Preferred sequences within a defined cleavage window specify DNA 3′ end-directed cleavages by retroviral RNases H

Journal of Biological Chemistry

Volumn 284, Issue 47, 2009, Pages 32225-32238

  Schultz, Sharon J ^a   Zhang, Miaohua ^a   Champoux, James J ^a  

^a UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

END STRUCTURE; HIV-1 REVERSE TRANSCRIPTASE; HUMAN IMMUNODEFICIENCY VIRUS; MURINE LEUKEMIA VIRUS; PRIMER TERMINUS; REVERSE TRANSCRIPTASES; RNASE H; SEQUENCE DETERMINANTS;

DISEASES; DNA; DNA SEQUENCES; ENZYMES; GENES; NUCLEOTIDES; RNA; SUBSTRATES; VIRUSES; WINDOWS;

NUCLEIC ACIDS;

RIBONUCLEASE H; RNA DIRECTED DNA POLYMERASE;

ARTICLE; BINDING AFFINITY; CONTROLLED STUDY; DNA BINDING; DNA CLEAVAGE; DNA STRUCTURE; GENE ACTIVITY; HUMAN IMMUNODEFICIENCY VIRUS 1; MOLONEY LEUKEMIA ONCOVIRUS; NONHUMAN; PRIORITY JOURNAL; RNA CLEAVAGE; RNA SEQUENCE;

BASE SEQUENCE; CATALYTIC DOMAIN; CRYSTALLOGRAPHY, X-RAY; DNA; DNA, VIRAL; HIV-1; HUMANS; MOLECULAR SEQUENCE DATA; MOLONEY MURINE LEUKEMIA VIRUS; NUCLEIC ACID HYBRIDIZATION; PROTEIN STRUCTURE, TERTIARY; RETROVIRIDAE; RIBONUCLEASE H; RNA, VIRAL;

HUMAN IMMUNODEFICIENCY VIRUS 1; MOLONEY MURINE LEUKEMIA VIRUS;

EID: 70450227323     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M109.043158     Document Type: Article

References (55)

1. Telesnitsky, A., and Goff, S. P. (1993) in Reverse Transcriptase (Skalka, A. M., and Goff, S. P., eds) pp. 49-83, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
2. Arts, E. J., and Le Grice, S. F. (1998) Prog. Nucleic Acid Res. Mol. Biol. 58, 339-393
3. Tanese, N., Telesnitsky, A., and Goff, S. P. (1991) J. Virol. 65, 4387-4397
4. Nikolenko, G. N., Svarovskaia, E. S., Delviks, K. A., and Pathak, V. K. (2004) J. Virol. 78, 8761-8770
5. Repaske, R., Hartley, J. W., Kavlick, M. F., O'Neill, R. R., and Austin, J. B. (1989) J. Virol. 63, 1460-1464
6. Tisdale, M., Schulze, T., Larder, B. A., and Moelling, K. (1991) J. Gen. Virol. 72, 59-66
7. Champoux, J. J. (1993) in Reverse Transcriptase (Skalka, A. M., and Goff, S. P., eds) pp. 103-118, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
8. Champoux, J. J., and Schultz, S. J. (2009) FEBS J. 276, 1506-1516
9. Klumpp, K., and Mirzadegan, T. (2006) Curr. Pharm. Des. 12, 1909-1922
10. Kohlstaedt, L. A., Wang, J., Friedman, J. M., Rice, P. A., and Steitz, T. A. (1992) Science 256, 1783-1790
11. Ding, J., Das, K., Hsiou, Y., Sarafianos, S. G., Clark, A. D., Jr., Jacobo-Molina, A., Tantillo, C., Hughes, S. H., and Arnold, E. (1998) J. Mol. Biol. 284, 1095-1111
12. Huang, H., Chopra, R., Verdine, G. L., and Harrison, S. C. (1998) Science 282, 1669-1675
13. Sarafianos, S. G., Das, K., Tantillo, C., Clark, A. D., Jr., Ding, J., Whitcomb, J. M., Boyer, P. L., Hughes, S. H., and Arnold, E. (2001) EMBO J. 20, 1449-1461
14. Das, D., and Georgiadis, M. M. (2004) Structure 12, 819-829
15. Jacobo-Molina, A., Ding, J., Nanni, R. G., Clark, A. D., Jr., Lu, X., Tantillo, C., Williams, R. L., Kamer, G., Ferris, A. L., Clark, P., Hizi, A., Hughes, S. H., and Arnold, E. (1993) Proc. Natl. Acad. Sci. U.S.A. 90, 6320-6324
16. Schultz, S. J., and Champoux, J. J. (2008) Virus Res. 134, 86-103
17. Fuentes, G. M., Rodríguez-Rodríguez, L., Fay, P. J., and Bambara, R. A. (1995) J. Biol. Chem. 270, 28169-28176
18. Schultz, S. J., Zhang, M., Kelleher, C. D., and Champoux, J. J. (2000) J. Biol. Chem. 275, 32299-32309
19. Finston, W. I., and Champoux, J. J. (1984) J. Virol. 51, 26-33
20. Schultz, S. J., Zhang, M., and Champoux, J. J. (2003) J. Virol. 77, 5275-5285
21. Kelleher, C. D., and Champoux, J. J. (2000) J. Biol. Chem. 275, 13061-13070
22. Schultz, S. J., Zhang, M., and Champoux, J. J. (2004) J. Mol. Biol. 344, 635-652
23. DeStefano, J. J., Mallaber, L. M., Fay, P. J., and Bambara, R. A. (1993) Nucleic Acids Res. 21, 4330-4338
24. DeStefano, J. J., Bambara, R. A., and Fay, P. J. (1993) Biochemistry 32, 6908-6915
25. DeStefano, J. J., Cristofaro, J. V., Derebail, S., Bohlayer, W. P., and Fitzgerald-Heath, M. J. (2001) J. Biol. Chem. 276, 32515-32521
26. Palaniappan, C., Fuentes, G. M., Rodríguez-Rodríguez, L., Fay, P. J., and Bambara, R. A. (1996) J. Biol. Chem. 271, 2063-2070
27. Gopalakrishnan, V., Peliska, J. A., and Benkovic, S. J. (1992) Proc. Natl. Acad. Sci. U.S.A. 89, 10763-10767
28. Götte, M., Fackler, S., Hermann, T., Perola, E., Cellai, L., Gross, H. J., Le Grice, S. F., and Heumann, H. (1995) EMBO J. 14, 833-841
29. Gao, H. Q., Sarafianos, S. G., Arnold, E., and Hughes, S. H. (1999) J. Mol. Biol. 294, 1097-1113
30. Wisniewski, M., Balakrishnan, M., Palaniappan, C., Fay, P. J., and Bambara, R. A. (2000) Proc. Natl. Acad. Sci. U.S.A. 97, 11978-11983
31. Schultz, S. J., Zhang, M., and Champoux, J. J. (2006) J. Biol. Chem. 281, 1943-1955
32. Furfine, E. S., and Reardon, J. E. (1991) J. Biol. Chem. 266, 406-412
33. Kati, W. M., Johnson, K. A., Jerva, L. F., and Anderson, K. S. (1992) J. Biol. Chem. 267, 25988-25997
34. DeStefano, J. J., Mallaber, L. M., Fay, P. J., and Bambara, R. A. (1994) Nucleic Acids Res. 22, 3793-3800
35. Hang, J. Q., Li, Y., Yang, Y., Cammack, N., Mirzadegan, T., and Klumpp, K. (2007) Biochem. Biophys. Res. Commun. 352, 341-350
36. Dash, C., Scarth, B. J., Badorrek, C., Götte, M., and Le Grice, S. F. (2008) Nucleic Acids Res. 36, 6363-6371
37. Peliska, J. A., and Benkovic, S. J. (1992) Science 258, 1112-1118
38. Wisniewski, M., Chen, Y., Balakrishnan, M., Palaniappan, C., Roques, B. P., Fay, P. J., and Bambara, R. A. (2002) J. Biol. Chem. 277, 28400-28410
39. DeStefano, J. J. (1995) Nucleic Acids Res. 23, 3901-3908
40. DeStefano, J. J., Buiser, R. G., Mallaber, L. M., Fay, P. J., and Bambara, R. A. (1992) Biochim. Biophys. Acta 1131, 270-280
41. Yu, H., and Goodman, M. F. (1992) J. Biol. Chem. 267, 10888-10896
42. Bohlayer, W. P., and DeStefano, J. J. (2006) Biochemistry 45, 7628-7638
43. Liu, S., Abbondanzieri, E. A., Rausch, J. W., Le Grice, S. F., and Zhuang, X. (2008) Science 322, 1092-1097
44. Abbondanzieri, E. A., Bokinsky, G., Rausch, J. W., Zhang, J. X., Le Grice, S. F., and Zhuang, X. (2008) Nature 453, 184-189
45. Fisher, T. S., Darden, T., and Prasad, V. R. (2003) J. Mol. Biol. 325, 443-459
46. Fisher, T. S., and Prasad, V. R. (2002) J. Biol. Chem. 277, 22345-22352
47. Mandal, D., Dash, C., Le Grice, S. F., and Prasad, V. R. (2006) Nucleic Acids Res. 34, 2853-2863
48. Paulson, B. A., Zhang, M., Schultz, S. J., and Champoux, J. J. (2007) Virology 366, 361-376
49. Beilhartz, G. L., Wendeler, M., Baichoo, N., Rausch, J., Le Grice, S., and Götte, M. (2009) J. Mol. Biol. 388, 462-474
50. Lim, D., Gregorio, G. G., Bingman, C., Martinez-Hackert, E., Hendrickson, W. A., and Goff, S. P. (2006) J. Virol. 80, 8379-8389
51. Basu, V. P., Song, M., Gao, L., Rigby, S. T., Hanson, M. N., and Bambara, R. A. (2008) Virus Res. 134, 19-38
52. Tramontano, E. (2006) Mini Rev. Med. Chem. 6, 727-737
53. Nowotny, M., Gaidamakov, S. A., Ghirlando, R., Cerritelli, S. M., Crouch, R. J., and Yang, W. (2007) Mol. Cell 28, 264-276
54. Budihas, S. R., Gorshkova, I., Gaidamakov, S., Wamiru, A., Bona, M. K., Parniak, M. A., Crouch, R. J., McMahon, J. B., Beutler, J. A., and Le Grice, S. F. (2005) Nucleic Acids Res. 33, 1249-1256
55. Shinnick, T. M., Lerner, R. A., and Sutcliffe, J. G. (1981) Nature 293, 543-548