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J Biol Chem, Vol. 273, Issue 25, 15565-15573, June 19, 1998
From the Department of Chemistry, Wesleyan University,
Middletown, Connecticut 06459
Natural and exogenous processes can give rise to
abasic sites with either a purine or pyrimidine as the base on the
opposing strand. The solution state structures of the apyrimidinic DNA duplex, with D6 indicating an abasic site,
Structures of Apurinic and Apyrimidinic Sites in
Duplex DNAs
referred to as AD, and the apurinic DNA duplex with a dC17,
referred to as CD, have been determined. A particularly striking difference is that the abasic site in CD is predominantly a
hemiacetal, whereas in AD the 
and forms are equally present. Hydrogen bonding with water by the abasic site and the base on the
opposite strand appears to play a large role in determining the
structure near the damaged site. Comparison of these structures with
that of a duplex DNA containing a thymine glycol at the same position
as the abasic site and with that of a duplex DNA containing an abasic
site in the middle of a curved DNA sequence offers some insight into
the common and distinct structural features of damaged DNA sites.
Copyright © 1998 by The American Society for Biochemistry and Molecular Biology, Inc.
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