Delineation of an epitope on domain I of Japanese Encephalitis Virus envelope glycoprotein using monoclonal antibodies

Virus Research

Volumn 158, Issue 1-2, 2011, Pages 179-187

  Gangwar, Roopesh Singh ^a   Shil, Pratip ^a   Cherian, Sarah S ^a   Gore, Milind M ^a  

^a NATIONAL INSTITUTE OF VIROLOGY   (India)

Author keywords

Docking; Epitope; Homology modeling; Immunofluorescence assay; Japanese Encephalitis Virus; Monoclonal antibody

Indexed keywords

EPITOPE; GLYCOPROTEIN E; HISTONE; IMMUNOGLOBULIN G2B; IMMUNOGLOBULIN HEAVY CHAIN; IMMUNOGLOBULIN KAPPA CHAIN; IMMUNOGLOBULIN LIGHT CHAIN; IMMUNOGLOBULIN M; MONOCLONAL ANTIBODY; MONOCLONAL ANTIBODY NHA I; MONOCLONAL ANTIBODY NHA II; UNCLASSIFIED DRUG; VIRUS ANTIBODY; VIRUS RNA;

ANIMAL CELL; ANIMAL EXPERIMENT; ANTIGEN BINDING; ANTIGEN DETECTION; ANTIGEN SPECIFICITY; ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; CRYSTAL STRUCTURE; ENZYME LINKED IMMUNOSORBENT ASSAY; EPITOPE MAPPING; IMMUNOFLUORESCENCE TEST; IMMUNOGLOBULIN VARIABLE REGION; JAPANESE ENCEPHALITIS VIRUS; MOLECULAR DOCKING; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; PEPTIDE SYNTHESIS; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN TERTIARY STRUCTURE; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; VIRUS STRAIN; WEST NILE FLAVIVIRUS; WESTERN BLOTTING;

ANIMALS; ANTIBODIES, MONOCLONAL; ANTIBODIES, VIRAL; ENCEPHALITIS VIRUS, JAPANESE; ENZYME-LINKED IMMUNOSORBENT ASSAY; EPITOPE MAPPING; EPITOPES; IMMUNOGLOBULIN VARIABLE REGION; MEMBRANE GLYCOPROTEINS; MICE; MICE, INBRED BALB C; MICROSCOPY, FLUORESCENCE; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN STRUCTURE, TERTIARY; SEQUENCE ANALYSIS, DNA; VIRAL ENVELOPE PROTEINS;

JAPANESE ENCEPHALITIS VIRUS; WEST NILE VIRUS;

EID: 79956305403     PISSN: 01681702     EISSN: 18727492     Source Type: Journal    
DOI: 10.1016/j.virusres.2011.03.030     Document Type: Article

References (55)

1. Arnold K., Bordoli L., Kopp J., Schwede T. The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. Bioinformatics 2006, 22(2):195-201.
2. Beasley D.W., Barrett A.D. Identification of neutralizing epitopes within structural domain III of the West Nile virus envelope protein. J. Virol. 2002, 76(24):13097-13100.
3. Bondre V.P., Jadi R.S., Mishra A.C., Yergolkar P.N., Arankalle V.A. West Nile virus isolates from India: evidence for a distinct genetic lineage. J. Gen. Virol. 2007, 88(Pt 3):875-884.
4. Cecilia D., Gadkari D.A., Kedarnath N., Ghosh S.N. Epitope mapping of Japanese encephalitis virus envelope protein using monoclonal antibodies against an Indian strain. J. Gen. Virol. 1988, 69(Pt 11):2741-2747.
5. Chen R., Weng Z. Docking unbound proteins using shape complementarity, desolvation, and electrostatics. Proteins 2002, 47(3):281-294.
6. Diagana M., Preux P.M., Dumas M. Japanese encephalitis revisited. J. Neurol. Sci. 2007, 262(1-2):165-170.
7. Ghanekar S.A., Cecilia D., Kutubuddin M., Goverdhan M.K., Dandawate C.N., Banerjee K., Ghosh S.N. Characterization of & induction of immune response to anti-idiotypic antibodies for JE virus. Indian J. Med. Res. 1991, 93:131-139.
8. Gupta A.K., Lad V.J., Ghosh S.N. Detection of viral antigens on the surface of cells infected with Japanese encephalitis virus by modified immunofluorescent technique. Acta Virol. 1993, 37(1):93-96.
9. Gupta A.K., Lad V.J., Sarthi S.A., Koshy A.A., Gadkari D.A. An IgM monoclonal antibody to Japanese encephalitis virus recognizing a cross-reactive epitope on nuclear histones. Indian J. Med. Res. 1999, 110:149-154.
10. Heinz F.X. Epitope mapping of flavivirus glycoproteins. Adv. Virus Res. 1986, 31:103-168.
11. Kabilan L. A modified immunofluorescence assay for detection of Japanese encephalitis virus-infected cells. Acta Virol. 2001, 45(4):253-255.
12. Kabilan L., Vrati S., Ramesh S., Srinivasan S., Appaiahgari M.B., Arunachalam N., Thenmozhi V., Kumaravel S.M., Samuel P.P., Rajendran R. Japanese encephalitis virus (JEV) is an important cause of encephalitis among children in Cuddalore district, Tamil Nadu, India. J. Clin. Virol. 2004, 31(2):153-159.
13. Kanai R., Kar K., Anthony K., Gould L.H., Ledizet M., Fikrig E., Marasco W.A., Koski R.A., Modis Y. Crystal structure of west nile virus envelope glycoprotein reveals viral surface epitopes. J. Virol. 2006, 80(22):11000-11008.
14. Kedarnath N., Dayaraj C., Sathe P.S., Gadkari D.A., Dandawate C.N., Goverdhan M.K., Ghosh S.N. Monoclonal antibodies against Japanese encephalitis virus. Indian J. Med. Res. 1986, 84:125-133.
15. Kimura-Kuroda J., Yasui K. Antigenic comparison of envelope protein E between Japanese encephalitis virus and some other flaviviruses using monoclonal antibodies. J. Gen. Virol. 1986, 67(Pt 12):2663-2672.
16. Kindt T.J., Goldsby R.A., Osborne B.A. Kuby Immunology 2007, W.H. Freeman and Company, New York, New York. sixth ed.
17. Kolaskar A.S., Kulkarni-Kale U. Prediction of three-dimensional structure and mapping of conformational epitopes of envelope glycoprotein of Japanese encephalitis virus. Virology 1999, 261(1):31-42.
18. Kolaskar A.S., Tongaonkar P.C. A semi-empirical method for prediction of antigenic determinants on protein antigens. FEBS Lett. 1990, 276(1-2):172-174.
19. Laskowski R.A., MacArthur M.W., Moss D.S., Thornton J.M. PROCHECK - a program to check the stereochemical quality of protein structures. J. Appl. Cryst. 1993, 26:283-291.
20. Lee E., Hall R.A., Lobigs M. Common E protein determinants for attenuation of glycosaminoglycan-binding variants of Japanese encephalitis and West Nile viruses. J. Virol. 2004, 78(15):8271-8280.
21. Macindoe G., Mavridis L., Venkatraman V., Devignes M.D., Ritchie D.W. HexServer: an FFT-based protein docking server powered by graphics processors. Nucleic Acids Res. 2010, 38(Suppl.):W445-W449.
22. Mackenzie J.S., Chua K.B., Daniels P.W., Eaton B.T., Field H.E., Hall R.A., Halpin K., Johansen C.A., Kirkland P.D., Lam S.K., McMinn P., Nisbet D.J., Paru R., Pyke A.T., Ritchie S.A., Siba P., Smith D.W., Smith G.A., van den Hurk A.F., Wang L.F., Williams D.T. Emerging viral diseases of Southeast Asia and the Western Pacific. Emerg. Infect. Dis. 2001, 7(3 Suppl):497-504.
23. Mandl C.W., Guirakhoo F., Holzmann H., Heinz F.X., Kunz C. Antigenic structure of the flavivirus envelope protein E at the molecular level, using tick-borne encephalitis virus as a model. J. Virol. 1989, 63(2):564-571.
24. Martin D.A., Biggerstaff B.J., Allen B., Johnson A.J., Lanciotti R.S., Roehrig J.T. Use of immunoglobulin m cross-reactions in differential diagnosis of human flaviviral encephalitis infections in the United States. Clin. Diagn. Lab. Immunol. 2002, 9(3):544-549.
25. McAda P.C., Mason P.W., Schmaljohn C.S., Dalrymple J.M., Mason T.L., Fournier M.J. Partial nucleotide sequence of the Japanese encephalitis virus genome. Virology 1987, 158(2):348-360.
26. Misra U.K., Kalita J. Overview: Japanese encephalitis. Prog. Neurobiol. 2010, 91(2):108-120.
27. Nabeshima T., Loan H.T., Inoue S., Sumiyoshi M., Haruta Y., Nga P.T., Huoung V.T., del Carmen Parquet M., Hasebe F., Morita K. Evidence of frequent introductions of Japanese encephalitis virus from south-east Asia and continental east Asia to Japan. J. Gen. Virol. 2009, 90(Pt 4):827-832.
28. Nybakken G.E., Nelson C.A., Chen B.R., Diamond M.S., Fremont D.H. Crystal structure of the West Nile virus envelope glycoprotein. J. Virol. 2006, 80(23):11467-11474.
29. Paramasivan R., Mishra A.C., Mourya D.T. West Nile virus: the Indian scenario. Indian J. Med. Res. 2003, 118:101-108.
30. Parida M., Dash P.K., Tripathi N.K., Ambuj, Sannarangaiah S., Saxena P., Agarwal S., Sahni A.K., Singh S.P., Rathi A.K., Bhargava R., Abhyankar A., Verma S.K., Rao P.V., Sekhar K. Japanese Encephalitis Outbreak, India, 2005. Emerg. Infect. Dis. 2006, 12(9):1427-1430.
31. Phukan A.C., Borah P.K., Mahanta J. Japanese encephalitis in Assam, northeast India. Southeast Asian J. Trop. Med. Public Health 2004, 35(3):618-622.
32. Pothipunya S., Patarapotikul J., Rojanasuphot S., Tharavanij S. Mapping of functional epitopes of Japanese encephalitis virus using monoclonal antibodies. Southeast Asian J. Trop. Med. Public Health 1993, 24(2):277-283.
33. Prabhakar B.S., Haspel M.Y., Notkins A.L. Monoclonal antibody techniques applied to viruses. Methods in Virology 1984, vol. VII.:1-15. Academic press, INC, Orlando.
34. Rey F.A., Heinz F.X., Mandl C., Kunz C., Harrison S.C. The envelope glycoprotein from tick-borne encephalitis virus at 2 A resolution. Nature 1995, 375(6529):291-298.
35. Ritchie D.W., Venkatraman V. Ultra-fast FFT protein docking on graphics processors. Bioinformatics 2010, 26(19):2398-2405.
36. Rodrigues F.M., Ghosh S.N., Banerjee K., Chatterjee A.K., Gupta N.P. A post-epidemic serological survey of humans in Bankura district, West Bengal, following the epidemic of Japanese encephalitis in 1973. Indian J. Med. Res. 1975, 63(10):1478-1485.
37. Roy A., Tandon R., Agarwal S.K., Banerjee G. Seroprevalence of Japanese encephalitis virus infection in Lucknow, Uttar Pradesh. Indian J. Med. Res. 2006, 124(2):211-212.
38. Ryman K.D., Ledger T.N., Weir R.C., Schlesinger J.J., Barrett A.D. Yellow fever virus envelope protein has two discrete type-specific neutralizing epitopes. J. Gen. Virol. 1997, 78(Pt 6):1353-1356.
39. Sapkal G.N., Bondre V.P., Fulmali P.V., Patil P., Gopalkrishna V., Dadhania V., Ayachit V.M., Gangale D., Kushwaha K.P., Rathi A.K., Chitambar S.D., Mishra A.C., Gore M.M. Enteroviruses in patients with acute encephalitis, uttar pradesh, India. Emerg. Infect. Dis. 2009, 15(2):295-298.
40. Sapkal G.N., Wairagkar N.S., Ayachit V.M., Bondre V.P., Gore M.M. Detection and isolation of Japanese encephalitis virus from blood clots collected during the acute phase of infection. Am. J. Trop. Med. Hyg. 2007, 77(6):1139-1145.
41. Scott W.R.P., Hünenberger P.H., Tironi I.G., Mark A.E., Billeter S.R., Fennen J., Torda A.E., Huber T., Krüger P., van Gunsteren W.F. The GROMOS Biomolecular Simulation Program Package. J. Phys. Chem. A 1999, 103(19):3596-3607.
42. Shechter D., Dormann H.L., Allis C.D., Hake S.B. Extraction, purification and analysis of histones. Nat. Protoc. 2007, 2(6):1445-1457.
43. Sircar A., Kim E.T., Gray J.J. RosettaAntibody: antibody variable region homology modeling server. Nucleic Acids Res. 2009, 37(web server issue):W474-W479.
44. Sivasubramanian A., Sircar A., Chaudhury S., Gray J.J. Toward high-resolution homology modeling of antibody Fv regions and application to antibody-antigen docking. Proteins 2009, 74(2):497-514.
45. Sobolev V., Sorokine A., Prilusky J., Abola E.E., Edelman M. Automated analysis of interatomic contacts in proteins. Bioinformatics 1999, 15(4):327-332.
46. Solomon T., Ni H., Beasley D.W., Ekkelenkamp M., Cardosa M.J., Barrett A.D. Origin and evolution of Japanese encephalitis virus in southeast Asia. J. Virol. 2003, 77(5):3091-3098.
47. Umrigar M.D., Pavri K.M. Comparative biological studies on Indian strains of West Nile virus isolated from different sources. Indian J. Med. Res. 1977, 65(5):596-602.
48. van Gunsteren W.F., Berendsen H.J.C. Groningen Molecular Simulation (GROMOS) Library Manual 1987, BIOMOS B.V., Groningen.
49. Wang B., Hua R.H., Tian Z.J., Chen N.S., Zhao F.R., Liu T.Q., Wang Y.F., Tong G.Z. Identification of a virus-specific and conserved B-cell epitope on NS1 protein of Japanese encephalitis virus. Virus Res. 2009, 141(1):90-95.
50. Wiehe K., Pierce B., Mintseris J., Tong W.W., Anderson R., Chen R., Weng Z. ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5. Proteins 2005, 60(2):207-213.
51. Work T.H., Shah K.V. Serological diagnosis of Japanese B type encephalitis in North Arcot District of Madras State, India, with epidemiological notes. Indian J. Med. Res. 1956, 10:582-592.
52. (accessed 04.02.2011). http://www.cdc.gov/ncidod/dvbid/jencephalitis/facts.htm.
53. (accessed 18.08.2010). http://tools.immuneepitope.org/tools/bcell/iedb_input.
54. (accessed 18.08.2010). http://expasy.org/tools/dna.html.
55. NOC software reference: Chen, M.E., Cang, H.X., Nymeyer, H., Dr. Nymeyer's Group, Inst. Mol. Biol., Florida State University. URL: http://noch.sourceforge.net/.