Dipole-dipole interaction stabilizes the transition state of apurinic/apyrimidinic endonuclease - Abasic site interaction

Journal of Biological Chemistry

Volumn 283, Issue 3, 2008, Pages 1334-1339

  Adhikari, Sanjay ^a   Üren, Aykut ^a   Roy, Rabindra ^a  

^a GEORGETOWN UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING SITES; DNA; ENTHALPY; GIBBS FREE ENERGY; MOLECULAR INTERACTIONS; SUBSTRATES; SURFACE PLASMON RESONANCE;

ADENINE; DIPOLE DIPOLE INTERACTION; ENDONUCLEASE;

ENZYME ACTIVITY;

DNA; DNA (APURINIC OR APYRIMIDINIC SITE) LYASE; POTASSIUM CHLORIDE;

ARTICLE; BINDING AFFINITY; DNA BINDING; ENTHALPY; ENTROPY; ENZYME PURIFICATION; ENZYME SUBSTRATE; ENZYME SUBSTRATE COMPLEX; HYDROPHOBICITY; IONIC STRENGTH; MICHAELIS MENTEN KINETICS; PRIORITY JOURNAL; SURFACE PLASMON RESONANCE; TEMPERATURE; THERMODYNAMICS;

BIOTINYLATION; DNA; DNA-(APURINIC OR APYRIMIDINIC SITE) LYASE; ELECTROSTATICS; HUMANS; KINETICS; OLIGONUCLEOTIDES; POTASSIUM CHLORIDE; PROTEIN BINDING; SURFACE PLASMON RESONANCE; THERMODYNAMICS;

EID: 38349138832     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M704594200     Document Type: Article

References (44)

1. Lindahl, T. (1993) Nature 362, 709-715
2. Friedberg, E. C., Walker, G. C., and Siede, W. (1995) DNA Repair and Mutagenesis, p. 59, American Society for Microbiology, Washington, D. C.
3. Larson, K., Sharn, J., Shenkar, R., and Strauss, B. (1985) Mutat. Res. 233, 211-218
4. Matsumoto, Y., and Kim, K. (1995) Science 269, 699-702
5. Chou, K. M., and Cheng, Y. C. (2002) Nature 415, 655-659
6. Mitra, S., Boldogh, I., Izumi, T., and Hazra, T. K. (2001) Environ. Mol. Mutagen. 38, 180-190
7. Sobol, R. W., Horton, J. K., Kuhn, R., Gu, H., Singhal, R. K., Prasad, R., Rajewsky, K., and Wilson, S. H. (1996) Nature 379, 183-186
8. Demple, B., and Harrison, L. (1994) Annu. Rev. Biochem. 63, 915-948
9. Lindahl, T. (1982) Annu. Rev. Biochem. 51, 61-87
10. Doetsch, P. W., and Cunningham, R. P. (1990) Mutat. Res. 236, 173-201
11. Mosbaugh, D. W., and Bennett, S. E. (1994) Prog. Nucleic Acid Res. Mol. Biol. 48, 315-370
12. Maher, L. R., and Bloom, L. B. (2007) J. Biol. Chem. 282, 30577-30585
13. Piersen, C. E., Prasad, R., Wilson, S. H., and Lloyd, R. S. (1996) J. Biol. Chem. 271, 17811-17815
14. Srivastava, D. K., Berg, B. J., Prasad, R., Molina, J. T., Beard, W. A., Tomkinson, A. E., and Wilson, S. H. (1998) J. Biol. Chem. 273, 21203-21209
15. Wilson, D. M., and Thompson, L. H. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 12754-12757
16. Lindahl, T., and Wood, R. D. (1999) Science 286, 1897-1905
17. Wilson, D. M., Takeshita, M., Grollman, A. P., and Demple, B. (1995) J. Biol. Chem. 270, 16002-16007
18. Bennett, R. A., Wilson, D. M., III, Wong, D., and Demple, B. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 7166-7169
19. Wong, D., and Demple, B. (2004) J. Biol. Chem. 279, 25268-25275
20. Sokhansanj, B. A., Rodrigue, G. R., Fitch, J. P., and Wilson, D. M., III (2002) Nucleic Acids Res. 30, 1817-1825
21. Fung, H., and Demple, B. (2005) Mol Cell. 17, 463-470
22. Mol, C. D., Izumi, T., Mitra, S., and Tainer, J. A. (2000) Nature, 403, 451-456
23. Madhusudan, S., Smart, F., Houlbrook, S., Talbot, D. C., Hammonds, T., and Hickson, I. D. (2004) Proc. Amer. Assoc. Cancer. Res. 45, 1237-1238
24. Zou, Y., Bassett, H., Walker, R., Bishop, A., Amin, S., Geacintov, N. E., and Van Houten, B. (1998) J. Mol. Biol. 281, 107-109
25. Myszka, D. G. (2000) Methods Enzymol. 323, 325-340
26. Day, Y. S. N., Baird, C. L., Rich, R. L., and Myszka, D. G. (2007) Prot. Sci., 2002, 1017-1025
27. Boniface, J. J., Reich, Z., Lyons, D. S., and Davis, M. M. (1999) Proc. Natl Acad. Sci 96, 11446-11451
28. Roy, R., Biswas, T., Hazra, T. K., Roy, G., Grabowski, D. T., Izumi, T., Srinivasan, G., and Mitra, S. (1998) Biochemistry. 37, 580-589
29. Adhikari, S., Toretsky, J. A., Yuan, L., and Roy, R. (2006) J. Biol. Chem. 281, 29525-29532
30. Adhikari, S., Üren, A., and Roy, R. (2007) J. Biol. Chem. 282, 30078-30084
31. Adhikari, S., Kennel, S. J., Roy, G., Mitra, P. S., Mitra, S., and Roy, R. (2008) DNA Repair 7, 31-39
32. Van Houten, B., Gamper, H., Sancar, A., and Hearst, J. E. (1987) J. Biol. Chem. 262, 13180-13187
33. Mazur, S. J., and Grossman, L. (1991) Biochemistry 30 4432-4443
34. Park, H. W., Kim, S. T., Sancar, A., and Deisenhofer, J. (1995) Science 268, 1866-1872
35. Liu, Y., Prasad, R., Beard, W. A., Kedar, P. S., Hou, E. W., Shock, D. D., and Wilson, S. H. (2007) J. Biol. Chem. 282, 13532-13541
36. Strauss, P. R., Beard, W. A., Patterson, T. A., and Wilson, S. H. (1997) J. Biol. Chem. 272, 1302-1307
37. Vande Berg, B. J., Beard, W. A., and Wilson, S. H. (2001) J. Biol. Chem. 276, 3408-3416
38. Beard, W. A., Shock, D. D., and Wilson, S. H. (2004) J. Biol. Chem. 279, 31921-31929
39. Suetake, I., Morimoto, Y., Fuchikami, T., Abe, K., and Tajima, S. (2006) J. Biochem. (Tokyo) 140, 553-559
40. Mergny, J. L., De Cian, A., Ghelab, A., Sacca, B., and Lacroix, L. (2005) Nucleic Acids Res. 33, 81-94
41. Pischel, U., and Nau, W. M. (2001) J. Am. Chem. Soc. 123, 9727-9737
42. Hadd, A. G., and Birks, J. W. (1996) J. Org. Chem. 61, 2657-2663
43. Ohkubo, K., and Fukuzumi, S. (2005) J. Phys. Chem. A. 109, 1105-1113
44. Roe, J. H., Burgess, R. R., and Record, M. T., Jr. (1984) J. Mol. Biol. 176, 495-522