DNA polymerase β-like nucleotidyltransferase superfamily: Identification of three new families, classification and evolutionary history

Nucleic Acids Research

Volumn 27, Issue 7, 1999, Pages 1609-1618

  Aravind, L ^a,b   Koonin, Eugene V ^a  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b TEXAS A AND M UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA POLYMERASE; NUCLEOTIDYLTRANSFERASE;

AMINO ACID SEQUENCE; ARTICLE; CHROMATIN; COMPUTER SYSTEM; DATA BASE; ENZYME STRUCTURE; EVOLUTION; MOLECULAR MODEL; NONHUMAN; POLYMERIZATION; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FAMILY; SEQUENCE HOMOLOGY; SIGNAL TRANSDUCTION;

ADENYLATE CYCLASE; AMINO ACID SEQUENCE; DNA POLYMERASE BETA; EVOLUTION; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; PROTEIN CONFORMATION; SEQUENCE HOMOLOGY, AMINO ACID; SIGNAL TRANSDUCTION;

EID: 0033119535     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/27.7.1609     Document Type: Article

References (57)

1. Holm, L. and Sander, C. (1995) Trends Biochem. Sci., 20, 345-347.
2. Shuman, S. and Schwer, B. (1995) Mol. Microbiol., 17, 405-410.
3. Aravind, L., Leipe, D.D. and Koonin, E.V. (1998) Nucleic Acids Res., 26, 4205-4213.
4. Singh, K. and Modak, M.J. (1998) Trends Biochem. Sci., 23, 277-281.
5. Burgers, P.M.J. (1998) Chromosoma, 107, 218-227.
6. Archambault, J. and Friesen, J.D. (1993) Microbiol. Rev., 57, 703-724.
7. Colgan, D.F. and Manley, J.L. (1997) Genes Dev., 11, 2755-2766.
8. Deutscher, M.P. (1990) Methods Enzymol., 181, 434-439.
9. Koonin, E.V., Gorbalenya, A.E. and Chumakov, K.M. (1989) FEBS Lett., 252, 42-46.
10. Xiong, Y. and Eickbush, T.H. (1990) EMBO J., 9, 3353-3362.
11. Player, M.R. and Torrence, P.F. (1998) Pharmacol Ther., 78, 55-113.
12. Yue, D., Maizels, N. and Weiner, A.M. (1996) RNA, 2, 895-908.
13. Davies, J.F.,II, Almassy, R.J., Hostomska, Z., Ferre, R.A. and Hostomsky, Z. (1994) Cell, 76, 1123-1133.
14. Sawaya, M.R., Pelletier, H., Kumar, A., Wilson, S.H. and Kraut, J. (1994) Science, 264, 1930-1935.
15. Shi, P.Y., Maizels, N. and Weiner, A.M. (1998) EMBO J., 17, 3197-3206.
16. Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W. and Lipman, D.J. (1997) Nucleic Acids Res., 25, 3389-3402.
17. Wolf, Y.I., Brenner, S.E., Bash, P.A. and Koonin, E.V. (1999) Genome Res., 9, 17-26.
18. Karlin, S. and Altschul, S.F. (1990) Proc. Natl Acad. Sci. USA, 87, 2264-2268.
19. Altschul, S.F. and Gish, W. (1996) Methods Enzymol., 266, 460-480.
20. Altschul, S.F. and Koonin, E.V. (1998) Trends Biochem. Sci., 23, 444-447.
21. Wootton, J.C. (1994) Comput. Chem., 18, 269-285.
22. Wootton, J.C. and Federhen, S. (1996) Methods Enzymol., 266, 554-571.
23. Lupas, A. (1996) Methods Enzymol., 266, 513-525.
24. Zhang, Z., Schaffer, A.A., Miller, W., Madden, T.L., Lipman, D.J., Koonin, E.V. and Altschul, S.F. (1998) Nucleic Acids Res., 26, 3986-3991.
25. Tatusov, R.L., Altschul, S.F. and Koonin, E.V. (1994) Proc. Natl Acad. Sci. USA, 91, 12091-12095.
26. Abagyan, R.A. and Batalov, S. (1997) J. Mol. Biol., 273, 355-368.
27. Needleman, S.B. and Wunsch, C.D. (1970) J. Mol. Biol., 48, 443-453.
28. Schuler, G.D., Altschul, S.F. and Lipman, D.J. (1991) Proteins, 9, 180-190.
29. Neuwald, A.F., Liu, J.S. and Lawrence, C.E. (1995) Protein Sci., 4, 1618-1632.
30. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F. and Higgins, D.G. (1997) Nucleic Acids Res., 25, 4876-4882.
31. Walker, D.R. and Koonin, E.V. (1997) ISMB, 5, 333-339.
32. Rost, B. and Sander, C. (1994) Proteins, 19, 55-72.
33. Peitsch, M.C. (1996) Biochem. Soc. Trans., 24, 274-279.
34. Guex, N. and Peitsch, M.C. (1997) Electrophoresis, 18, 2714-2723.
35. Gershon, P.D., Ahn, B.Y., Garfield, M. and Moss, B. (1991) Cell, 66, 1269-1278.
36. Koonin, E.V., Mushegian, A.R., Galperin, M.Y. and Walker, D.R. (1997) Mol. Microbiol., 25, 619-637.
37. Sakon, J., Liao, H.H., Kanikula, A.M., Benning, M.M., Rayment, I. and Holden, H.M. (1993) Biochemistry, 32, 11977-11984.
38. Castano, I.B., Brzoska, P.M., Sadoff, B.U., Chen, H. and Christman, M.F. (1996) Genes Dev., 10, 2564-2576.
39. Sadoff, B.U., Heath-Pagliuso, S., Castano, I.B., Zhu, Y., Kieff, F.S. and Christman, M.F. (1995) Genetics, 141, 465-179.
40. Castano, I.B., Heath-Pagliuso, S., Sadoff, B.U., Fitzhugh, D.J. and Christman, M.F. (1996) Nucleic Acids Res., 24, 2404-2410.
41. Garcia, E. and Rhee, S.G. (1983) J. Biol. Chem., 258, 2246-2253.
42. Kustu, S., Hirschman, J., Burton, D., Jelesko, J. and Meeks, J.C. (1984) Mol. Gen. Genet., 197, 309-317.
43. Bateman, A. (1997) Trends Biochem. Sci., 22, 12-13.
44. Jiang, P., Peliska, J.A. and Ninfa, A.J. (1998) Biochemistry, 37, 12782-12794.
45. Katayama, M. and Ohmori, M. (1997) J. Bacteriol., 179, 3588-3593.
46. Sismeiro, O., Trotot, P., Biville, F., Vivares, C. and Danchin, A. (1998) J. Bacteriol., 180, 3339-3344.
47. Mock, M., Crasnier, M., Duflot, E., Dumay, V. and Danchin, A. (1991) J. Bacteriol., 173, 6265-6269.
48. Crasnier, M., Dumay, V. and Danchin, A. (1994) Mol. Gen. Genet., 243, 409-416.
49. Artymiuk, P.J., Poirrette, A.R., Rice, D.W. and Willett, P. (1997) Nature, 388, 33-34.
50. Murzin, A.G. (1998) Curr. Opin. Struct. Biol., 8, 380-387.
51. Zimmermann, G., Zhou, D. and Taussig, R. (1998) J. Biol. Chem., 273, 19650-19655.
52. Yang, B., Gathy, K.N. and Coleman, M.S. (1994) J. Biol. Chem., 269, 11859-11868.
53. Aravind, L. and Koonin, E.V. (1998) Trends Biochem. Sci., 23, 17-19.
54. Aravind, L. and Koonin, E.V. (1998) Nucleic Acids Res., 26, 3746-3752.
55. Aravind, L. and Koonin, E.V. (1998) Trends Biochem. Sci., 23, 469-472.
56. Hartmann, R., Olsen, H.S., Widder, S., Jorgensen, R. and Justesen, J. (1998) Nucleic Acids Res., 26, 4121-4128.
57. Maizels, N. and Weiner, A.M. (1994) Proc. Natl Acad. Sci. USA, 91, 6729-6734.