Interaction study between double-stranded DNA and berberine using capillary zone electrophoresis.
Two non-self-complementary 17-mer double-stranded DNA (dsDNA) with four different central base pairs were designed to systematically investigate the binding affinity and sequence specificity of berberine with dsDNA by capillary zone electrophoresis (CZE). The data analysis with the Kenndler model proved only low affinity between dsDNA and berberine and suggested some weak binding preference of berberine for AATT-containing to GGCC-containing dsDNA. The binding constant, Ka, between berberine and dsDNA(AB) was about (1.0 +/- 0.7) x 10(3) M(-1). In addition, the separation of single-stranded DNA (ssDNA) from dsDNA under simple electrophoretic conditions enabled CZE to be a potentially alternative tool to check the extent of DNA annealing, which is usually done by the time-consuming and labor-intensive slab electrophoresis.
Department of Chemistry, Tsinghua University, Beijing 100084, China. jf-wu03@mails.tsinghua.edu.cn
Juan-Fang
JF
Wu
Ling-Xin
LX
Chen
Guo-An
GA
Luo
Yong-Suo
YS
Liu
Yi-Ming
YM
Wang
Zhi-Hong
ZH
Jiang
D001483:Base Sequence; D001599:Berberine / Q000737:chemistry*; D004247:DNA / Q000737:chemistry*; D017931:DNA Primers; D019075:Electrophoresis, Capillary / Q000379:methods*
D017931:DNA Primers; D001599:Berberine; D004247:DNA