ALTERNATING D(G-A) SEQUENCES FORM A PARALLEL-STRANDED DNA HOMODUPLEX

被引:149
作者
RIPPE, K [1 ]
FRITSCH, V [1 ]
WESTHOF, E [1 ]
JOVIN, TM [1 ]
机构
[1] CNRS, INST BIOL MOLEC & CELLULAIRE, F-67084 STRASBOURG, FRANCE
关键词
DNA STRUCTURE; HOMOPURINE SEQUENCES; HOOGSTEEN BASE PAIRING; PYRENE FLUORESCENCE; VACUUM UV CD;
D O I
10.1002/j.1460-2075.1992.tb05463.x
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The oligonucleotides d[(G-A)7G] and d[(G-A)12G] self-associate under physiological conditions (10 mM MgCl2, neutral pH) into a stable double-helical structure (ps(RR)-DNA) in which the two polypurine strands are in a parallel orientation in contrast to the antiparallel disposition of conventional B-DNA. We have characterized ps(RR)-DNA by gel electrophoresis, UV absorption, vacuum UV circular dichroism, monomer-excimer fluorescence of oligonucleotides end-labelled with pyrene, and chemical probing with diethyl pyrocarbonate and dimethyl sulfate. The duplex is stable at pH 4-9, suggesting that the structure is compatible with, but does not require, protonation of the A residues. The data support a model derived from force-field analysis in which the parallel-stranded d(G-A)n helix is right-handed and constituted of alternating, symmetrical G(syn).G(syn) and A(anti).A(anti) base pairs with N1H...O6 and N6H...N7 hydrogen bonds, respectively. This dinucleotide structure may be the source of a negative peak observed at 190 nm in the vacuum UV CD spectrum, a feature previously reported only for left-handed Z-DNA. The related sequence d[(GAAGGA)4G] also forms a parallel-stranded duplex but one that is less stable and probably involves a slightly different secondary structure. We discuss the potential intervention Of ps(RR)DNA in recombination, gene expression and the stabilization of genomic structure.
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收藏
页码:3777 / 3786
页数:10
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