Hydrogen bonding of 7,8-dihydro-8-oxodeoxyguanosine with a charged residue in the little finger domain determines miscoding events in sulfolobus solfataricus DNA polymerase Dpo4

Journal of Biological Chemistry

Volumn 282, Issue 27, 2007, Pages 19831-19843

  Eoff, Robert L ^a   Irimia, Adriana ^a   Angel, Karen C ^a   Egli, Martin ^a   Guengerich, F Peter ^a  

^a VANDERBILT UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ENZYMATIC EFFICIENCY; ION-DIPOLE PAIR; LESION;

BIOCHEMISTRY; CONFORMATIONS; CRYSTAL STRUCTURE; DNA; HYDROGEN BONDS; MUTAGENESIS;

ENZYME KINETICS;

7,8 DIHYDRO 8 OXODEOXYGUANOSINE; 8 HYDROXYDEOXYGUANOSINE; ALANINE DERIVATIVE; ARGININE DERIVATIVE; DEOXYCYTIDINE TRIPHOSPHATE; DNA POLYMERASE; DNA POLYMERASE IV; GLUTAMINE DERIVATIVE; HISTIDINE DERIVATIVE; LEUCINE; UNCLASSIFIED DRUG;

ARTICLE; BASE MISPAIRING; BASE PAIRING; CATALYSIS; CRYSTAL STRUCTURE; ENZYME KINETICS; ENZYME MECHANISM; HYDROGEN BOND; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MUTANT; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN DOMAIN; SITE DIRECTED MUTAGENESIS; SULFOLOBUS SOLFATARICUS; TANDEM MASS SPECTROMETRY; WILD TYPE;

AMINO ACID SUBSTITUTION; ARCHAEAL PROTEINS; CRYSTALLOGRAPHY, X-RAY; DEOXYGUANOSINE; DNA POLYMERASE BETA; DNA, ARCHAEAL; HYDROGEN BONDING; MUTATION, MISSENSE; PROTEIN STRUCTURE, TERTIARY; SULFOLOBUS SOLFATARICUS;

SULFOLOBUS SOLFATARICUS;

EID: 34547136494     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M702290200     Document Type: Article

References (44)

1. Boyer, P. D. (1960) Annu. Rev. Biochem. 29, 15-44
2. Gerlt, J. A., and Babbitt, P. C. (2001) Annu. Rev. Biochem. 70, 209-246
3. Hammes-Schiffer, S., and Benkovic, S. J. (2006) Annu. Rev. Biochem. 75, 519-541
4. DeLucia, A. M., Chaudhuri, S., Potapova, O., Grindley, N. D., and Joyce, C. M. (2006) J. Biol. Chem. 281, 27286-27291
5. McElhinny, S. A., Stith, C. M., Burgers, P. M., and Kunkel, T. A. (2007) J. Biol. Chem. 282, 2324-2332
6. Johnson, K. A. (1993) Annu. Rev. Biochem. 62, 685-713
7. Kunkel, T. A. (2004) J. Biol. Chem. 279, 16895-16898
8. Joyce, C. M., and Benkovic, S. J. (2004) Biochemistry 43, 14317-14324
9. Choi, J.-Y., Stover, J. S., Angel, K. C., Chowdhury, G., Rizzo, C. J., and Guengerich, F. P. (2006) J. Biol. Chem. 281, 25297-25306
10. Ling, H., Boudsocq, F., Plosky, B. S., Woodgate, R., and Yang, W. (2003) Nature 424, 1083-1087
11. Ling, H., Boudsocq, F., Woodgate, R., and Yang, W. (2001) Cell 107, 91-102
12. Ling, H., Sayer, J. M., Plosky, B. S., Yagi, H., Boudsocq, F., Woodgate, R., Jerina, D. M., and Yang, W. (2004) Proc. Natl. Acad. Sci. U. S. A. 101, 2265-2269
13. Friedberg, E. C., Walker, G. C., Siede, W., Wood, R. D., Shultz, R. A., and Ellenberger, T. (2006) DNA Repair and Mutagenesis, 2nd Ed., ASM Press, Washington, D. C.
14. Prakash, S., Johnson, R. E., and Prakash, L. (2005) Annu. Rev. Biochem. 74, 317-353
15. Yang, W. (2003) Curr. Opin. Struct. Biol. 13, 23-30
16. Fiala, K. A., and Suo, Z. (2004) Biochemistry 43, 2116-2125
17. Fiala, K. A., and Suo, Z. (2004) Biochemistry 43, 2106-2115
18. Washington, M. T., Johnson, R. E., Prakash, S., and Prakash, L. (1999) J. Biol. Chem. 274, 36835-36838
19. Washington, M. T., Prakash, L., and Prakash, S. (2001) Cell 107, 917-927
20. Zang, H., Irimia, A., Choi, J.-Y., Angel, K. C., Loukachevitch, L. V., Egli, M., and Guengerich, F. P. (2006) J. Biol. Chem. 281, 2358-2372
21. Rechkoblit, O., Malinina, L., Cheng, Y., Kuryavyi, V., Broyde, S., Geacintov, N. E., and Patel, D. J. (2006) PLoS Biol. 4, e11
22. McAuley-Hecht, K. E., Leonard, G. A., Gibson, N. J., Thomson, J. B., Watson, W. P., Hunter, W. N., and Brown, T. (1994) Biochemistry 33, 10266-10270
23. Zang, H., Goodenough, A. K., Choi, J.-Y., Irimia, A., Loukachevitch, L. V., Kozekov, I. D., Angel, K. C., Rizzo, C. J., Egli, M., and Guengerich, F. P. (2005) J. Biol. Chem. 280, 29750-29764
24. Eoff, R. L., Irimia, A., Egli, M., and Guengerich, F. P. (2007) J. Biol. Chem. 282, 1456-1467
25. Christian, N. P., Reilly, J. P., Mokler, V. R., Wincott, F. E., and Ellington, A. D. (2001) J. Am. Soc. Mass Spectrom. 12, 744-753
26. Howard, A. J. (2000) Crystallographic Computing 7: Proceedings from the Macromolecular Crystallographic Computing School, Oxford University Press, Oxford, UK
27. Kabsch, W. (1988) J. Appl. Crystallogr. 21, 916-924
28. Otwinowski, Z., and Minor, W. (1997) Methods Enzymol. 276, 307-326
29. French, G. S., Wilson, K. S. (1978) Acta Crystallogr. Sect. A 34, 517-525
30. Vellieux, F. M., and Dijkstra, B. W. (1997) J. Appl. Crystallogr. 30, 396 -399
31. Brunger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J. S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T., and Warren, G. L. (1998) Acta Crystallogr. Sect. D Biol. Crystallogr. 54, 905-921
32. Ames, B. N. (1979) Science 204, 587-593
33. Brieba, L. G., Eichman, B. F., Kokoska, R. J., Doublie, S., Kunkel, T. A., and Ellenberger, T. (2004) EMBO J. 23, 3452-3461
34. Einolf, H. J., and Guengerich, F. P. (2001) J. Biol. Chem. 276, 3764-3771
35. Einolf, H. J., Schnetz-Boutaud, N., and Guengerich, F. P. (1998) Biochemistry 37, 13300-13312
36. Furge, L. L., and Guengerich, F. P. (1997) Biochemistry 36, 6475-6487
37. Hsu, G. W., Ober, M., Carell, T., and Beese, L. S. (2004) Nature 431, 217-221
38. Lowe, L. G., and Guengerich, F. P. (1996) Biochemistry 35, 9840-9849
39. Shibutani, S., Takeshita, M., and Grollman, A. P. (1991) Nature 349, 431-434
40. Carlson, K. D., and Washington, M. T. (2005) Mol. Cell. Biol. 25, 2169-2176
41. Haracska, L., Yu, S. L., Johnson, R. E., Prakash, L., and Prakash, S. (2000) Nat. Genet. 25, 458-461
42. Freisinger, E., Grollman, A. P., Miller, H., and Kisker, C. (2004) EMBO J. 23, 1494-1505
43. Wang, Y., Arora, K., and Schlick, T. (2006) Protein Sci. 15, 135-151
44. Trincao, J., Johnson, R. E., Escalante, C. R., Prakash, S., Prakash, L., and Aggarwal, A. K. (2001) Mol. Cell 8, 417-426