Site-directed mutagenesis and 3D structure modeling reveal the functional role of C-terminal Trp460 of mengoviral RNA-dependent RNA polymerase

Biophysics

Volumn 48, Issue SUPPL1, 2003, Pages

  Alexeevski, A V ^a   Dmitrieva, T M ^a   Shatskaya, G S ^a   Markouchevitch, D ^b   Tolskaya, E A ^c  

^a MOSCOW STATE UNIVERSITY   (Russian Federation)

^b UNIV LILLE   (France)

^c CHUMAKOV INSTITUTE OF POLIOMYELITIS AND VIRAL ENCEPHALITIDES   (Russian Federation)

Author keywords

Functionally essential residues; Homolody modeling; Sequence and structure analysis

Indexed keywords

MENGO VIRUS; POLIOVIRUS; THEILER'S ENCEPHALOMYELITIS VIRUS;

EID: 33750568984     PISSN: 00063509     EISSN: 15556654     Source Type: Journal    
DOI: None     Document Type: Article

References (36)

1. King, A.M.Q., Brown, F., Christian, P., Hovi, T., Hyypia, T., Knowles, N.J., Lemon, S.M., Minor, P.D., Palmenberg, A.C., Skem, T., and Stanway, G., Picornaviridae. In "Virus Taxonomy. Seven Report of the International Commitee for the Taxonomy of Viruses," Acad. Press, NY, 2000, pp. 657-678.
2. Wimmer, E., Hellen, C.U.T., and Cao, X., Genetics of poliovirus, Annu. Rev. Genet., 1993, vol. 27, pp. 353-436.
3. Kitamura, N., Semler, B.L., Rothberg, P.G., Larsen, G.R., Adler, C.J., Dorner, A.J., Emini, E.A., Hanecak, R., Lee, J.J., van der Werf, S., Anderson, C.W., and Wimmer, E., Primary structure, gene organization, polypeptide expression of poliovirus RNA, Nature, 1981, vol. 291, pp. 547-553.
4. Jacobson, M.F., and Baltimore, D., Polypeptide cleavages in the formation of poliovirus proteins, Proc. Natl. Acad. Sci. USA, 1968, vol. 61, pp. 77-84.
5. Paul, A.V., Possible unifying mechanism of picornavirus RNA replication, Semler, B.L. and Wimmer, E., Eds., Molecular biology of picornaviruses, ASM Press, Washington, DC, 2002, pp. 227-246.
6. Barton, D.J., Morasco, B.J., Smerage, L.E., and Flanegan, J.B., Poliovirus RNA replication and genetic complementation in cell-free reactions, Semler, B.L. and Wimmer, E., Eds., Molecular biology of picornaviruses, ASM Press, Washington, DC, pp. 461-469.
7. Morrow, C.D., Lubinski, J., Hocko, J., Gibbons, G.F., and Dasgupta, A., Purification of a soluble template-dependent rhinovirus RNA polymerase and its dependance on the host cell protein for viral RNA synthesis, J. Virol., 1985, vol. 53, pp. 266-272.
8. Otsuka, J., Kikuchi, N., and Kojima, S., Similarity relations of DNA and RNA polymerases investigated by the principal component analysis of amino acid sequences, Biochim. Biophys. Acta, 1999, vol. 1434, pp. 221-247.
9. Argos, P., A sequence motif in many polymerases, Nucleic Acid Res., 1988, vol. 16, pp. 9909-9916.
10. Koonin, E.V., The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses, J. Gen. Virol., 1991, vol. 72, pp. 2197-2206.
11. Poch, O., Sauvaget, L, Delarue, M., and Tordo, N., Identification of four conserved motifs among the RNA-dependent polymerase encoding elements, EMBO J., 1989, vol. 8, pp. 3867-3874.
12. Sankar, S. and Porter, A.G., Point mutations which drastically affect the polymerisation activity of encephalomyocarditis virus RNA-dependent RNA polymerase correspond to the active site of E. coli DNA polymerase I, J. Biol. Chem., 1992, vol. 268, pp. 10168-10176.
13. Jablonski, S.A. and Morrow, C.D., Enzymatic activity of poliovirus RNA polymerases with mutations at the tyrosine residue of the conserved YGDD motif: isolation and characterization of polioviruses containing RNA polymerases with FGDD and MGDD sequences, J. Virol., 1993, vol. 67, pp. 373-381.
14. Bressanelli, S., Tomei, L., Roussel, A., Incitti, I., Vitale, R.L., Mathieu, M., De Francesco, R., and Rey, F.A., Crystal structure of the RNA-dependent RNA polymerase of hepatitis C virus, Proc. Natl. Acad. Sci. USA, 1999, vol. 96, pp. 13034-13039.
15. Butcher, S.J., Makeyev, E.V., Grimes, J.M., Stuart, D.I., and Bamford, D.H., 2001, Crystallization and preliminary X-ray chrystallographic studies on the bacteriophage φ6 RNA-dependent RNA polymerase, Acta Crystallogr. D., 2000, vol. 56, pp. 1473-1475.
16. Hansen, J.L., Long, A.M. and Schultz, S.C., Structure of the RNA-dependent RNA polymerase of poliovirus, Structure, 1997, vol. 5, pp. 1109-1122.
17. Kenneth, K.S.N., Cherney, M.M., Vazquez, A.L., Machin, A., Alonso, J.M.M., Parra, F., and James, M.N.G., Crystal structures of active and inactive conformations of a caliciviral RNA-dependent RNA polymerase, J. Biol. Chem., 2002, vol. 277, pp. 1381-1387.
18. Lesburg, C.A., Cable, M.B., Ferrari, E., Hong, Z., Mannarino, A.F., and Weber, P.C., Crystal structure of the RNA-dependent RNA polymerase from hepatitis C virus, reveals a fully encircled active site, Nat. Struct. Biol., 1999, vol. 6, pp. 937-943.
19. Ago, H., Adachi, T., Yoshida, A., Yamamoto, M., Habuka, N., Yatsunami, K., and Miyano, M., Crystal structure of the RNA-dependent RNA polymerase of hepatitis C virus, Structure Fold Des., 1999, vol. 7, pp. 1417-1426.
20. O'Reilly, E.K. and Cheng Kao, C., Analysis of RNA-dependent RNA polymerase structure and function as guided by known polymerase structures and computer predictions, Virology, 1998, vol. 252, pp. 287-303.
21. Joyce, C.M., and Steitz, T.A., Function and structure relationships in DNA polymerases, Annu. Rev. Biochem., 1994, vol. 63, pp. 777-822.
22. Kohlstaedt, L.A., Wang, J., Friedman, J.M., Rice, P.A., and Steitz, T.A., Crystal structure at 3.5 Å resolution of HIV-1 reverse transcriptase complexed with an inhibitor, Science, 1992, vol. 256, pp. 1783-1790.
23. Ollis, D.L., Brick, P., Hamlin, R., Xuong, N.G., and Steitz, T.A., Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP, Nature, 1985, vol. 313, pp. 762-766.
24. Sousa, R., Chung, Y.J., Rose, J.P., and Wang, B.C., Crystal structure of bacteriophage T7 RNA polymerase at 3.3 resolution, Nature, 1993, vol. 364, pp. 593-599.
25. Jager, J. and Pata, J.D., Getting a grip: polymerases and their substrate complexes, Structure Biology, 1999, vol. 9, pp. 21-28.
26. Duke, G.M. and Palmenberg, A.C., Cloning and synthesis of infectious cardiovirus RNAs containing short, discrete poly(C) tracts, J. Virol., 1989, vol. 63, pp. 1822-1826.
27. Kunkel, T.A., Rapid and efficient site-specific mutagenesis without phenotypic selection, Proc. Natl. Acad. Sci. USA, 1985, vol. 82, p. 488.
28. Nicholas, K.B., Nicholas, H.B.Jr., and Deerfield, D.W.II, GeneDoc: Analysis and Visualization of Genetic Variation, EMBNEW. NEWS, 1997, vol. 4, p. 14.
29. Roger Sayle and E. James Milner-White, "RasMol: Biomolecular graphics for all", Trends in Biochemical Sciences (TIBS), 1995, vol. 20, no. 9, p. 374.
30. Guex, N. and Peitsch, M.C., SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling, Electrophoresis, 1997, vol. 18, pp. 2714-2723.
31. Vriend, G., WHAT IF: A molecular modeling and drug design program, J. Mol. Graph., 1990, vol. 8, pp. 52-56.
32. Gelfand, I., Kister, A., Kulikowski, C., and Stoyanov, O., Geometric invariant core for the V(L) and V(H) domains of immunoglobulin molecules, Protein Eng., 1998, vol. 11, no. 11, pp. 1015-1025.
33. Pata, J.D., Schultz, S.C., and Kirkegaard, K., Functional oligomerization of poliovirus RNA-dependent RNA polymerase, RNA, 1995, vol. 1, pp. 466-477.
34. Cameron, C.E., Gohara, D.W., and Arnold, J.J., Poliovirus RNA-Dependent RNA Polymerase (3D-pol): Structure, Function, and Mechanism, 2002, pp. 255-267, Semler, B.L. and Wimmer, E., Eds., Molecular biology of picornaviruses. ASM Press, Washington, DC.
35. Hobson, S.D., Rosenblum, E.S., Richards, O.C., Richmond, K., Kirkegaard, K., and Schultz, S.C., Oligomeric structures of poliovirus polymerase are important for function, EMBO J., 2001, vol. 20, pp. 1153-1163.
36. Spirin, A.S., RNA polymerase as a molecular machine. Mol. Biol., 2002, vol. 36, no. 2, pp. 208-215.