RNA substrate specificity and structure-guided mutational analysis of bacteriophage T4 RNA ligase 2

Journal of Biological Chemistry

Volumn 279, Issue 30, 2004, Pages 31337-31347

  Nandakumar, Jayakrishnan ^a   Ho, C Kiong ^b   Lima, Christopher D ^a   Shuman, Stewart ^a  

^a NEW YORK STRUCTURAL BIOLOGY CENTER   (United States)

^b UNIVERSITY AT BUFFALO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINETRIPHOSPHATE; AMINO ACIDS; BACTERIA; CATALYSTS; CRYSTAL STRUCTURE; MUTAGENESIS; RNA;

BACTERIOPHAGE; KINETOPLASTID PROTOZOA; RNA SUBSTRATE;

ENZYMES;

ADENOSINE PHOSPHATE; ADENOSINE TRIPHOSPHATE; ALANINE; AMINO ACID; ARGININE; ASPARTIC ACID; CYTIDINE TRIPHOSPHATE; DEOXYADENOSINE TRIPHOSPHATE; DIVALENT CATION; DNA; DOUBLE STRANDED RNA; GLUTAMIC ACID; GLUTAMINE; GUANOSINE TRIPHOSPHATE; LYSINE; MAGNESIUM; MANGANESE; NUCLEOTIDYLTRANSFERASE; RNA; RNA LIGASE; SERINE; TYROSINE; URIDINE TRIPHOSPHATE;

AMINO TERMINAL SEQUENCE; ARTICLE; BACTERIOPHAGE T4; CARBOXY TERMINAL SEQUENCE; CATALYST; CONTROLLED STUDY; CRYSTAL STRUCTURE; DNA RNA HYBRIDIZATION; ENZYME ACTIVITY; ENZYME SPECIFICITY; ENZYME STRUCTURE; GENETIC CONSERVATION; MOLECULAR EVOLUTION; MUTATIONAL ANALYSIS; NICK END LABELING; NONHUMAN; PRIORITY JOURNAL; PROTOZOON; RNA EDITING;

AMINO ACID SEQUENCE; BACTERIOPHAGE T4; BASE SEQUENCE; DNA, VIRAL; GENES, VIRAL; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS; PROTEIN STRUCTURE, TERTIARY; RNA LIGASE (ATP); RNA, FUNGAL; SEQUENCE HOMOLOGY, AMINO ACID; SUBSTRATE SPECIFICITY; VIRAL PROTEINS;

KINETOPLASTIDA; PROTOZOA; UNIDENTIFIED BACTERIOPHAGE;

EID: 3843051369     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M402394200     Document Type: Article

References (38)

1. Ho, C. K., and Shuman, S. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, 12709-12714
2. Amitsur, M., Levitz, R., and Kaufman, G. (1987) EMBO J. 6, 2499-2503
3. Uhlenbeck, O. C., and Gumport, R. I. (1982) Enzymes 15, 31-58
4. Baymiller, J., Jennings, S., Kienzle, B. K., Gorman, J. A., Kelly, R., and McCullough, J. E. (1994) Gene 142, 129-134
5. Phizicky, E. M., Schwartz, R. C., and Abelson, J. (1986) J. Biol. Chem. 261, 2978-2986
6. Durantel, D., Croizier, L., Ayres, M. D., Croizier, G., Possee, R. D., and Lopez-Ferber, M. (1998) J. Gen. Virol. 79, 629-637
7. Sawaya, R., Schwer, B., and Shuman, S. (2003) J. Biol. Chem. 278, 43298-43398
8. Blondal, T., Hjorleifdottir, S. H., Fridjonsson, O. F., Evarsson, A., Skirnissdottir, S., Hermannsdottir, A. G., Hreggvidsson, G. O., Smith, A. V., and Kristjansson, J. K. (2003) Nucleic Acids Res. 31, 7247-7252
9. Martins, A., and Shuman, S. (2004) J. Biol. Chem., in press
10. Yin, S., Ho, C. K., Miller, E. S., and Shuman, S. (2004) Virology 319, 141-151
11. McManus, M. T., Shimamura, M., Grams, J., and Hajduk, S. L. (2001) RNA 7, 167-175
12. Rusche, L. N., Huang, C. E., Piller, K. J., Hemann, M., Wirtz, E., and Sollner-Webb, B. (2001) Mol. Cell. Biol. 21, 979-989
13. Schnaufer, A., Panigrahi, A. K., Panicucci, B., Igo, R. P., Salavati, R., and Stuart, K. (2001) Science 291, 2159-2162
14. Silber, R., Malathi, V. G., and Hurwitz, J. (1972) Proc. Natl. Acad. Sci. U. S. A. 69, 3009-3013
15. Cranston, J. W., Silber, R., Malathi, V. G., and Hurwitz, J. (1974) J. Biol. Chem. 249, 7447-7456
16. Sugino, A., Snopek, T. J., and Cozzarelli, N. R. (1977) J. Biol. Chem. 252, 1732-1738
17. Yin, S., Ho, C. K., and Shuman, S. (2003) J. Biol. Chem. 278, 17601-17608
18. Shuman, S., Liu, Y., and Schwer, B. (1994) Proc. Natl. Acad. Sci. U. S. A. 91, 12046-12050
19. Shuman, S., and Schwer, B. (1995) Mol. Microbiol. 17, 405-410
20. Sawaya, R., and Shuman, S. (2003) Biochemistry 42, 8240-8249
21. Håkansson, K., Doherty, A. J., Shuman, S., and Wigley, D. B. (1997) Cell 89, 545-553
22. Fabrega, C., Shen, V., Shuman, S., and Lima, C. D. (2003) Mol. Cell 11, 1549-1561
23. Ho, C. K., Wang, L. K., Lima, C. D., and Shuman, S. (2004) Structure 12, 327-339
24. Blanc, V., Alfonso, J. D., Aphasizhev, R., and Simpson, L. (1999) J. Biol. Chem. 274, 24289-24296
25. Palazzo, S. S., Panigrahi, A. K., Igo, R. P., Salavati, R., and Stuart, K. (2003) Mol. Biochem. Parasitol. 127, 161-167
26. Subramanya, H. S., Doherty, A. J., Ashford, S. R., and Wigley, D. B. (1996) Cell 85, 607-615
27. Lee, J. Y., Chang, C., Song, H. K., Moon, J., Yang, J., Kim, H. K., Kwon, S. T., and Suh, S. W. (2000) EMBO J. 19, 1119-1129
28. Odell, M., Sriskanda, V., Shuman, S., and Nikolov, D. (2000) Mol. Cell 6, 1183-1193
29. Doherty, A. J., and Wigley, D. B. (1999) J. Mol. Biol. 285, 63-71
30. Doherty, A. J. (1999) Nucleic Acids Res. 16, 3253-3258
31. Timson, D. J., and Wigley, D. B. (1999) J. Mol. Biol. 285, 73-83
32. Kaczmarek, F. S., Zaniewski, R. P., Gootz, T. D., Danley, D. E., Mansour, M. N., Griffor, M., Kamath, A. V., Cronan, M., Mueller, J., Sun, D., Martin, P. K., Benton, B., McDowell, L., Biek, D., and Schmid, M. B. (2001) J. Bacteriol. 183, 3016-3024
33. Lim, J. H., Choi, J., Kim, W., Ahn, B. Y., and Han, Y. S. (2001) Arch. Biochem. Biophys. 388, 253-260
34. Sriskanda, V., and Shuman, S. (2002) J. Biol. Chem. 277, 9685-9700
35. Shuman, S. (1995) Biochemistry 34, 16138-16147
36. Ho, C. K., Van Etten, J. L., and Shuman, S. (1997) J. Virol. 71, 1931-1937
37. Sriskanda, V., and Shuman, S. (1998) Nucleic Acids Res. 26, 3536-3541
38. Evans, S. V. (1993) J. Mol. Graph. 11, 134-138