NDLI: Binding of Nonnatural α,β-Oligocytidylates with DNA Duplexes

Content Provider	Springer Nature Link
Author	Timofeev, E. N. Kochetkova, S. V. Florentiev, V. L.
Copyright Year	2004
Abstract	Binding of short fluorescently labeled AT-containing DNA duplexes with modified oligocytidylates is studied. The latter are modified to contain nonnatural α-anomers along with natural β-nucleotides; the nucleotide composition is selected according to the putative scheme of noncanonical triplex formation between duplex and oligomer bases. Nondenaturing gel electrophoresis is used to study the interaction of fluorescent duplexes with cytidyl oligomers and oligocytidylate self-association at low temperatures. A DNA duplex of random AT composition is shown to bind with an excess of the corresponding oligocytidylate in 0.1 M Tris-HCl in the presence of Mg$^{2+}$. Binding is observed at neutral pH values, while more basic pH (8.0) prevents binding of the AT duplex and oligocytidylate. Unlike oligonucleotides of random composition, a regular dA$_{30}$:dT$_{30}$ duplex does not bind with the dC strand. It is also shown that an alternating self-complementary duplex d(AT)$_{16}$ and oligocytidylate d(C$^{β}$C$^{α}$)$_{15}$ do not form complexes, and poly-dC self-associates are formed instead. The effect of 2′-O-methylation of the third strand on complex formation and self-association is also analyzed. The results suggest that a modified oligocytidylate binds with a random-composition duplex, albeit with lower efficiency.
Starting Page	459
Ending Page	464
Page Count	6
File Format	PDF
ISSN	00268933
Journal	Molecular Biology
Volume Number	38
Issue Number	3
e-ISSN	16083245
Language	English
Publisher	Kluwer Academic Publishers-Plenum Publishers
Publisher Date	2004-01-01
Publisher Place	New York
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Human Genetics Life Sciences Biochemistry
Content Type	Text
Resource Type	Article
Subject	Structural Biology Biophysics

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