Effect of base mismatch on the electronic properties of DNA-DNA and LNA-DNA double strands: Density-functional theoretical calculations.
The electronic properties of double-stranded octametric DNA-DNA and LNA-DNA with a single-base mismatch were compared with those having fully complementary base pairs to quantify the effect of the base mismatch on hybridization energies (HE). A single T-G mismatch in the LNA-DNA gives rise to a significant reduction in HE, which is consistent with a significant lowering of the melting temperature for mismatched LNA-DNA. By contrast, the hybridization strength of the mismatched DNA-DNA depends strongly on local hydrogen-bonding arrangements in the mispaired T-G. The difference in HE is explained in terms of variation in charge distributions around the hydrogen-bonded base pairs.
Natsume
Takayuki
T
Department of Knowledge-based Information Engineering, Toyohashi University of Technology, Tenpaku-cho, Toyohashi 441-8580, Japan.
Ishikawa
Yasuyuki
Y
Dedachi
Kenichi
K
Tsukamoto
Takayuki
T
Kurita
Noriyuki
N
Nucleic Acids Res. 1998 Nov 1;26(21):4925-34
9776755
Chem Phys Lett. 2007 Jun 1;441(1-3):136-142
19587836
Chem Phys Lett. 2007 Jan 26;434(1-3):133-138
18548123
Expert Rev Mol Diagn. 2003 Jan;3(1):27-38
12528362
Trends Biotechnol. 2003 Feb;21(2):74-81
12573856