DNA adduct bypass polymerization by Sulfolobus solfataricus DNA polymerase Dpo4: Analysis and crystal structures of multiple base pair substitution and frameshift products with the adduct 1,N2-ethenoguanine

Journal of Biological Chemistry

Volumn 280, Issue 33, 2005, Pages 29750-29764

  Zang, Hong ^a   Goodenough, Angela K ^a   Choi, Jeong Yun ^a   Irimia, Adriana ^a   Loukachevitch, Lioudmila V ^a   Kozekov, Ivan D ^a   Angel, Karen C ^a   Rizzo, Carmelo J ^a   Egli, Martin ^a   Guengerich, F Peter ^a  

^a VANDERBILT UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARCINOGENS; CRYSTAL STRUCTURE; ELECTROPHORESIS; HIGH PRESSURE LIQUID CHROMATOGRAPHY; LIPIDS; MASS SPECTROMETRY; MUTAGENS; OXIDATION; POLYMERIZATION; PROTEINS;

DNA POLYMERASE; MUTATIONS; SULFOLOBUS SOLFATARICUS; X RAY CRYSTAL STRUCTURES;

DNA SEQUENCES;

CARCINOGEN; DNA POLYMERASE; DNA POLYMERASE DPO4; GUANINE DERIVATIVE; MUTAGENIC AGENT; UNCLASSIFIED DRUG;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ARTICLE; BASE PAIRING; COMPLEX FORMATION; CRYSTAL STRUCTURE; DNA ADDUCT; DNA DAMAGE; DNA TEMPLATE; FRAMESHIFT MUTATION; GEL ELECTROPHORESIS; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; LIPID OXIDATION; MASS SPECTROMETRY; NONHUMAN; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN POLYMERIZATION; SULFOLOBUS SOLFATARICUS;

BINDING SITES; CRYSTALLOGRAPHY, X-RAY; DNA ADDUCTS; DNA POLYMERASE BETA; DNA PRIMERS; FRAMESHIFT MUTATION; GUANINE; MASS SPECTROMETRY; SULFOLOBUS SOLFATARICUS;

SULFOLOBUS SOLFATARICUS;

EID: 23844454020     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M504756200     Document Type: Article

References (57)

1. Kornberg, A., and Baker, T. A. (1992) DNA Replication, 2nd Ed., W. H. Freeman & Co., New York
2. Friedberg, E., Walker, G. C., and Siede, W. (1995) DNA Repair and Mutagenesis, American Society for Microbiology, Washington, D. C.
3. Searle, C. E., ed (1984) Chemical Carcinogens, Vols. 1 and 2, American Chemical Society, Washington, D. C.
4. Christmann, M., Tomicic, M. T., Roos, W. P., and Kaina, B. (2003) Toxicology 193, 3-34
5. Ames, B. N., Durston, W. E., Yamasaki, E., and Lee, F. D. (1973) Proc. Natl. Acad. Sci. U. S. A. 70, 2281-2285
6. Sattsangi, P. D., Leonard, N. J., and Frihart, C. R. (1977) J. Org. Chem. 42, 3292-3296
7. Singer, B., and Bartsch, H., (eds) (1999) Exocyclic DNA Adducts in Mutagenesis and Carcinogenesis, No. 150, International Agency for Research on Cancer Scientific Publications, Lyon, France
8. Guengerich, F. P., Kim, D.-H., and Iwasaki, M. (1991) Chem. Res. Toxicol. 4, 168-179
9. Guengerich, F. P., Persmark, M., and Humphreys, W. G. (1993) Chem. Res. Toxicol. 6, 635-648
10. Hecht, S. S., Young-Sciame, R., and Chung, F. L. (1992) Chem. Res. Toxicol. 5, 706-712
11. Kronberg, L., Sjöholm, R., and Karlsson, S. (1992) Chem. Res. Toxicol. 5, 852-855
12. Sodum, R. S., and Chung, F. L. (1988) Cancer Res. 48, 320-323
13. Morinello, E. J., Ham, A. J. L., Ranasinghe, A., Sangaiah, R., and Swenberg, J. A. (2001) Chem. Res. Toxicol. 14, 327-334
14. Lee, S. H., Arora, J. A., Oe, T., and Blair, I. A. (2005) Chem. Res. Toxicol. 18, 780-786
15. Langouët, S., Müller, M., and Guengerich, F. P. (1997) Biochemistry 36, 6069-6079
16. Langouët, S., Mican, A. N., Müller, M., Fink, S. P., Marnett, L. J., Muhle, S. A., and Guengerich, F. P. (1998) Biochemistry 37, 5184-5193
17. Akasaka, S., and Guengerich, F. P. (1999) Chem. Res. Toxicol. 12, 501-507
18. Saparbaev, M., Langouet, S., Privezentev, C. V., Guengerich, F. P., Cai, H., Elder, R. H., and Laval, J. (2002) J. Biol. Chem. 277, 26987-26993
19. Walker, G. C. (1984) Microbiol. Rev. 48, 60-93
20. Tang, M., Bruck, I., Eritja, R., Turner, J., Frank, E. G., Woodgate, R., O'Donnell, M., and Goodman, M. F. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 9755-9760
21. Woodgate, R. (1999) Genes Dev. 13, 2191-2195
22. Ding, J., Das, K., Baynton, K., and Fuchs, R. P. P. (2000) Trends Biochem. Sci. 25, 74-79
23. Johnson, R. E., Washington, M. T., Haracska, L., Prakash, S., and Prakash, L. (2000) Nature 406, 1015-1019
24. Ohmori, H., Friedberg, E. C., Fuchs, R. P. P., Goodman, M. F., Hanaoka, F., Hinkle, D., Kunkel, T. A., Lawrence, C. W., Livneh, Z., Nohmi, T., Prakash, L., Prakash, S., Todo, T., Walker, G. C., Wang, Z. G., and Woodgate, R. (2001) Mol. Cell 8, 7-8
25. Friedberg, E. C., Wagner, R., and Radman, M. (2002) Science 296, 1627-1630
26. Boudsocq, F., Kokoska, R. J., Plosky, B. S., Vaisman, A., Ling, H., Kunkel, T. A., Yang, W., and Woodgate, R. (2004) J. Biol. Chem. 279, 32932-32940
27. Nair, D. T., Johnson, R. E., Prakash, S., Prakash, L., and Aggarwal, A. K. (2004) Nature 430, 377-380
28. Uljon, S. N., Johnson, R. E., Edwards, T. A., Prakash, S., Prakash, L., and Aggarwal, A. K. (2004) Structure (Camb.) 12, 1395-1404
29. Yang, W. (2005) FEBS Lett. 579, 868-872
30. Boudsocq, F., Iwai, S., Hanaoka, F., and Woodgate, R. (2001) Nucleic Acids Res. 29, 4607-4616
31. Ling, H., Boudsocq, F., Woodgate, R., and Yang, W. (2001) Cell 107, 91-102
32. Ling, H., Boudsocq, F., Plosky, B. S., Woodgate, R., and Yang, W. (2003) Nature 424, 1083-1087
33. 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
34. Ling, H., Boudsocq, F., Woodgate, R., and Yang, W. (2004) Mol. Cell 13, 751-762
35. Fiala, K. A., and Suo, Z. (2004) Biochemistry 43, 2106-2115
36. Fiala, K. A., and Suo, Z. (2004) Biochemistry 43, 2116-2125
37. Patel, S. S., Wong, I., and Johnson, K. A. (1991) Biochemistry 30, 511-525
38. Furge, L. L., and Guengerich, F. P. (1997) Biochemistry 36, 6475-6487
39. Zang, H., Harris, T. M., and Guengerich, F. P. (2005) J. Biol. Chem. 280, 1165-1178
40. Wray, W., Boulikas, T., Wray, V. P., and Hancock, R. (1981) Anal. Biochem. 118, 197-203
41. Pace, C. N., Vajdos, F., Fee, L., Grimsley, G., and Gray, T. (1995) Protein Sci. 4, 2411-2423
42. Otwinowski, Z., and Minor, W. (1997) Methods Enzymol. 276, 307-326
43. Kabsch, W. (1988) J. Appl. Crystallogr. 21, 916-924
44. French, G. S., and Wilson, K. S. (1978) Acta Crystallogr. Sect. A 34, 517-525
45. Navaza, J. (1994) Acta Crystallogr. Sect. A 50, 157-163
46. Vellieux, F. M. D., and Dijkstra, B. W. (1997) J. Appl. Crystallogr. 30, 396-399
47. Brünger, 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
48. Laskowski, L. A., MacArthur, M. W., Moss, D. S., and Thornton, J. M. (1993) J. Appl. Crystallogr. 26, 283-291
49. Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C., and Ferrin, T. E. (2004) J. Comput. Chem. 25, 1605-1612
50. Ni, J., Pomerantz, S. C., Rozenski, J., Zhang, Y., and McCloskey, J. A. (1996) Anal. Chem. 68, 1989-1999
51. Owens, D. R., Bothner, B., Phung, Q., Harris, K., and Siuzdak, G. (1998) Bioorg. Med. Chem. 6, 1547-1554
52. Maxam, A. M., and Gilbert, W. (1977) Proc. Natl. Acad. Sci. U. S. A. 74, 560-564
53. Tippin, B., Kobayashi, S., Bertram, J. G., and Goodman, M. F. (2004) J. Biol. Chem. 279, 45360-45368
54. Wang, L., Wu, M., Yan, S. F., Patel, D. J., Geacintov, N. E., and Broyde, S. (2005) Chem. Res. Toxicol. 18, 441-456
55. Trincao, J., Johnson, R. E., Wolfle, W. T., Escalante, C. R., Prakash, S., Prakash, L., and Aggarwal, A. K. (2004) Nat. Struct. Mol. Biol. 11, 457-462
56. Saenger, W. (1984) Principles of Nucleic Acid Structure, pp. 155-157, Springer-Verlag Inc., New York
57. Cambillau, C., and Roussel, A. (1997) TURBO-FRODO, Version OpenGL.1, University Aix-Marseille II, Marseille, France