Determinants of ribose specificity in RNA polymerization: Effects of Mn2+ and deoxynucleoside monophosphate incorporation into transcripts

Biochemistry

Volumn 36, Issue 44, 1997, Pages 13718-13728

  Huang, Ying ^a   Beaudry, Amber ^b   McSwiggen, Jim ^b   Sousa, Rui ^a  

^a UNIVERSITY OF TEXAS HEALTH SCIENCE CENTER AT SAN ANTONIO   (United States)

^b Sirna Therapeutics Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEOSIDE TRIPHOSPHATE; DEOXYRIBONUCLEOTIDE; DNA A; DNA B; MAGNESIUM; MANGANESE; MUTANT PROTEIN; PHENYLALANINE; RIBONUCLEOSIDE DERIVATIVE; RIBONUCLEOSIDE TRIPHOSPHATE; RIBOSE; RNA POLYMERASE; TYROSINE; UNCLASSIFIED DRUG;

AMINO ACID SUBSTITUTION; ARTICLE; BACTERIOPHAGE T7; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; NONHUMAN; POLYMERIZATION; PRIORITY JOURNAL;

BACTERIOPHAGE T7; DEOXYRIBONUCLEOSIDES; DNA-DIRECTED RNA POLYMERASES; KINETICS; MAGNESIUM; MANGANESE; METHANOL; RIBOSE; SOLUTIONS; SUBSTRATE SPECIFICITY; TRANSCRIPTION, GENETIC; VIRAL PROTEINS;

EID: 0030727136     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi971609o     Document Type: Article

References (56)

1. Saenger, W. (1984) Principles of Nucleic Acid Structure, Springer-Verlag, New York.
2. Tabor, S., and Richardson, C. C. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 6339-6343.
3. Sousa, R., and Padilla, R. (1995) EMBO J. 14, 4609-4621.
4. Gao, G., Orlova, M., Georgiadis, M. M., Hendrickson, W. A., and Goff, S. P. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 407-411.
5. Huang, Y., Eckstein, F., Padilla, R., and Sousa, R. (1997) Biochemistry 36, 8231-8242.
6. Joyce, C. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 1619-1622.
7. Fersht, A. R., Shi, J.-P., Knill-Jones, J., Lowe, D. M., Wilkinson, A. J., Blow, D. M., Brick, P., Carter, P., Waye, M. M. Y., and Winter, G. (1985) Nature 314, 235-238.
8. Bonner, G., Patra, D., Lafer, E. M., and Sousa, R. (1992) EMBO J. 11, 3767-3775.
9. Tabor, S., and Richardson, C. C. (1985) Proc. Natl. Acad. Sci. U.S.A. 82, 1074-1078.
10. Kostyuk, D. A., Dragan, S. M., Lyakhov, D. L., Rechinsky, V. O., Tunitskaya, V. L., Chernov, B. K., and Kochetkov, S. N. (1995) FEBS Lett. 369, 165-168.
11. Martin, C. T., and Coleman, J. E. (1989) Biochemistry 28, 2760-2762.
12. Ivanov, V. I., Minchekova, L. E., Minyat, E. E., Frank-Kamenetskii, M. D., and Schyolkina, A. K. (1974) J. Mol. Biol. 87, 817-833.
13. Pohl, F. (1976) Nature 260, 365-366.
14. Leslie, A. G. W., Arnott, S., Chanrasekaran, R., and Ratliff, R. L. (1980) J. Mol. Biol. 143, 49-72.
15. Drew, H. R., and Dickerson, R. E. (1982) Nature 295, 294-299.
16. Drew, H. R., and Dickerson, R. E. (1981) J. Mol. Biol. 151, 535-556.
17. Arnott, S., Chandrasekaran, R., and Selsing, E. (1975) in Structure and Conformation of Nucleic Acids and Protein -Nucleic Acid Interactions (Sundaralingam, M., and Rao, S. T., Eds.) pp 577-596, University Park Press, Baltimore, MD.
18. Sarma, M. H., Gupta, G., and Sarma, R. H. (1986) Biochemistry 25, 3659-3665.
19. Ivanov, V. I., Minchekova, L. E., Schyolkina, A. K., and Poletayev, A. I. (1973) Biopolymers 12, 89-110.
20. Villemain, J., Guajardo, R., and Sousa, R. (1997) J. Mol. Biol. (submitted for publication).
21. Bonner, G., Lafer, E. M., and Sousa, R. (1994a) J. Biol. Chem. 269, 25120-25128.
22. Gardener, L. P., Mookhtiar, K. A., and Coleman, J. E. (1997) Biochemistry 36, 2908-2918.
23. Mookhtiar, K. A., Peluso, P. S., Muller, D. K., Dunn, J. J., and Coleman, J. E. (1991) Biochemistry 30, 6305-6313.
24. El-Deiry, W. S., Downey, K. M., and So, A. G. (1984) Proc. Natl. Acad. Sci. U.S.A. 81, 7378-7382.
25. Brandis, J., Edwards, S., and Jonhson, K. (1996) Biochemistry 35, 2189-2200.
26. Beckman, R. A., Mildvan, A. S., and Loeb, L. A. (1985) Biochemistry 24, 5810-5817.
27. Goodman, M. F., Keener, S., Guidotti, S., and Branscomb, E. W. (1983) J. Biol. Chem. 258, 3469-3475.
28. Pezo, V., and Wain-Hobson, S. (1997) Gene 186, 67-72.
29. Putrament, A., Baranowska, H., and Prazsmo, W. (1975) Mol. Gen. Genet. 140, 339-347.
30. Ripley, L. S. (1975) Mol. Gen. Genet. 141, 23-40.
31. Pinto, D., Sarocchi-Landousy, M. T., and Guschlbacher, W. (1979) Nucleic Acids Res. 6, 1041-1048.
32. Tabor, S., and Richardson, C. (1989) Proc. Natl. Acad. Sci. U.S.A. 86, 4076-4080.
33. Boiteux, S., and Laval, J. (1982) Biochimie 64, 637-641.
34. Ide, H., Kow, Y. W., and Wallace, S. S. (1985) Nucleic Acids Res. 13, 8035-8052.
35. Pelletier, H., Sawaya, M. R., Wolfle, W., Wilson, S. H., and Kraut, J. (1996) Biochemistry 35, 12762-12777.
36. Blasco, M. A., Lazaro, J. M., Bernard, A., Blanco, L., and Salas, M. (1992) J. Biol. Chem. 267, 19427-19434.
37. Inokuchi, Y., Kajitani, M., and Hirashima, A. (1994) J. Biochem. (Tokyo) 116, 1275-1280.
38. Scott, W. G., and Klug, A. (1996) Trends Biochem. Sci. 21, 220-224.
39. Irving, H., and Williams, R. (1953) J. Am. Chem. Soc. 75, 3193-3210.
40. Pelletier, H., Sawaya, M. R., Kumar, A., Wilson, S. H., and Kraut, J. (1994) Science 264, 1891-1903.
41. Arnott, S., Chandrasekaran, R., Millane, R. P., and Park, H. S. (1986) J. Mol. Biol. 188, 631-640.
42. Selsing, E., Wells, R. D., Early, T. A., and Kearns, D. R. (1978) Nature 254, 249-250.
43. Arnott, S., Fuller, W., Hodgson, A., and Prutton, I. (1968) Nature 220, 561-564.
44. Florentiev, V. L., and Ivanov, V. I. (1970) Nature 228, 519-522.
45. Hamilton, L. D. (1968) Nature 218, 633-637.
46. Beabealashvily, R. S., Ivanov, V. I., Minchenkova, L. E., and Savotchikina, L. P. (1972) Biochim. Biophys. Acta 259, 35-40.
47. Egli, M., Usman, N., Zhang, S., and Rich, A. (1991) Proc. Natl. Acad. Sci. U.S.A. 89, 534-538.
48. Egli, M., Usman, N., and Rich, A. (1993) Biochemistry 32, 3221-3237.
49. Wang, A. H. J., Fuji, S., van Boom, J. H., van der Marel, G. A., van Boeckel, S. A. A., and Rich, A. (1982) Nature 299, 601-604.
50. Salazar, M., Fedoroff, O. Y., and Reid, B. R. (1996) Biochemistry 35, 8126-8135.
51. Conner, B. N., Takano, T., Tanaka, S., Itakura, K., and Dickerson, R. E. (1982) Nature 295, 294-299.
52. 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.
53. Ricchetti, M., and Buc, H. (1993) EMBO J. 12, 387-396.
54. Tantillo, C., Ding, J., Jacobo-Molina, A., Nanni, R. G., Boyer, P. L., Hughes, S. H., Pauwels, R., Andries, K., Janssen, P. A. J., and Arnold, E. (1994) Proc. Natl. Acad. Sc.i U.S.A. 243, 369-387.
55. Polesky, A. H., Steitz, T. A., Grindley, N. D. F., and Joyce, C. M. (1990) J. Biol. Chem. 265, 14579-14591.
56. Milligan, J. F., Groebe, D. R., Witherell, G. W., and Uhlenbeck, O. C. (1987) Nucleic Acids Res. 15, 8783-8798.