The endonuclease domain of bacteriophage terminases belongs to the resolvase/integrase/ribonuclease H superfamily: A bioinformatics analysis validated by a functional study on bacteriophage T5

Journal of Biological Chemistry

Volumn 281, Issue 9, 2006, Pages 5829-5836

  Ponchon, Luc ^a,c   Boulanger, Pascale ^a   Labesse, Gilles ^b   Letellier, Lucienne ^a  

^a INSTITUTE FOR INTEGRATIVE BIOLOGY OF THE CELL I2BC   (France)

^b INSERM   (France)

^c UNIVERSITÉ PARIS DESCARTES   (France)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; ENZYME KINETICS; MOLECULAR BIOLOGY; VIRUSES;

ASPARTATES; ENDONUCLEASE; RIBONUCLEASE;

BACTERIOPHAGES;

ADENOSINE TRIPHOSPHATASE; ASPARTIC ACID; CROSSOVER JUNCTION ENDODEOXYRIBONUCLEASE; ENDONUCLEASE; INTEGRASE; RESOLVASE; DEOXYRIBONUCLEASE; ESCHERICHIA COLI PROTEIN; RIBONUCLEASE H; RUVC PROTEIN, E COLI; TERMINASE;

ARTICLE; BACTERIOPHAGE; CARBOXY TERMINAL SEQUENCE; CATALYSIS; ENZYME ACTIVITY; IN VITRO STUDY; IN VIVO STUDY; MUTATIONAL ANALYSIS; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE ANALYSIS; AMINO ACID SEQUENCE; BIOLOGY; CHEMICAL STRUCTURE; CHEMISTRY; ENZYMOLOGY; GENETICS; METABOLISM; MOLECULAR GENETICS; PROTEIN FOLDING; PROTEIN TERTIARY STRUCTURE; SEQUENCE ALIGNMENT;

AMINO ACID SEQUENCE; COMPUTATIONAL BIOLOGY; ENDODEOXYRIBONUCLEASES; ESCHERICHIA COLI PROTEINS; HIV INTEGRASE; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PROTEIN FOLDING; PROTEIN STRUCTURE, TERTIARY; RIBONUCLEASE H, CALF THYMUS; SEQUENCE ALIGNMENT; SIPHOVIRIDAE;

EID: 33646851613     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M511817200     Document Type: Article

References (48)

1. Feiss, M., and Catalano, C. (2005) in Viral Genome Packaging Machines (Catalano, C., ed) pp. 5-39, Kluwer Academic / Plenum Publishers, New York
2. Earnshaw, W. C., and Casjens, S. R. (1980) Cell 21, 319-331
3. Catalano, C. E., Cue, D., and Feiss, M. (1995) Mol. Microbiol. 16, 1075-1086
4. Black, L. W. (1989) Annu. Rev. Microbiol. 43, 267-292
5. Morita, M., Tasaka, M., and Fujisawa, H. (1995) Virology 211, 516-524
6. Przech, A. J., Yu, D., and Weller, S. K. (2003) J. Virol. 77, 9613-9621
7. Dhar, A., and Feiss, M. (2005) J. Mol. Biol. 347, 71-80
8. Maluf, N. K., Yank, Q., and Catalano, C. E. (2005) J. Mol. Biol. 347, 523-542
9. Catalano, C. E. (2000) Cell. Mol. Life Sci. 57, 128-148
10. Kanamaru, S., Kondabagil, K., Rossmann, M. G., and Rao, V. B. (2004) J. Biol. Chem. 279, 40795-40801
11. Rao, V. B., and Black, L. W. (2005) in Viral Genome Packaging Machines (Catalano, C., ed) pp. 40-58, Kluwer Academic/Plenum Publishers, New York
12. Droge, A., and Tavares, P. (2005) in Bacteriophage SPP1 DNA Packaging (Catalano, C., ed) pp. 89-99, Kluwer Academic/Plenum Publishers, New York
13. Gual, A., Camacho, A. G., and Alonso, J. C. (2000) J. Biol. Chem. 275, 35311-35319
14. Koonin, E. V. (1993) J. Mol. Biol. 229, 1165-1174
15. Rentas, F. J., and Rao, V. B. (2003) J. Mol. Biol. 334, 37-52
16. Davidson, A. R., and Gold, M. (1992) Virology 189, 21-30
17. Hwang, Y., Catalano, C. E., and Feiss, M. (1996) Biochemistry 35, 2796-2803
18. Bhattacharyya, S. P., and Rao, V. B. (1993) Virology 196, 34-44
19. Nishino, T., and Morikawa, K. (2002) Oncogene 21, 9022-9032
20. Rhoades, M., and Rhoades, E. A. (1972) J. Mol. Biol. 69, 187-200
21. Wang, J., Jiang, Y., Vincent, M., Sun, Y., Yu, H., Bao, Q., Kong, H., and Hu, S. (2005) Virology 332, 45-65
22. Everett, R. D. (1981) J. Gen. Virol. 52, 25-38
23. McCorquodale, J. D., and Warner, H. R. (1988) in The Viruses (Calendar, R., ed) Vol. 1, pp. 439-476, Plenum Press, New York
24. Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (1997) Nucleic Acids Res. 25, 3389-3402
25. Kelley, L. A., MacCallum, R. M., and Sternberg, M. J. (2000) J. Mol. Biol. 299, 499-520
26. Shi, J., Blundell, T. L., and Mizuguchi, K. (2001) J. Mol. Biol. 310, 243-257
27. McGuffin, L. J., Bryson, K., and Jones, D. T. (2000) Bioinformatics 16, 404-405
28. Karplus, K., Barrett, C., and Hughey, R. (1998) Bioinformatics 14, 846-856
29. Douguet, D., and Labesse, G. (2001) Bioinformatics 17, 752-753
30. Labesse, G., and Mornon, J. (1998) Bioinformatics 14, 206-211
31. Dunbrack, R. L., Jr., and Karplus, M. (1993) J. Mol. Biol. 230, 543-574
32. Sali, A., and Blundell, T. L. (1993) J. Mol. Biol. 234, 779-815
33. Sippl, M. J. (1993) Proteins 17, 355-362
34. Eisenberg, D., Luthy, R., and Bowie, J. U. (1997) Methods Enzymol. 277, 396-404
35. Catherinot, V., and Labesse, G. (2004) Bioinformatics 20, 3694-3696
36. Kabsch, W., and Sander, C. (1983) Biopolymers 22, 2577-2637
37. Ansaldi, M., Lepelletier, M., and Mejean, V. (1996) Anal. Biochem. 234, 110-111
38. Boulanger, P., le Maire, M., Bonhivers, M., Dubois, S., Desmadril, M., and Letellier, L. (1996) Biochemistry 35, 14216-14224
39. Mitchell, M. S., Matsuzaki, S., Imai, S., and Rao, V. B. (2002) Nucleic Acids Res. 30, 4009-4021
40. Mitchell, M. S., and Rao, V. B. (2004) Virology 321, 217-221
41. Parris, W., Rubinchik, S., Yang, Y. C., and Gold, M. (1994) J. Biol. Chem. 269, 13564-13574
42. Yang, W., and Steitz, T. A. (1995) Structure 3, 131-134
43. Combet, C., Blanchet, C., Geourjon, C., and Deleage, G. (2000) Trends Biochem. Sci. 25, 147-150
44. Rice, P., Craigie, R., and Davies, D. R. (1996) Curr. Opin. Struct. Biol. 6, 76-83
45. Nowotny, M., Gaidamakov, S. A., Crouch, R. J., and Yang, W. (2005) Cell 121, 1005-1016
46. Hwang, Y., and Feiss, M. (1996) J. Mol. Biol. 261, 524-535
47. Saito, A., Iwasaki, H., Ariyoshi, M., Morikawa, K., and Shinagawa, H. (1995) Proc. Natl. Acad. Sci. U. S. A. 92, 7470-7474
48. Ponchon, L., Mangenot, S., Boulanger, P., and Letellier, L. (2005) Biochim. Biophys. Acta 1724, 255-261