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PDBsum entry 3n4o
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References listed in PDB file
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Key reference
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Title
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Insights into the DNA stabilizing contributions of a bicyclic cytosine analogue: crystal structures of DNA duplexes containing 7,8-Dihydropyrido [2,3-D]pyrimidin-2-One.
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Authors
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E.C.Magat juan,
S.Shimizu,
X.Ma,
T.Kurose,
T.Haraguchi,
F.Zhang,
M.Tsunoda,
A.Ohkubo,
M.Sekine,
T.Shibata,
C.L.Millington,
D.M.Williams,
A.Takénaka.
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Ref.
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Nucleic Acids Res, 2010,
38,
6737-6745.
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PubMed id
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Abstract
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The incorporation of the bicyclic cytosine analogue
7,8-dihydropyrido[2,3-d]pyrimidin-2-one (X) into DNA duplexes results in a
significant enhancement of their stability (3-4 K per modification). To
establish the effects of X on the local hydrogen-bonding and base stacking
interactions and the overall DNA conformation, and to obtain insights into the
correlation between the structure and stability of X-containing DNA duplexes,
the crystal structures of [d(CGCGAATT-X-GCG)](2) and [d(CGCGAAT-X-CGCG)](2) have
been determined at 1.9-2.9 A resolutions. In all of the structures, the analogue
X base pairs with the purine bases on the opposite strands through Watson-Crick
and/or wobble type hydrogen bonds. The additional ring of the X base is stacked
on the thymine bases at the 5'-side and overall exhibits greatly enhanced
stacking interactions suggesting that this is a major contribution to duplex
stabilization.
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Headers
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