Structural Studies of an Oligodeoxynucleotide Containing a Trimethylene Interstrand Cross-Link in a 5‘-(CpG) Motif: Model of a Malondialdehyde Cross-Link
- 1 February 2001
- journal article
- research article
- Published by American Chemical Society (ACS) in Journal of the American Chemical Society
- Vol. 123 (8) , 1730-1739
- https://doi.org/10.1021/ja003163w
Abstract
Malondialdehyde (MDA), a known mutagen and suspected carcinogen, is a product of lipid peroxidation and byproduct of eicosanoid biosynthesis. MDA can react with DNA to generate potentially mutagenic adducts on adenine, cytosine, and particularly guanine. In addition, repair-dependent frame shift mutations in a GCGCGC region of Salmonella typhimuriumhisD3052 have been attributed to formation of interstrand cross-links (Mukai, F. H. and Goldstein, B. D. Science1976, 191, 868−869). The cross-linked species is unstable and has never been characterized but has been postulated to be a bis-imino linkage between N2 positions of guanines. An analogous linkage has now been investigated as a stable surrogate using the self-complementary oligodeoxynucleotide sequence 5‘-d(AGGCG*CCT)2, in which G* represents guanines linked via a trimethylene chain between N2 positions. The solution structure, obtained by NMR spectroscopy and molecular dynamics using a simulated annealing protocol, revealed the cross-link only minimally distorts duplex structure in the region of the cross-link. The tether is accommodated by partially unwinding the duplex at the lesion site to produce a bulge and tipping the guanine residues; the two guanines and the tether attain a nearly planar conformation. This distortion did not result in significant bending of the DNA, a result which was confirmed by gel electrophoresis studies of multimers of a 21-mer duplex containing the cross-link.Keywords
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