Structure of adeno-associated virus type 2 Rep40-ADP complex: Insight into nucleotide recognition and catalysis by superfamily 3 helicases

Proceedings of the National Academy of Sciences of the United States of America

Volumn 101, Issue 34, 2004, Pages 12455-12460

  James, J Anson ^a   Aggarwal, Aneel K ^a   Linden, R Michael ^a   Escalante, Carlos R ^a  

^a MOUNT SINAI SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; ADENOSINE DIPHOSPHATE; ADENOSINE TRIPHOSPHATASE; ADENOSINE TRIPHOSPHATE; CARBOHYDRATE DERIVATIVE; CARRIER PROTEIN; DNA TOPOISOMERASE (ATP HYDROLYSING); HELICASE; MONOMER; NUCLEIC ACID BASE; NUCLEOTIDE; PHOSPHATASE; PHOSPHATE; PROTEIN REP40; RECA PROTEIN; SOLVENT; UNCLASSIFIED DRUG; VIRUS PROTEIN;

ADENO ASSOCIATED VIRUS; ADENO ASSOCIATED VIRUS 2; ARTICLE; BETA SHEET; BINDING SITE; COMPLEX FORMATION; CONFORMATION; CRYSTALLIZATION; MOLECULAR RECOGNITION; NONHUMAN; OLIGOMERIZATION; PRIORITY JOURNAL; PROTEIN FAMILY; SIMIAN VIRUS 40; STRUCTURE ANALYSIS;

ADENOSINE DIPHOSPHATE; BINDING SITES; CRYSTALLOGRAPHY, X-RAY; DEPENDOVIRUS; DNA HELICASES; MODELS, MOLECULAR; PROTEIN BINDING; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY;

ADENO-ASSOCIATED VIRUS; ADENO-ASSOCIATED VIRUS 2; BACTERIA (MICROORGANISMS); DNA VIRUSES; SIMIAE; SIMIAN VIRUS 40;

EID: 4344596245     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0403454101     Document Type: Article

References (69)

1. Samulski, R. J. (2003) Ernst Schering Res. Found. Workshop 43, 25-40.
2. Kotin, R. M., Siniscalco, M., Samulski, R. J., Zhu, X. D., Hunter, L., Laughlin, C. A., McLaughlin, S., Muzyczka, N., Rocchi, M. & Berns, K. I. (1990) Proc. Natl. Acad. Sci. USA 87, 2211-2215.
3. Kotin, R. M., Linden, R. M. & Berns, K. I. (1992) EMBO J. 11, 5071-5078.
4. Samulski, R. J., Zhu, X., Xiao, X., Brook, J. D., Housman, D. E., Epstein, N. & Hunter, L. A. (1991) EMBO J. 10, 3941-3950.
5. Dutheil, N., Shi, F., Dupressoir, T. & Linden, R. M. (2000) Proc. Natl. Acad. Sci. USA 97, 4862-4866.
6. Linden, R. M., Winocour, E. & Berns, K. I. (1996) Proc. Natl. Acad. Sci. USA 93, 7966-7972.
7. Linden, R. M. & Berns, K. I. (2000) Contrib. Microbiol. 4, 68-84.
8. Hickman, A. B., Ronning, D. R., Kotin, R. M. & Dyda, F. (2002) Mol. Cell 10, 327-337.
9. Hickman, A. B., Ronning, D. R., Perez, Z. N., Kotin, R. M. & Dyda, F. (2004) Mol. Cell 13, 403-414.
10. Davis, M. D., Wu, J. & Owens, R. A. (2000) J. Virol. 74, 2936-2942.
11. Cathomen, T., Collete, D. & Weitzman, M. D. (2000) J. Virol. 74, 2372-2382.
12. Yoon, M., Smith, D. H., Ward, P., Medrano, F. J., Aggarwal, A. K. & Linden, R. M. (2001) J. Virol. 75, 3230-3239.
13. Yoon-Robarts, M. & Linden, R. M. (2003) J. Biol. Chem. 278, 4912-4918.
14. Im, D. S. & Muzyczka, N. (1990) Cell 61, 447-457.
15. Snyder, R. O., Im, D. S., Ni, T., Xiao, X., Samulski, R. J. & Muzyczka, N. (1993) J. Virol. 67, 6096-6104.
16. Zhou, X., Zolotukhin, I., Im, D. S. & Muzyczka, N. (1999) J. Virol. 73, 1580-1590.
17. McCarty, D. M., Ni, T. H. & Muzyczka, N. (1992) J. Virol. 66, 4050-4057.
18. Im, D. S. & Muzyczka, N. (1992) J. Virol. 66, 1119-1128.
19. Walker, S. L., Wonderling, R. S. & Owens, R. A. (1997) J. Virol. 71, 6996-7004.
20. Gavin, D. K., Young, S. M., Jr., Xiao, W., Temple, B., Abernathy, C. R., Pereira, D. J., Muzyczka, N. & Samulski, R. J. (1999) J. Virol. 73, 9433-9445.
21. King, J. A., Dubielzig, R., Grimm, D. & Kleinschmidt, J. A. (2001) EMBO J. 20, 3282-3291.
22. Collaco, R. F., Kalman-Maltese, V., Smith, A. D., Dignam, J. D. & Trempe, J. P. (2003) J. Biol. Chem. 278, 34011-34017.
23. James, J. A., Escalante, C. R., Yoon-Robarts, M., Edwards, T. A., Linden, R. M. & Aggarwal, A. K. (2003) Structure (London) 11, 1025-1035.
24. Yang, Q., Kadam, A. & Trempe, J. P. (1992) J. Virol. 66, 6058-6069.
25. Di Pasquale, G. & Stacey, S. N. (1998) J. Virol. 72, 7916-7925.
26. Chiorini, J. A., Zimmermann, B., Yang, L., Smith, R. H., Ahearn, A., Herberg, F. & Kotin, R. M. (1998) Mol. Cell. Biol. 18, 5921-5929.
27. Schmidt, M., Afione, S. & Kotin, R. M. (2000) J. Virol. 74, 9441-9450.
28. Hermonat, P. L., Santin, A. D. & Batchu, R. B. (1996) Cancer Res. 56, 5299-5304.
29. Smith, R. H. & Kotin, R. M. (1998) J. Virol. 72, 4874-4881.
30. Hickson, I. D. (2003) Nat. Rev. Cancer 3, 169-178.
31. Nakayama, H. (2002) Oncogene 21, 9008-9021.
32. Theis, K., Skorvaga, M., Machius, M., Nakagawa, N., Van Houten, B. & Kisker, C. (2000) Mutat. Res. 460, 277-300.
33. Luking, A., Stahl, U. & Schmidt, U. (1998) Crit. Rev. Biochem. Mol. Biol. 33, 259-296.
34. de la Cruz, J., Kressler, D. & Linder, P. (1999) Trends Biochem. Sci. 24, 192-198.
35. Matson, S. W. (1991) Prog. Nucleic Acid Res. Mol. Biol. 40, 289-326.
36. Gorbalenya, A. E. & Kooning, E. V. (1993) Curr. Opin. Struct. Biol. 3, 419-429.
37. Korolev, S., Hsieh, J., Gauss, G. H., Lohman, T. M. & Waksman, G. (1997) Cell 90, 635-647.
38. Singleton, M. R., Sawaya, M. R., Ellenberger, T. & Wigley, D. B. (2000) Cell 101, 589-600.
39. Soultanas, P., Dillingham, M. S., Velankar, S. S. & Wigley, D. B. (1999) J. Mol. Biol. 290, 137-148.
40. Li, D., Zhao, R., Lilyestrom, W., Gai, D., Zhang, R., DeCaprio, J. A., Fanning, E., Jochimiak, A., Szakonyi, G. & Chen, X. S. (2003) Nature 423, 512-518.
41. Otwinowski, Z. & Minor, W. (1997) Methods Enzymol. 276, 307-326.
42. Brunger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J. S., Kuszewski, J., Nilges, M., Pannu, N. S., et al. (1998) Acta Crystallogr. D 54, 905-921.
43. Jones, T. A., Zou, J. Y., Cowan, S. W. & Kjeldgaard. (1991) Acta Crystallogr. A 47, 110-119.
44. DeLano, W. L. (2002) PYMOL (Delano Scientific, San Carlos, CA), Version 0.95.
45. Story, R. M. & Steitz, T. A. (1992) Nature 355, 374-376.
46. Dillingham, M. S., Soultanas, P. & Wigley, D. B. (1999) Nucleic Acids Res. 27, 3310-3317.
47. Kelley, J. A. & Knight, K. L. (1997) J. Biol. Chem. 272, 25778-25782.
48. Leipe, D. D., Wolf, Y. I., Kooning, E. V. & Aravind, L. (2002) J. Mol. Biol. 317, 41-72.
49. Smirnova, I. N., Kasho, V. N. & Faller, L. D. (1998) FEBS Lett. 431, 309-314.
50. Babor, M., Sobolev, V. & Edelman, M. (2002) J. Mol. Biol. 323, 523-532.
51. Moodie, S. L., Mitchell, J. B. & Thornton, J. M. (1996) J. Mol. Biol. 263, 486-500.
52. Ogura, T. & Wilkinson, A. J. (2001) Genes Cells 6, 575-597.
53. Lenzen, C. U., Steinmann, D., Whiteheart, S. W. & Weis, W. I. (1998) Cell 94, 525-536.
54. Datta, S., Ganesh, N., Chandra, N. R., Muniyappa, K. & Vijayan, M. (2003) Proteins 50, 474-485.
55. Gaudet, R. & Wiley, D. C. (2001) EMBO J. 20, 4964-4972.
56. Karpowich, N., Martsinkevich, O., Millen, L., Yuan, Y. R., Dai, P. L., MacVey, K., Thomas, P. J. & Hunt, J. F. (2001) Structure (London) 9, 571-586.
57. Yuan, Y. R., Blecker, S., Martsinkevich, O., Millen, L., Thomas, P. J. & Hunt, J. F. (2001) J. Biol. Chem. 276, 32313-32321.
58. Berger, J. M., Gamblin, S. J., Harrison, S. C. & Wang, J. C. (1996) Nature 379, 225-232.
59. Wigley, D. B., Davies, G. J., Dodson, E. J., Maxwell, A. & Dodson, G. (1991) Nature 351, 624-629.
60. Brino, L., Urzhumtsev, A., Mousli, M., Broner, C., Mitschler, A., Oudet, P. & Moras, D. (2000) J. Biol. Chem. 275, 9468-9475.
61. Smith, R. H., Spano, A. J. & Kotin, R. M. (1997) J. Virol. 71, 4461-4471.
62. Dean, F. B., Borowiec, J. A., Eki, T. & Hurwitz, J. (1992) J. Biol. Chem. 267, 14129-14137.
63. Takahashi, M. & Norden, B. (1994) Adv. Biophys. 30, 1-35.
64. VanLoock, M. S., Yu, X., Yang, S., Lai, A. L., Low, C., Campbell, M. J. & Egelman, E. H. (2003) Structure (London) 11, 187-196.
65. Smith, P. C., Karpowich, N., Millen, L., Moody, J. E., Rosen, J., Thomas, P. J. & Hunt, J. F. (2002) Mol. Cell 10, 139-149.
66. Locher, K. P., Lee, A. T. & Rees, D. C. (2002) Science 296, 1091-1098.
67. Davis, M. D., Wonderling, R. S., Walker, S. L. & Owens, R. A. (1999) J. Virol. 73, 2084-2093.
68. Nicholls, A., Sharp, K. A. & Honig, B. (1991) Proteins 11, 281-296.
69. Diederichs, K. & Karplus, A. (1997) Nat. Struct. Biol. 4, 269-275.