to moderate (1-1.5%), but in terms of sheer numbers, India has a significant number of global HCV patients. Presently, HCV can be treated with direct acting-antibody drugs but there is no prophylactic or therapeutic vaccine available against it. In HCV infection, T- and B-cell immunity is important for clearing the virus. In the present study immunoinformatics was used to identify potent vaccine target for HCV vaccine development. METHODS: Sequence of HCV was retrieved from NCBI and their structural analysis was done by using Protpram, PSIPRED, iTASSER and PDBsum servers. T-cell and B-cell epitopes were predicted by Immune Epitope Database and ACBPRED servers. RESULTS: On epitope prediction, 25 and 55 potent MHC-I epitopes and 7 and 13 potent B-cell epitopes were predicted for E1 and E2 protein respectively. Their antigenicity score was also calculated. The most potent MHC-I epitopes were MMMNWSPAV and MAWDMMMNW for HLA-A*02:01 and HLA-B*53:01 and most potent B-cell epitope was TGHRMAWDMMMNWSPA for E1 protein. For E2, four MHC-I epitopes having the lowest binding energy and most potent B-cell epitope was DRPYCWHYAPRPCDTI. CONCLUSION: In the present study, most potent epitopes for HCV was determined on the basis of their antigenicity along with 3D modeling and docking. Identified B- and T-cell epitopes can be used for the development of potent vaccine against most prevalent HCV type in India to limit its infection.
BACKGROUND: Chronic infection with Hepatitis C Virus (HCV) poses a major risk for liver disease like cirrhosis, liver failure and hepatocellular carcinoma. In terms of percentage, the prevalence of HCV in India was found to be low to moderate (1-1.5%), but in terms of sheer numbers, India has a significant number of global HCV patients. Presently, HCV can be treated with direct acting-antibody drugs but there is no prophylactic or therapeutic vaccine available against it. In HCV infection, T- and B-cell immunity is important for clearing the virus. In the present study immunoinformatics was used to identify potent vaccine target for HCV vaccine development. METHODS: Sequence of HCV was retrieved from NCBI and their structural analysis was done by using Protpram, PSIPRED, iTASSER and PDBsum servers. T-cell and B-cell epitopes were predicted by Immune Epitope Database and ACBPRED servers. RESULTS: On epitope prediction, 25 and 55 potent MHC-I epitopes and 7 and 13 potent B-cell epitopes were predicted for E1 and E2 protein respectively. Their antigenicity score was also calculated. The most potent MHC-I epitopes were MMMNWSPAV and MAWDMMMNW for HLA-A*02:01 and HLA-B*53:01 and most potent B-cell epitope was TGHRMAWDMMMNWSPA for E1 protein. For E2, four MHC-I epitopes having the lowest binding energy and most potent B-cell epitope was DRPYCWHYAPRPCDTI. CONCLUSION: In the present study, most potent epitopes for HCV was determined on the basis of their antigenicity along with 3D modeling and docking. Identified B- and T-cell epitopes can be used for the development of potent vaccine against most prevalent HCV type in India to limit its infection.
Entities:
Keywords:
B cell epitope; CHO, Chinese Hamster Ovary; DAA, Direct Acting-Antiviral; HCC, Hepatocellular Carcinoma; HCV; HCV, Hepatitis C Virus; MHC; hepatocellular carcinoma; vaccine
Authors: Eric F Pettersen; Thomas D Goddard; Conrad C Huang; Gregory S Couch; Daniel M Greenblatt; Elaine C Meng; Thomas E Ferrin Journal: J Comput Chem Date: 2004-10 Impact factor: 3.376
Authors: A Fournillier; C Wychowski; D Boucreux; T F Baumert; J C Meunier; D Jacobs; S Muguet; E Depla; G Inchauspé Journal: J Virol Date: 2001-12 Impact factor: 5.103
Authors: A Folgori; E Spada; M Pezzanera; L Ruggeri; A Mele; A R Garbuglia; M P Perrone; P Del Porto; E Piccolella; R Cortese; A Nicosia; A Vitelli Journal: Gut Date: 2006-02-16 Impact factor: 23.059
Authors: Pei Zhang; Charles G Wu; Kathleen Mihalik; Maria Luisa Virata; Mei-Ying W Yu; Harvey J Alter; Stephen M Feinstone Journal: Proc Natl Acad Sci U S A Date: 2007-05-09 Impact factor: 11.205