Species-specific differences in the operational RNA code for aminoacylation of tRNA(Pro)

Biochemistry

Volumn 37, Issue 23, 1998, Pages 8605-8613

  Stehlin, Catherine ^a   Burke, Brian ^a   Yang, Fan ^a   Liu, Hongjian ^a   Shiba, Kiyotaka ^b   Musier Forsyth, Karin ^a  

^a University of Minnesota   (United States)

^b CANCER INSTITUTE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

PROLINE TRANSFER RNA; RNA;

AMINOACYLATION; ANTICODON; ARTICLE; BASE PAIRING; CONTROLLED STUDY; ESCHERICHIA COLI; EUKARYOTE; GENETIC CODE; HUMAN; NONHUMAN; PRIORITY JOURNAL; SPECIES DIFFERENCE; TAXONOMY;

ACYLATION; AMINO ACID SEQUENCE; AMINO ACYL-TRNA SYNTHETASES; ANIMALS; ANTICODON; BASE SEQUENCE; CATTLE; EVOLUTION, MOLECULAR; GENETIC CODE; HUMANS; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; RNA, TRANSFER, PRO; SEQUENCE ANALYSIS; SPECIES SPECIFICITY;

ARCHAEA; BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; EUKARYOTA;

EID: 0032499642     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi980364s     Document Type: Article

References (56)

1. Eriani, G., Delarue, M., Poch, O., Gangloff, J., and Moras, D. (1990) Nature 347, 203-206.
2. Cusack, S., Härtlein, M., and Leberman, R. (1991) Nucleic Acids Res. 19, 3489-3498.
3. McClain, W. H. (1993) J. Mol. Biol. 234, 257-280.
4. Saks, M. E., Sampson, J. R., and Abelson, J. N. (1994) Science 263, 191-197.
5. Hamann, C. S., and Hou, Y.-M. (1995) Biochemistry 34, 6527-6532.
6. Quinn, C. L., Tao, N., and Schimmel, P. (1995) Biochemistry 34, 12489-12495.
7. Martinis, S. A., and Schimmel, P. (1996) in Escherichia coli and Salmonella (Neidhardt, F., Ed.) 2nd ed., pp 887-901, ASM Press, Washington, DC.
8. Schimmel, P., Giegé, R., Moras, D., and Yokoyama, S. (1993) Proc. Natl. Acad. Sci. U.S.A. 90, 8763-8768.
9. Crothers, D. M., Seno, T., and Söll, D. G. (1972) Proc. Natl. Acad. Sci. U.S.A. 69, 3063-3067.
10. Hou, Y.-M. (1997) Chem. Biol. 4, 93-96.
11. Sprinzl, M., Horn, C., Brown, M., Ioudovitch, A., and Steinberg, S. (1998) Nucleic Acids Res. 26, 148-153.
12. Shiba, K., Schimmel, P., Motegi, H., and Noda, T. (1994) J. Biol. Chem. 269, 30049-30055.
13. Hipps, D., Shiba, K., Henderson, B., and Schimmel, P. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 5550-5552.
14. McClain, W. H., and Foss, K. (1988) J. Mol. Biol. 202, 697-709.
15. Tamura, K., Himeno, H., Asahara, H., Hasegawa, T., and Shimizu, M. (1992) Nucleic Acids Res. 20, 2335-2339.
16. Shiba, K., Stello, T., Motegi, H., Noda, T., Musier-Forsyth, K., and Schimmel, P. (1997) J. Biol. Chem. 36, 22809-22816.
17. McClain, W. H., Schneider, J., and Gabriel, K. (1994) Nucleic Acids Res. 22, 522-529.
18. Liu, H., Peterson, R., Kessler, J., and Musier-Forsyth, K. (1995) Nucleic Acids Res. 23, 165-169.
19. Heacock, D., Forsyth, C., Shiba, K., and Musier-Forsyth, K. (1996) Bioorg. Chem. 24, 273-289.
20. Kunkel, T. A. (1985) Proc. Natl. Acad. Sci. U.S.A. 82, 488.
21. Horton, R. M., and Pease, L. R. (1991) in Directed Mutagenesis (McPherson, M. J., Ed.) pp 217-247. IRL Press, New York.
22. Peekhaus, N., Tolner, B., Poolman, B., and Kramer, R. (1995) J. Bacteriol. 177, 5140-5147.
23. Cerini, C., Kerjan, P., Astier, M., Gratecos, D., Mirande, M., and Semeriva, M. (1991) EMBO J. 10, 4267-4277.
24. Fett, R., and Knippers, R. (1991) J. Biol. Chem. 266, 1448-1455.
25. Fleischmann, R. D., Adams, M. D., White, O., Clayton, R. A., Kirkness, E. F., Kerlavage, A. R., Bult, C. J., Tomb, J. F., Dougherty, B. A., and Merrick, J. M. (1995) Science 269, 496-512.
26. Fraser, C. M., Gocayne, J. D., White, O., Adams, M. D., Clayton, R. A., Fleischmann, R. D., Bult, C. J., Kerlavage, A. R., Sutton, G., and Kelley, J. M. (1995) Science 270, 397-403.
27. Himmelreich, R., Hubert, H., Plagens, H., Pirkl, E., Li, B. C., and Herrmann, R. (1996) Nucleic Acids Res. 24, 4420-4449.
28. Kaneko, T., Sato, S., Kotani, H., Tanaka, A., Asamizu, E., Nakamura, Y., Miyajima, N., Hirosawa, M., Sugiura, M., Sasamoto, S., Kimura, T., Hosouchi, T., Matsuno, A., Muraki, A., Nakazaki, N., Naruo, K., Okumura, S., Shimpo, S., Takeuchi, C., Wada, T., Watanabe, A., Yamada, M., Yasuda, M., and Tabata, S. (1996) DNA Res. 3, 109-136.
29. Bult, C. J., White, O., Olsen, G. J., Zhou, L. X., Fleischmann, R. D., Sutton, G. G., Blake, J. A., Fitzgerald, L. M., Clayton, R. A., Gocayne, J. D., Kerlavage, A. R., Dougherty, B. A., Tomb, J. F., Adams, M. D., Reich, C. I., Overbeek, R., Kirkness, E. F., Weinstock, K. G., Merrick, J. M., Glodek, A., Scott, J. L., Geoghagen, N. S. M., Weidman, J. F., Fuhrmann, J. L., Nguyen, D., Utterback, T. R., Kelley, J. M., Peterson, J. D., Sadow, P. W., Hanna, M. C., Cotton, M. D., Roberts, K. M., Hurst, M. A., Kaine, B. P., Borodovsky, M., Klenk, H. P., Fraser, C. M., Smith, H. O., Woese, C. R., and Venter, J. C. (1996) Science 273, 1058-1073.
30. Smith, D. R., Doucette-Stamm, L. A., Deloughery, C., Lee, H., Dubois, J., Aldredge, T., Bashirzadeh, R., Blakely, D., Cook, R., Gilbert, K., Harrison, D., Hoang, L., Keagle, P., Lumm, W., Pothier, B., Qiu, D., Spadafora, R., Vicaire, R., Wang, Y., Wierzbowski, J., Gibson, R., Jiwani, N., Caruso, A., Bush, D., and Reeve, J. N. (1997) J. Bacteriol. 179, 7135-7155.
31. Tomb, J. F., White, O., Kerlavage, A. R., Clayton, R. A., Sutton, G. G., Fleischmann, R. D., Ketchum, K. A., Klenk, H. P., Gill, S., Dougherty, B. A., Nelson, K., Quackenbush, J., Zhou, L., Kirkness, E. F., Peterson, S., Loftus, B., Richardson, D., Dodson, R., Khalak, H. G., Glodek, A., McKenney, K., Fitzegerald, L. M., Lee, N., Adams, M. D., and Venter, J. C. (1997) Nature 388, 539-547.
32. Klenk, H. P., Clayton, R. A., Tomb, J. F., White, O., Nelson, K. E., Ketchum, K. A., Dodson, R. J., Gwinn, M., Hickey, E. K., Peterson, J. D., Richardson, D. L., Kerlavage, A. R., Graham, D. E., Kyrpides, N. C., Fleischmann, R. D., Quackenbush, J., Lee, N. H., Sutton, G. G., Gill, S., Kirkness, E. F., Dougherty, B. A., McKenney, K., Adams, M. D., Loftus, B., and Venter, J. C. (1997) Nature 390, 364-370.
33. Felsenstein, J. (1993) PHYLIP, Phylogeny Inference Package, version 3.5c, University of Washington, Seattle, WA.
34. Shiba, K., Ripmaster, T., Suzuki, N., Nichols, R., Plotz, P., Noda, T., and Schimmel, P. (1995) Biochemistry 34, 10340-10349.
35. Shiba, K., Motegi, H., and Schimmel, P. (1997) Trends Biochem. Sci. 22, 453-457.
36. Cusack, S., Yaremchuk, A., and Tukalo, M. (1998) in The Many Faces of RNA (Eggleston, D. S., Prescott, C. D., and Pearson, N. D., Eds.) pp 55-65, Academic Press, London.
37. Cavarelli, J., Eriani, G., Rees, B., Ruff, M., Boeglin, M., Mitschler, A., Martin, F., Gangloff, J., Thierry, J.-C., and Moras, D. (1994) EMBO J. 13, 327-337.
38. Fraser, C. M., Casjens, S., Huang, W. M., Sutton, G. G., Clayton, R., Lathigra, R., White, O., Ketchum, K. A., Dodson, R., Hickey, E. K., Gwinn, M., Dougherty, B., Tomb, J. F., Fleischmann, R. D., Richardson, D., Peterson, J., Kerlavage, A. R., Quackenbush, J., Salzberg, S., Hanson, M., van Vugt, R., Palmer, N., Adams, M. D., Gocayne, J., and Venter, J. C. (1997) Nature 390, 580-586.
39. Cusack, S., Yaremchuk, A., Krikliviy, I., and Tukalo, M. (1998) Structure 6, 101-108.
40. Mazauric, M.-H., Reinbolt, J., Lorber, B., Ebel, C., Keith, G., Giegé, R., and Kern, D. (1996) Eur. J. Biochem. 241, 814-826.
41. Liu, H., and Musier-Forsyth, K. (1994) Biochemistry 33, 12708-12714.
42. Yap, L.-P., and Musier-Forsyth, K. (1995) RNA 1, 418-424.
43. Yap, L.-P., Stehlin, C., and Musier-Forsyth, K. (1995) Chem. Biol. 2, 661-666.
44. Giegé, R., Puglisi, J. D., and Florentz, C. (1993) Prog. Nucleic Acid Res. Mol. Biol. 45, 129-205.
45. Ruff, M., Krishnaswamy, S., Boeglin, M., Poterszman, A., Mitschler, A., Podjarny, A., Rees, B., Thierry, J. C., and Moras, D. (1991) Science 252, 1682-1689.
46. Cusack, S., Yaremchuk, A., and Tukalo, M. (1996) EMBO J. 15, 2834-2842.
47. Lenhard, B., Filipic, S., Landeka, I., Skrtic, I., Söll, D., and Weygand-Durasevic, I. (1997) J. Biol. Chem. 272, 1136-1141.
48. Ibba, M., Bono, J. L., Rosa, P. A., and Söll, D. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 14383-14388.
49. Ibba, M., Morgan, S., Curnow, A. W., Pridmore, D. R., Vothknecht, U. C., Gardner, W., Lin, W., Woese, C. R., and Söll, D. (1997) Science 278, 1119-1122.
50. Nameki, N., Tamura, K., Asahara, H., and Hasegawa, T. (1997) J. Mol. Biol. 268, 640-647.
51. Hou, Y.-M., and Schimmel, P. (1989) Biochemistry 28, 6800-6804.
52. Ripmaster, T. L., Shiba, K., and Schimmel, P. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 4932-4936.
53. Nameki, N., Tamara, K., Himeno, H., Asahara, H., Hasegawa, T., and Shimizu, M. (1992) Biochem. Biophys. Res. Commun. 189, 856-862.
54. Becker, H. D., Giegé, R., and Kern, D. (1996) Biochemistry 35, 7447-7458.
55. Nazarenko, I. A., Tinkle-Peterson, E., Zakharova, O. D., Lavrik, O. I., and Uhlenbeck, O. C. (1992) Nucleic Acids Res. 20, 475.
56. Peterson, E. T., and Uhlenbeck, O. C. (1992) Biochemistry 31, 10380-10389.