Catalysis of strand annealing by replication protein A derives from its strand melting properties

Journal of Biological Chemistry

Volumn 283, Issue 31, 2008, Pages 21758-21768

  Bartos, Jeremy D ^a   Willmott, Lyndsay J ^a   Binz, Sara K ^b   Wold, Marc S ^b   Bambara, Robert A ^a  

^a UNIVERSITY OF ROCHESTER SCHOOL OF MEDICINE AND DENTISTRY   (United States)

^b UNIVERSITY OF IOWA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; GENES; HYDROGEN; HYDROGEN BONDS; MELTING; NUCLEIC ACIDS; ORGANIC ACIDS; POLYMER MELTS;

DNA BINDINGS; DNA REPLICATIONS; DNA SECONDARY STRUCTURES; DOUBLE STRANDS; ENDONUCLEASE; GENOMIC INSTABILITIES; HELICASES; HOMOLOGOUS RECOMBINATIONS; INTRAMOLECULAR HYDROGEN BONDINGS; MELTING PROPERTIES; OKAZAKI FRAGMENTS; RECOMBINATION INTERMEDIATES; REPLICATION PROTEINS; SECONDARY STRUCTURES; STRAND ANNEALING; TIME COURSES;

ANNEALING;

DNA; DOUBLE STRANDED DNA; FLAP ENDONUCLEASE; FLAP ENDONUCLEASE 1; HYDROGEN; OKAZAKI FRAGMENT; REPLICATION FACTOR A; SINGLE STRANDED DNA; UNCLASSIFIED DRUG; OKAZAKI FRAGMENTS; OLIGONUCLEOTIDE;

ARTICLE; BINDING SITE; CATALYSIS; CHROMATOGRAPHY; CONCENTRATION PROCESS; CONTROLLED STUDY; CROSS LINKING; DNA CLEAVAGE; DNA STRAND; ENZYME SUBSTRATE COMPLEX; GENOMIC INSTABILITY; HOMOLOGOUS RECOMBINATION; HYDROGEN BOND; MELTING POINT; MOLECULAR DYNAMICS; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN PROCESSING; PROTEIN SECONDARY STRUCTURE; PROTEIN STRUCTURE; TEMPERATURE MEASUREMENT; BIOLOGICAL MODEL; CHEMISTRY; CONFORMATION; DNA DENATURATION; DNA REPLICATION; HUMAN; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; THERMODYNAMICS;

EUKARYOTA;

BASE SEQUENCE; CATALYSIS; DNA; DNA REPLICATION; DNA, SINGLE-STRANDED; FLAP ENDONUCLEASES; HUMANS; HYDROGEN BONDING; MODELS, BIOLOGICAL; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; NUCLEIC ACID DENATURATION; OLIGONUCLEOTIDES; REPLICATION PROTEIN A; THERMODYNAMICS;

EID: 52049114155     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M800856200     Document Type: Article

References (62)

1. Wold, M. S. (1997) Annu. Rev. Biochem. 66, 61-92
2. Fairman, M. P., and Stillman, B. (1988) EMBO J. 7, 1211-1218
3. Wobbe, C. R., Weissbach, L., Borowiec, J. A., Dean, F. B., Murakami, Y., Bullock, P., and Hurwitz, J. (1987) Proc. Natl. Acad. Sci. U. S. A. 84, 1834-1838
4. Wold, M. S., and Kelly, T. (1988) Proc. Natl. Acad. Sci. U. S. A. 85, 2523-2527
5. Brosh, R. M., Jr., Li, J. L., Kenny, M. K., Karow, J. K., Cooper, M. P., Kureekattil, R. P., Hickson, I. D., and Bohr, V. A. (2000) J. Biol. Chem. 275, 23500-23508
6. Brosh, R. M., Jr., Orren, D. K., Nehlin, J. O., Ravn, P. H., Kenny, M. K., Machwe, A., and Bohr, V. A. (1999) J. Biol. Chem. 274, 18341-18350
7. Yuzhakov, A., Kelman, Z., Hurwitz, J., and O'Donnell, M. (1999) EMBO J. 18, 6189-6199
8. de Laat, W. L., Appeldoorn, E., Sugasawa, K., Weterings, E., Jaspers, N. G., and Hoeijmakers, J. H. (1998) Genes Dev. 12, 2598-2609
9. Iftode, C., and Borowiec, J. A. (2000) Biochemistry 39, 11970-11981
10. Daughdrill, G. W., Ackerman, J., Isern, N. G., Botuyan, M. V., Arrowsmith, C., Wold, M. S., and Lowry, D. F. (2001) Nucleic Acids Res. 29, 3270-3276
11. Gao, H., Cervantes, R. B., Mandell, E. K., Otero, J. H., and Lundblad, V. (2007) Nat. Struct. Mol. Biol. 14, 208-214
12. Lao, Y., Lee, C. G., and Wold, M. S. (1999) Biochemistry 38, 3974-3984
13. Bastin-Shanower, S. A., and Brill, S. J. (2001) J. Biol. Chem. 276, 36446-36453
14. Bochkareva, E., Belegu, V., Korolev, S., and Bochkarev, A. (2001) EMBO J. 20, 612-618
15. Bochkareva, E., Korolev, S., Lees-Miller, S. P., and Bochkarev, A. (2002) EMBO J. 21, 1855-1863
16. Fanning, E., Klimovich, V., and Nager, A. R. (2006) Nucleic Acids Res. 34, 4126-4137
17. Pestryakov, P. E., Khlimankov, D. Y., Bochkareva, E., Bochkarev, A., and Lavrik, O. I. (2004) Nucleic Acids Res. 32, 1894-1903
18. Machwe, A., Lozada, E. M., Xiao, L., and Orren, D. K. (2006) BMC Mol. Biol. 7, 1
19. Garcia, P. L., Liu, Y., Jiricny, J., West, S. C., and Janscak, P. (2004) EMBO J. 23, 2882-2891
20. Opresko, P. L., Laine, J. P., Brosh, R. M., Jr., Seidman, M. M., and Bohr, V. A. (2001) J. Biol. Chem. 276, 44677-44687
21. Cui, S., Arosio, D., Doherty, K. M., Brosh, R. M., Jr., Falaschi, A., and Vindigni, A. (2004) Nucleic Acids Res. 32, 2158-2170
22. Van Komen, S., Reddy, M. S., Krejci, L., Klein, H., and Sung, P. (2003) J. Biol. Chem. 278, 44331-44337
23. Doherty, K. M., Sommers, J. A., Gray, M. D., Lee, J. W., von Kobbe, C., Thoma, N. H., Kureekattil, R. P., Kenny, M. K., and Brosh, R. M., Jr. (2005) J. Biol. Chem. 280, 29494-29505
24. Shen, J. C., Lao, Y., Kamath-Loeb, A., Wold, M. S., and Loeb, L. A. (2003) Mech. Ageing Dev. 124, 921-930
25. Boule, J. B., and Zakian, V. A. (2007) Nucleic Acids Res. 35, 5809-5818
26. Kowalczykowski, S. C., and Krupp, R. A. (1987) J. Mol. Biol. 193, 97-113
27. Muniyappa, K., Shaner, S. L., Tsang, S. S., and Radding, C. M. (1984) Proc. Natl. Acad. Sci. U. S. A. 81, 2757-2761
28. Sugiyama, T., Zaitseva, E. M., and Kowalczykowski, S. C. (1997) J. Biol. Chem. 272, 7940-7945
29. Sugiyama, T., New, J. H., and Kowalczykowski, S. C. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 6049-6054
30. Kao, H. I., and Bambara, R. A. (2003) Crit. Rev. Biochem. Mol. Biol. 38, 433-452
31. Rossi, M. L., Purohit, V., Brandt, P. D., and Bambara, R. A. (2006) Chem. Rev. 106, 453-473
32. Bae, S. H., Bae, K. H., Kim, J. A., and Seo, Y. S. (2001) Nature 412, 456-461
33. MacNeill, S. A. (2001) Curr. Biol. 11, R842-R844
34. Bartos, J. D., Wang, W., Pike, J. E., and Bambara, R. A. (2006) J. Biol. Chem. 281, 32227-32239
35. Henricksen, L. A., Umbricht, C. B., and Wold, M. S. (1994) J. Biol. Chem. 269, 11121-11132
36. Zuker, M. (2003) Nucleic Acids Res. 31, 3406-3415
37. Peyret, N. (2000) Prediction of Nucleic Acid Hybridization: Parameters and Algorithms, Ph.D. thesis, Wayne State University, Detroit, MI
38. SantaLucia, J., Jr. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 1460-1465
39. Ayyagari, R., Gomes, X. V., Gordenin, D. A., and Burgers, P. M. (2003) J. Biol. Chem. 278, 1618-1625
40. Jin, Y. H., Ayyagari, R., Resnick, M. A., Gordenin, D. A., and Burgers, P. M. (2003) J. Biol. Chem. 278, 1626-1633
41. Garg, P., Stith, C. M., Sabouri, N., Johansson, E., and Burgers, P. M. (2004) Genes Dev. 18, 2764-2773
42. Bae, S. H., and Seo, Y. S. (2000) J. Biol. Chem. 275, 38022-38031
43. Kao, H. I., Veeraraghavan, J., Polaczek, P., Campbell, J. L., and Bambara, R. A. (2004) J. Biol. Chem. 279, 15014-15024
44. Kao, H. I., Campbell, J. L., and Bambara, R. A. (2004) J. Biol. Chem. 279, 50840-50849
45. Budd, M. E., and Campbell, J. L. (1997) Mol. Cell. Biol. 17, 2136-2142
46. Budd, M. E., Choe, W. C., and Campbell, J. L. (1995) J. Biol. Chem. 270, 26766-26769
47. Rossi, M. L., and Bambara, R. A. (2006) J. Biol. Chem. 281, 26051-26061
48. Murante, R. S., Rust, L., and Bambara, R. A. (1995) J. Biol. Chem. 270, 30377-30383
49. Bae, K. H., Kim, H. S., Bae, S. H., Kang, H. Y., Brill, S., and Seo, Y. S. (2003) Nucleic Acids Res. 31, 3006-3015
50. Ranalli, T. A., DeMott, M. S., and Bambara, R. A. (2002) J. Biol. Chem. 277, 1719-1727
51. DeMott, M. S., Zigman, S., and Bambara, R. A. (1998) J. Biol. Chem. 273, 27492-27498
52. Chaganti, R. S., Schonberg, S., and German, J. (1974) Proc. Natl. Acad. Sci. U. S. A. 71, 4508-4512
53. Lonn, U., Lonn, S., Nylen, U., Winblad, G., and German, J. (1990) Cancer Res. 50, 3141-3145
54. Hickson, I. D. (2003) Nat. Rev. Cancer 3, 169-178
55. New, J. H., Sugiyama, T., Zaitseva, E., and Kowalczykowski, S. C. (1998) Nature 391, 407-410
56. Shinohara, A., Shinohara, M., Ohta, T., Matsuda, S., and Ogawa, T. (1998) Genes Cells 3, 145-156
57. You, J. C., and McHenry, C. S. (1994) J. Biol. Chem. 269, 31491-31495
58. Beltz, H., Piemont, E., Schaub, E., Ficheux, D., Roques, B., Darlix, J. L., and Mely, Y. (2004) J. Mol. Biol. 338, 711-723
59. Levin, J. G., Guo, J., Rouzina, I., and Musier-Forsyth, K. (2005) Prog. Nucleic Acids Res. Mol. Biol. 80, 217-286
60. Tsuchihashi, Z., and Brown, P. O. (1994) J. Virol. 68, 5863-5870
61. Urbaneja, M. A., Wu, M., Casas-Finet, J. R., and Karpel, R. L. (2002) J. Mol. Biol. 318, 749-764
62. Williams, M. C., Rouzina, I., Wenner, J. R., Gorelick, R. J., Musier-Forsyth, K., and Bloomfield, V. A. (2001) Proc. Natl. Acad. Sci. U. S. A. 98, 6121-6126