RNA-protein interactions: Involvement of NS3, NS5, and 3' noncoding regions of Japanese encephalitis virus genomic RNA

Journal of Virology

Volumn 71, Issue 5, 1997, Pages 3466-3473

  Chen, Chun Jung ^a   Kuo, Ming Der ^a   Chien, Li Jung ^a   Hsu, Shu Ling ^a   Wang, Yu Ming ^a   Lin, Ju Hung ^a  

^a NATIONAL DEFENSE MEDICAL CENTER   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL CELL; ARTICLE; CROSS LINKING; IMMUNOPRECIPITATION; JAPANESE ENCEPHALITIS VIRUS; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; PROTEIN RNA BINDING; PROTEIN SYNTHESIS REGULATION; RNA REPLICATION; RNA SYNTHESIS; VIRUS ASSEMBLY; VIRUS GENOME; VIRUS REPLICATION;

EID: 0031001919     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.71.5.3466-3473.1997     Document Type: Article

References (67)

1. Andino, R., G. E. Rieckhof, and D. Baltimore. 1990. A functional ribonucleoprotein complex forms around the 5′ end of poliovirus RNA. Cell 63:369-380.
2. Bartholomeusz, A. I., and P. J. Wright. 1993. Synthesis of dengue virus RNA in vitro: initiation and the involvement of proteins NS3 and NS5. Arch. Virol. 128:111-121.
3. Barton, D. J., S. G. Sawicki, and D. L. Sawicki. 1991. Solubilization and immunoprecipitation of alphavirus replication complexes. J. Virol. 65:1496-1506.
4. Behrens, S. E., L. Tomei, and R. D. Francesco. 1996. Identification and properties of the RNA-dependent RNA polymerase of hepatitis C virus. EMBO J. 15:12-22.
5. Blackwell, J. L., and M. A. Brinton. 1995. BHK cell proteins that bind to the 3′ stem-loop structure of the West Nile virus genome RNA. J. Virol. 69: 5650-5658.
6. Blumenthal, J. 1979. Qβ RNA replicase and protein synthesis elongation factors EF-Tu and EF-Ts. Methods Enzymol. 60:628-638.
7. Brinton, M. A. 1986. Replication of flaviviruses, p. 327-374. In S. Schlesinger and M. Schlesinger (ed.), The Togaviridae and Flaviviridae. Plenum Press, New York, N.Y.
8. Brinton, M. A., A. V. Fernandez, and J. H. Dispoto. 1986. The 3′-nucleotides of flavivirus genomic RNA form a conserved secondary structure. Virology 153:113-121.
9. Brinton, M. A., and J. H. Dispoto. 1987. Sequence and secondary structure analysis of the 5′ terminal region of flavivirus genome RNA. Virology 162: 290-299.
10. Cardiff, R. D., J. N. Dalrymple, and P. K. Russell. 1973. RNA polymerase in group B arbovirus (dengue-2) infected cells. Arch. Gesamte Virusforsch. 40:392-396.
11. Chambers, T. J., C. S. Hahn, R. Galler, and C. M. Rice. 1990. Flavivirus genome organization, expression and replication. Annu. Rev. Microbiol. 44:649-688.
12. Chang, M. F., C. H. Chen, S. L. Lin, C. J. Chen, and S. C. Chang. 1995. Functional domains of delta antigens and viral RNA required for RNA packaging of hepatitis delta virus. J. Virol. 69:2508-2514.
13. Chang, M. F., C. J. Chen, and S. C. Chang. 1994. Mutational analysis of delta antigen: effect on assembly and replication of hepatitis delta virus. J. Virol. 68:646-653.
14. Chang, M. F., C. Y. Sun, C. J. Chen, and S. C. Chang. 1993. Functional motifs of delta antigen essential for RNA binding and replication of hepatitis delta virus. J. Virol. 67:2529-2536.
15. Chu, P. W. G., and E. G. Westaway. 1985. Replication strategy of Kunjin virus: evidence for recycling role of replicative form RNA as template in semiconservative and asymmetric replication. Virology 140:68-79.
16. Chu, P. W. G., and E. G. Westaway. 1987. Characterization of Kunjin virus RNA-dependent RNA polymerase: reinitiation of synthesis in vitro. Virology 157:330-337.
17. Cianci, C., L. Tiley, and M. Krystal. 1995. Differential activation of the influenza virus polymerase via template RNA binding. J. Virol. 69:3995-3999.
18. Cleaves, G. R., T. E. Ryas, and R. W. Schlesinger. 1981. Identification and characterization of type 2 dengue virus replicative intermediate and replicative form RNAs. Virology 111:73-83.
19. Cui, T., S. Sankar, and A. G. Porter. 1993. Binding of encephalomyocarditis virus RNA polymerase to the 3′-noncoding region of the viral RNA is specific and requires the 3′-poly(A) tail. J. Biol. Chem. 268:26093-26098.
20. Cullen, B. R. 1990. The HIV-1 Tat protein: an RNA sequence-specific processivity factor? Cell 63:655-657.
21. Dam, E. T., K. Pleij, and D. Draper. 1992. Structural and functional aspects of RNA pseudoknots. Biochemistry 31:11665-11676.
22. Dasgupta, A. 1983. Purification of host factor required for in vitro transcription of poliovirus RNA. Virology 127:245-251.
23. del Angel, R. M., A. G. Papavassiliou, C. Fernandez-Thomas, S. J. Silverstein, and V. R. Racaniello. 1989. Cell proteins bind to multiple sites within the 5′ untranslated region of poliovirus RNA. Proc. Natl. Acad. Sci. USA 86:8299-8303.
24. Dildine, S. L., and B. L. Semler. 1992. Conservation of RNA-protein interactions among picornaviruses. J. Virol. 66:4364-4376.
25. Duke, G. M., M. A. Hoffman, and A. C. Palmenberg. 1992. Sequence and structural elements that contribute to efficient encephalomyocarditis virus RNA translation. J. Virol. 66:1602-1609.
26. Furuya, T., and M. M. C. Lai. 1993. Three different cellular proteins bind to complementary sites on the 5′-end-positive and 3′-end-negative strands of mouse hepatitis virus RNA. J. Virol. 67:7215-7222.
27. Gorbalenya, A. E., A. P. Donchenko, E. V. Koonin, and V. M. Blinov. 1989. N-terminal domains of putative helicases of flavi- and pestiviruses may be serine protease. Nucleic Acids Res. 17:3889-3897.
28. Grun, J. B., and M. A. Brinton. 1986. Characterization of West Nile virus RNA-dependent RNA polymerase and cellular terminal adenylyl and uridylyl transferases in cell-free extracts. J. Virol. 60:1113-1124.
29. Haller, A. A., and B. L. Semler. 1992. Linker scanning mutagenesis of the internal ribosome entry site of poliovirus RNA. J. Virol. 66:5075-5086.
30. Hayes, R. J., and K. W. Buck. 1990. Complete replication of a eukaryotic virus RNA in vitro by a purified RNA-dependent RNA polymerase. Cell 63:363-368.
31. Jacobson, S. J., D. A. M. Konings, and P. Sarnow. 1993. Biochemical and genetic evidence for a pseudoknot structure at the 3′ terminus of the poliovirus RNA genome and its role in viral RNA amplification. J. Virol. 67:2961-2971.
32. Janda, M., and P. Ahlquist. 1993. RNA-dependent replication, transcription, and persistence of brome mosaic virus RNA replicons in S. cerevisiae. Cell 72:961-970.
33. Jang, S. K., and E. Wimmer. 1990. Cap-independent translation of encephalomyocarditis virus RNA: structural element of the internal ribosomal entry site and involvement of a cellular 57-kD RNA binding protein. Genes Dev. 4:1560-1572.
34. Kapoor, M., L. Zhang, M. Ramachandra, J. Kusukawa, K. E. Ebner, and R. Padmanabhan. 1995. Association between NS3 and NS5 proteins of dengue virus type 2 in the putative RNA helicase is linked to differential phosphorylation of NS5. J. Biol. Chem. 270:19100-19106.
35. Kuhn, R. J., and E. Wimmer. 1987. In D. J. Rowlands, M. A. Mayo, and B. W. J. Mahy (ed.), The molecular biology of the positive strand RNA viruses, p. 37-51. Academic Press, Ltd., London, United Kingdom.
36. Kuo, M.-D. et al. Unpublished data.
37. Landers, T. A., T. Blumenthal, and K. Weber. 1974. Function and structure in ribonucleic acid phage Qβ ribonucleic acid replicase. J. Biol. Chem. 249:5801-5808.
38. Lee, C. Z., J. H. Lin, M. Chao, K. McKnight, and M. M. C. Lai. 1993. RNA-binding activity of hepatitis delta antigen involves two arginine-rich motifs and is required for hepatitis delta virus RNA replication. J. Virol. 67:2221-2227.
39. Leopardi, R., V. Hukkanen, R. Vainionpaa, and A. A. Salmi. 1993. Cell proteins bind to sites within the 3′ noncoding region of the positive-strand leader sequence of measles virus RNA. J. Virol. 67:785-790.
40. Lin, J. H., M. F. Chang, S. C. Baker, S. Govindarajan, and M. M. C. Lai. 1990. Characterization of hepatitis delta antigen: specific binding to hepatitis delta virus RNA. J. Virol. 64:4051-4058.
41. Mattaj, I. W. 1993. RNA recognition: a family matter? Cell 73:837-838.
42. Meerovitch, K., J. Pelleiter, and N. Sonenberg. 1989. A cellular protein that binds to the 5′ noncoding region of poliovirus RNA: implications for internal translation initiation. Genes Dev. 3:1026-1034.
43. Meerovitch, K., R. Nicholson, and N. Sonenberg. 1991. In vitro mutational analysis of cis-acting RNA translational elements within the poliovirus type 2 5′ untranslated region. J. Virol. 65:5895-5901.
44. Meerovitch, K., Y. V. Svitkin, H. S. Lee, F. Lejbkowicz, D. J. Kenan, E. K. L. Chan, V. I. Agol, J. D. Keene, and N. Sonenberg. 1993. La autoantigen enhances and corrects aberrant translation of poliovirus RNA in reticulocyte lysate. J. Virol. 67:3798-3807.
45. Najita, L., and P. Sarnow. 1990. Interaction of a cellular 50-kD protein with an RNA hairpin in the 5′ noncoding region of the poliovirus genome: evidence for a transient covalent RNA-protein bond. Proc. Natl. Acad. Sci. USA 87:5846-5850.
46. Nakhasi, H. L., T. A. Rouault, D. J. Haile, T. Y. Lui, and R. D. Klausner. 1990. Specific high-affinity binding of host cell proteins to the 3′ region of rubella virus RNA. New Biol. 2:255-264.
47. Nakhasi, H. L., X. Q. Cao, T. A. Rouault, and T. Y. Lui. 1991. Specific binding of host cell proteins to the 3′-terminal stem-loop structure of rubella virus negative-strand RNA. J. Virol. 65:5961-5967.
48. O'Neill, R., and P. Palese. 1994. cis-acting signals and trans-acting factors involved in influenza virus RNA synthesis. Infect. Agents Dis. 3:77-84.
49. Pardigon, N., and J. H. Strauss. 1992. Cellular proteins bind to the 3′ end of Sindbis virus minus-strand RNA. J. Virol. 66:1007-1015.
50. Pardigon, N., E. Lenches, and J. H. Strauss. 1993. Multiple binding sites for cellular proteins in the 3′ end of Sindbis alphavirus minus-sense RNA. J. Virol. 67:5003-5011.
51. Pogue, G. P., and T. C. Hall. 1992. The requirement for a 5′ stem-loop structure in brome mosaic virus replication supports a new model for viral positive-strand RNA initiation. J. Virol. 66:674-684.
52. Quadt, R., and E. M. J. Jaspars. 1990. Purification and characterization of brome mosaic virus RNA-dependent RNA polymerase. Virology 178:189-194.
53. Quadt, R., C. C. Kao, K. S. Browning, R. P. Hershberger, and P. Ahlquist. 1993. Characterization of a host protein associated with brome mosaic virus RNA-dependent RNA polymerase. Proc. Natl. Acad. Sci. USA 90:1498-1502.
54. Qureshi, A. A., and D. W. Trent. 1972. Saint Louis encephalitis viral ribonucleic acid replication complex. J. Virol. 9:565-573.
55. Rice, C. M., E. M. Lenches, S. R. Eddy, S. J. Shin, R. L. Sheets, and J. H. Strauss. 1985. Nucleotide sequence of yellow fever virus: implications for flavivirus gene expression and evolution. Science 229:726-735.
56. Richard, O. C., and E. Ehrenfeld. 1990. Poliovirus RNA replication. Curr. Top. Microhiol. Immunol. 161:89-119.
57. Roumaniuk, P. J., P. Lowary, H.-N. Wu, G. Stormo, and O. C. Uhlenbeck. 1987. RNA binding site on R17 coat protein. Biochemistry 26:1563-1568.
58. Simoes, E. A. F., and P. Sarnow. 1991. An RNA hairpin at the extreme 5′ end of the poliovirus RNA genome modulates viral translation in human cells. J. Virol. 65:913-921.
59. Stollar, V., R. W. Schlesinger, and T. M. Stevens. 1967. Studies on the nature of dengue viruses. III. RNA synthesis in cells infected with type 2 dengue virus. Virology 33:650-658.
60. Sumiyoshi, H., C. Mori, I. Fuke, K. Morita, S. Kuhara, J. Kondou, Y. Kikuchi, H. Nagamatu, and A. Igarashi. 1987. Complete nucleotide sequence of Japanese encephalitis virus genome RNA. Virology 161:497-510.
61. Takeda, H., A. Oya, K. Hashimoto, T. Yasuda, and A. A. Yamada. 1978. Association of virus specific replicative ribonucleic acid with nuclear membrane in chick embryo cells infected with Japanese encephalitis virus. J. Gen. Virol. 38:281-291.
62. Takegami, T., M. Washizu, and K. Yasui. 1986. Nucleotide sequence at the 3′ end of Japanese encephalitis virus genomic RNA. Virology 152:483-486.
63. Tan, B. H., J. F. Richard, J. Sugrue, E. H. Yap, Y. C. Chan, and Y. H. Tan. 1996. Recombinant dengue type 1 virus NS5 protein expressed in Escherichia coli exhibits RNA-dependent RNA polymerase activity. Virology 216:317-325.
64. Wengler, G., and G. Wengler. 1981. Terminal sequences of the genome and replicative-form RNA of the flavivirus West Nile virus: absence of poly(A) and possible role in RNA replication. Virology 113:544-555.
65. Wengler, G., and G. Wengler. 1991. The carboxy-terminal part of the NS3 protein of the West Nile flavivirus can be located as soluble protein after proteolytic cleavage and represents an RNA-stimulated NTPase. Virology 184:309-319.
66. Yen, J. H., S. C. Chang, C. R. Hu, S. C. Chu, S. S. Lin, Y. S. Hsieh, and M. F. Chang. 1995. Cellular proteins specifically bind to the 5′-noncoding region of hepatitis C virus RNA. Virology 208:723-732.
67. Zebovitz, E., J. K. L. Leong, and S. C. Doughty. 1974. Involvement of the host cell nuclear envelope membranes in the replication of Japanese encephalitis virus. Infect. Immun. 10:204-211.