Replication by human DNA polymerase-ι occurs by Hoogsteen base-pairing

Nature

Volumn 430, Issue 6997, 2004, Pages 377-380

  Nair, Deepak T ^a   Johnson, Robert E ^b   Prakash, Satya ^b   Prakash, Louise ^b   Aggarwal, Aneel K ^a  

^a MOUNT SINAI SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF TEXAS MEDICAL BRANCH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CATALYST ACTIVITY; CRYSTAL STRUCTURE;

NUCLEOTIDE; POLYMERASE;

DNA;

ADENINE; CYTOSINE; DNA POLYMERASE; NUCLEOTIDE; THYMINE;

BIOLOGY;

ARTICLE; BASE PAIRING; CATALYSIS; CONTROLLED STUDY; CRYSTAL STRUCTURE; DNA ADDUCT; DNA CONFORMATION; DNA REPLICATION; DNA STRUCTURE; DNA TEMPLATE; NONHUMAN; PRIORITY JOURNAL;

EID: 3142674288     PISSN: 00280836     EISSN: None     Source Type: Journal    
DOI: 10.1038/nature02692     Document Type: Article

References (28)

1. Johnson, R. E., Washington, M. T., Haracska, L., Prakash, S. & Prakash, L. Eukaryotic polymerases ι and ζ act sequentially to bypass DNA lesions. Nature 406, 1015-1019 (2000).
2. Tissier, A., McDonald, J. P., Frank, E. G. & Woodgate, R. Polι, a remarkably error-prone human DNA polymerase. Genes Dev. 14, 1642-1650 (2000).
3. Zhang, Y., Yuan, F., Wu, X. & Wang, Z. Preferential incorporation of G opposite template T by the low-fidelity human DNA polymerase ι. Mol. Cell. Biol. 20, 7009-7108 (2000).
4. Haracska, L. et al. Targeting of human DNA polymerase ι to the replication machinery via interaction with PCNA. Proc. Natl Acad. Sci. USA 98, 14256-14261 (2001).
5. Washington, M. T., Johnson, R. E., Prakash, L. & Prakash, S. Human DNA polymerase ι utilizes different nucleotide incorporation mechanisms dependent upon the template base. Mol. Cell. Biol. 24, 936-943 (2004).
6. Prakash, S. & Prakash, L. Translesion DNA synthesis in eukaryotes: a one- or two-polymerase affair. Genes Dev. 16, 1872-1883 (2002).
7. Johnson, R. E., Prakash, S. & Prakash, L. Efficient bypass of a thymine-thymine dimer by yeast DNA polymerase Polη. Science 283, 1001-1004 (1999).
8. Washington, M. T., Johnson, R. E., Prakash, S. & Prakash, L. Accuracy of thymine-thymine dimer bypass by Saccharomyces cerevisiae DNA polymerase η. Proc. Natl Acad. Sci. USA 97, 3094-3099 (2000).
9. Johnson, R. E., Washington, M. T., Prakash, S. & Prakash, L. Fidelity of human DNA polymerase η. J. Biol. Chem. 275, 7447-7450 (2000).
10. Washington, M. T., Prakash, L. & Prakash, S. Mechanism of nucleotide incorporation opposite a thymine-thymine dimer by yeast DNA polymerase η. Proc. Natl Acad. Sci. USA 100, 12093-12098 (2003).
11. Johnson, R. E., Kondratick, C. M., Prakash, S. & Prakash, L. hRAD30 mutations in the variant form of xeroderma pigmentosum. Science 285, 263-265 (1999).
12. Masutani, C. et al. The XPV (xeroderma pigmentosum variant) gene encodes human DNA polymerase η. Nature 399, 700-704 (1999).
13. Trincao, J. et al. Structure of the catalytic core of S. cerevisiae DNA polymerase η: implications for translesion DNA synthesis. Mol. Cell 8, 417-426 (2001).
14. Ling, H., Boudsocq, F., Woodgate, R. & Yang, W. Crystal structure of a Y-family DNA polymerase in action: a mechanism for error-prone and lesion-bypass replication. Cell 107, 91-102 (2001).
15. Zhou, B.-L., Pata, J. D. & Steitz, T. A. Crystal structure of a DinB lesion bypass DNA polymerase catalytic fragment reveals a classic polymerase catalytic domain. Mol. Cell 8, 427-437 (2001).
16. Silvian, L. F., Toth, E. A., Pham, P., Goodman, M. F. & Ellenberger, T. Crystal structure of a DinB family error-prone DNA polymerase from Sulfolobus solfataricus. Nature Struct. Biol. 8, 984-989 (2001).
17. Steitz, T. A. DNA polymerases: structural diversity and common mechanisms. J. Biol. Chem. 274, 17395-17398 (1999).
18. Faili, A. et al. Induction of somatic hypermutation in immunoglobulin genes is dependent on DNA polymerase iota. Nature 419, 944-947 (2002).
19. Leontis, N. B., Stombaugh, J. & Westhof, E. The non-Watson-Crick base pairs and their associated isostericity matrices. Nucleic Acids Res. 30, 3497-3531 (2002).
20. Johnson, R. E., Trincao, I., Aggarwal, A. K., Prakash, S. & Prakash, L. Deoxynucleotide triphosphate binding mode conserved in Y family DNA polymerases. Mol. Cell. Biol. 23, 3008-3012 (2003).
21. DeLucia, A. M., Grindley, N. D. & Joyce, C. M. An error-prone family Y DNA polymerase (DinB homolog from Sulfolobus solfataricus) uses a 'steric gate' residue for discriminating against ribonucleotides. Nucleic Acids Res. 31, 4129-4137 (2003).
22. Doublie, S., Tabor, S., Long, A. M., Richardson, C. C. & Ellenberger, T. Crystal structure of a bacteriophage T7 DNA replication complex at 2.2 Å. resolution. Nature 391, 251-258 (1998).
23. Li, Y., Korolev, S. & Waksman, G. Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: structural basis for nucleotide incorporation. EMBO J. 17, 7514-7525 (1998).
24. Washington, M. T. et al. Efficient and error-free replication past a minor groove DNA adduct by the sequential action of human DNA polymerases ι and κ. Mol. Cell. Biol. 24, 5687-5693 (2004).
25. Terwilliger, T. C. & Berendzen, J. Automated MAD and MIR structure solution. Acta Crystallogr. D 55, 849-861 (1999).
26. Brunger, A. T. et al. Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr. D 54, 905-921 (1998).
27. Navaza, J. AMoRe: an automated package for molecular replacement. Acta Crystallogr. A 50, 157-163 (1994).
28. Jones, T. A., Zou, J.-Y., Cowan, S. W. & Kjeldgaard, M. Improved methods for building models in electron density maps and the location of errors in these models. Acta Crystallogr. A 47, 110-119 (1991).