Enhanced uranyl photocleavage across the minor groove of all (A/T)4 sequences indicates a similar narrow minor groove conformation

Journal of Molecular Recognition : JMR
S H Sönnichsen, P E Nielsen

Abstract

The uranyl(VI)-mediated photocleavage of a Drew-Dickerson sequence oligonucleotide (5'-dGATCACGC-GAATTCGCGT) either as the (self-complementary) duplex or cloned into the BamH1 site of pUC19 has been studied. At pH 6.5 in acetate buffer relatively enhanced photocleavage is observed at the 3'-end of the AATT sequence corresponding to maximum cleavage across the minor groove in the A/T tract. Thus maximum cleavage correlates with minimum minor groove width in the crystal structure and also with the largest electronegative potential according to computations. Using plasmid constructs with cloned inserts of the type [CGCG(A/T4)]n, we also analysed all possible sequence combinations of the (A/T)4 tract and in all cases we observed maximum uranyl-mediated photocleavage across the minor groove in the (A/T)4 tract without any significant differences between the various sequences. From these results we infer that DNA double helices of all (A/T)4 sequences share the same narrow minor groove helix conformation.

References

Jan 5, 1991·Journal of Molecular Biology·K YanagiR E Dickerson
Oct 2, 1990·Biochemistry·D S Sigman
Jul 11, 1990·Nucleic Acids Research·P E NielsenC Jeppesen
Jul 15, 1984·Journal of Molecular Biology·H R Drew
May 25, 1983·Journal of Molecular Biology·R E Dickerson
Aug 1, 1981·Quarterly Reviews of Biophysics·A Pullman, B Pullman
Oct 25, 1982·Journal of Molecular Biology·C R Calladine
Oct 23, 1980·Nature·R WingR E Dickerson
Apr 26, 1994·Proceedings of the National Academy of Sciences of the United States of America·R E DickersonS Neidle

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Citations

Nov 13, 2013·Journal of Biological Inorganic Chemistry : JBIC : a Publication of the Society of Biological Inorganic Chemistry·Janice WilsonDiane M Stearns
May 1, 1996·Journal of Molecular Recognition : JMR·P E Nielsen, N E Møllegaard
Apr 12, 2011·Nucleic Acids Research·Søren LindemoseNiels Erik Møllegaard
Mar 25, 2005·Nucleic Acids Research·Søren LindemoseNiels Erik Møllegaard
Jun 9, 2005·Chemical Reviews·Konrad SzaciłowskiGrazyna Stochel
May 25, 2005·Biochemistry·Niels Erik MøllegaardPeter E Nielsen
Oct 27, 2005·Journal of the American Chemical Society·Zoltán SzabóIngeborg Csöregh

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