A specific partner for abasic damage in DNA (original) (raw)
References
Moran, S., Ren, R. X.-F. & Kool, E. T. Athymidine triphosphate shape mimic lacking Watson–Crick pairing ability is replicated with high specificity. Proc. Natl Acad. Sci. USA94, 10506–10511 (1997). ArticleADSCAS Google Scholar
Goodman, M. F. Hydrogen bonding revisited: geometric selection as a principal determinant of DNA replication fidelity. Proc. Natl Acad. Sci. USA94, 10493–10495 (1997). ArticleADSCAS Google Scholar
Morales, J. C. & Kool, E. T. Efficient replication of a DNA base pair between non-hydrogen-bonded nucleoside analogues. Nature Struct. Biol.5, 950–954 (1998). ArticleCAS Google Scholar
Moran, S., Ren, R. X.-F., Rumney, S. & Kool, E. T. Difluorotoluene, a nonpolar isostere of thymine, codes specifically and efficiently for adenine in DNA replication. J. Am. Chem. Soc.119, 2056–2057 (1997). ArticleCAS Google Scholar
Goodman, M. F., Creighton, S., Bloom, L. B. & Petruska, J. Biochemical basis of DNA replication fidelity. Crit. Rev. Biochem. Mol. Biol.28, 83–126 (1993). ArticleCAS Google Scholar
Kool, E. T. Replication of non-hydrogen bonded bases by DNA polymerases: a mechanism for steric matching. Biopolymers (Nucleic Acid Sciences)48, 3–17 (1998). ArticleCAS Google Scholar
Loeb, L. A. & Preston, B. D. Mutagenesis by apurinic/apyrimidinic sites. Annu. Rev. Genet.20, 201–230 (1986). ArticleCAS Google Scholar
Ren, R. X.-F., Chaudhuri, N. C., Paris, P. L., Rumney, S. & Kool, E. T. Naphthalene, phenanthrene, and pyrene as DNA base analogues: synthesis, structure, and fluorescence in DNA. J. Am. Chem. Soc.118, 7671–7678 (1996). ArticleCAS Google Scholar
Matray, T. J. & Kool, E. T. Selective and stable DNA base pairing without hydrogen bonds. J. Am. Chem. Soc.120, 6191–6192 (1998). ArticleCAS Google Scholar
Mishra, M. C. & Broom, A. D. Anovel synthesis of nucleoside 5′ triphosphates. J. Chem. Soc., Chem. Commun. 1276–1277 (1991).
Hoard, D. E. & Ott, D. G. Conversion of mono- and oligodeoxyribonucleotides to 5′-triphosphates. J. Am. Chem. Soc.87, 1785–1788 (1965). ArticleCAS Google Scholar
Millican, T. A. et al. . Synthesis and biophysical studies of short oligodeoxynucleotides with novel modifications. Nucleic Acids Res.12, 7435–7453 (1984). ArticleCAS Google Scholar
Takeshita, M., Chang,,, C.,, Johnson, F., Will, S. & Grollman, A. P. Oligodeoxy-nucleotides containing synthetic abasic sites. Model substrates for DNA polymerases and apurinic/apyrimidinic endonucleases. J. Biol. Chem.262, 10171–10179 (1987). CASPubMed Google Scholar
Randall, S. K., Eritja, R., Kaplan, B. E., Petruska, J. & Goodman, M. F. Nucleotide insertion kinetics opposite abasic lesions in DNA. J. Biol. Chem.262, 6864–6870 (1987). CASPubMed Google Scholar
Sagher, D. & Strauss, B. Insertion of nucleotides opposite apurinic/apyrimidinic sites in deoxyribonucleic acid during in vitro synthesis: uniqueness of adenine nucleotides. Biochemistry22, 4518–4526 (1983). ArticleCAS Google Scholar
Schaaper, R. M., Kunkel, T. A. & Loeb, L. A. Infidelity of DNA synthesis associated with bypass of apurinic sites. Proc. Natl Acad. Sci. USA80, 487–491 (1983). ArticleADSCAS Google Scholar
Lawrence, C. W., Borden, A., Banerjee, S. K. & LeClerc, J. E. Mutation frequency and spectrum resulting from a single abasic site in a single-stranded vector. Nucleic Acids Res.18, 2153–2157 (1990). ArticleCAS Google Scholar
Paz-Elizur, T., Takeshita, M. & Livneh, Z. Mechanism of bypass synthesis through an abasic site analog by DNA polymerase I. Biochemistry36, 1766–1773 (1997). ArticleCAS Google Scholar
Doublié, 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. Nature391, 251–258 (1998). ArticleADS Google Scholar
Kiefer, J. R., Mao, C., Braman, J. C. & Beese, L. S. Visualizing DNA replication in a catalytically active Bacillus DNA polymerase crystal. Nature391, 304–307 (1998). ArticleADSCAS Google Scholar
Huang, H., Chopra, R., Verdine, G. L. & Harrison, S. C. Structure of a covalently trapped catalytic complex of HIV-1 reverse transcriptase: implications for drug resistance. Science282, 1669–1675 (1998). ArticleADSCAS Google Scholar
Diederichsen, U. Selectivity of DNA replication: the importance of geometry over hydrogen bonding. Angew. Chem.37, 1655–1657 (1998). ArticleCAS Google Scholar
Fygenson, D. K. & Goodman, M. F. Appendix. Gel kinetic analysis of polymerase fidelity in the presence of multiple enzyme DNA encounters. J. Biol. Chem.272, 27931–27935 (1997). ArticleCAS Google Scholar
Shibutani, S., Takeshita, M. & Grollman, A. P. Translesional synthesis on DNA templates containing a single abasic site. A mechanistic study of the “A rule”. J. Biol. Chem.272, 13916–13921 (1997). ArticleCAS Google Scholar
Lindahl, T. & Nyberg, B. Rate of depurination of native deoxyribonucleic acid. Biochemistry11, 3610–3618 (1972). ArticleCAS Google Scholar
Weiss, B. & Grossman, L. Phosphodiesterases involved in DNA repair. Adv. Enzymol. Rel. Areas Mol. Biol.60, 1–34 (1972). Google Scholar
Ide, H. et al. . Synthesis and damage specificity of a novel probe for the detection of abasic sites in DNA. Biochemistry32, 8276–8283 (1993). ArticleCAS Google Scholar
Maulik, G. et al. . Novel non-isotopic detection of MutY enzyme-recognized mismatches in DNA via ultrasensitive detection of aldehydes. Nucleic Acids Res.27, 1316–1322 (1999). ArticleCAS Google Scholar
Denissenko, M. F., Pao, A., Tang, M. & Pfeifer, G. P. Preferential formation of benzo[a ]pyrene adducts at lung cancer mutational hotspots in p53. Science274, 430–432 (1996). ArticleADSCAS Google Scholar
Paris, P. L., Langenhan, J. & Kool, E. T. Probing DNA sequences in solution with a monomer–excimer fluorescence color change. Nucleic Acids Res.26, 3789–3793 (1998). ArticleCAS Google Scholar