Evidence map›Paper›PMID 39083139›Full record

ArticleJournal of molecular modeling2024

Predicting immune response targets in orthoflaviviruses through sequence homology and computational analysis.

Venkata N Are, Rajarshi Roy, Sandeep Kumar Dhanda, Sanchit Neema, Neha Rani Sahu, Nitin Adithya, Ritudhwaj Tiwari, Parimal Kar, Debasis Nayak

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Article in Journal of molecular modeling, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

9 authors.

Venkata N AreDepartment of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, MP, India.
Rajarshi RoyDepartment of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, MP, India.
Sandeep Kumar DhandaDivision of Neuro-Oncology, Department of Oncology, St. Jude Children's Research Hospital, Memphis, TN, 38105, USA.
Sanchit NeemaDepartment of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, MP, India.
Neha Rani SahuDepartment of Biological Sciences, Indian Institute of Science Education and Research Bhopal, Bhopal, 462066, MP, India.
Nitin AdithyaDepartment of Biological Sciences, Indian Institute of Science Education and Research Bhopal, Bhopal, 462066, MP, India.
Ritudhwaj TiwariDepartment of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, MP, India.
Parimal KarDepartment of Biosciences and Biomedical Engineering, Indian Institute of Technology, Indore, 453552, MP, India.
Debasis NayakDepartment of Biological Sciences, Indian Institute of Science Education and Research Bhopal, Bhopal, 462066, MP, India. debasis@iiserb.ac.in.

Funding

National post-doctoral fellowship, DST-SERB, Govt. of India PDF/2018-002631
6 · The paper itself

Abstract

contextFlaviviruses cause severe encephalitic or hemorrhagic diseases in humans. Its members, Kyasanur forest disease virus (KFDV) and Alkhumra hemorrhagic fever virus (ALKV), cause hemorrhagic fever and are prevalent in India and Saudi Arabia, respectively, while the tick-borne encephalitis virus (TBEV) causes a dangerous encephalitic infection in Europe and Asia. However, little information is available about the targets of immune responses for these deadly viruses. Here, we predict potential antigenic peptide epitopes of viral envelope protein for inducing a cell-mediated and humoral immune response.

methodsUsing the Immune Epitope Database and Analysis Resource (IEDB-AR), we identified 13 MHC-I and two MHC-II dominant conserved epitopes in KFDV and ALKV and six MHC-I and three MHC-II epitopes in TBEV envelope proteins. Parallelly, we also predicted B-cell linear and discontinuous envelope protein epitopes for these viruses. Interestingly, the epitopes are conserved in all three viral envelope proteins. Further, the discontinuous epitopes are structurally compared with the available DENV, ZIKV, WNV, TBEV, and LIV envelope protein antibody structures. Overall structural comparison analyses highlight (i) lateral ridge epitope in the ED-III domain of E protein, and (ii) envelope dimer epitope (EDE) could be targeted for developing potent vaccine candidates as well as therapeutic antibody production. Moreover, existing structural and biochemical functions of the same epitopes in homologous viruses are predicted to have a reduced antibody-dependent enhancement (ADE) effect on flaviviral infection.

Indexed as

FlavivirusAmino Acid SequenceComputational BiologyEncephalitis Viruses, Tick-BorneEpitopesEpitopes, B-LymphocyteHumansModels, MolecularSequence Homology, Amino AcidViral Envelope ProteinsEpitopesEpitopes, B-LymphocyteViral Envelope ProteinsALKVCD4 T-cellsCD8 T-cellsEpitopesKFDVNeutralizing antibodyTBEV

Identifiers

PMID39083139

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.