Molecular dynamics investigations of DNA triple helical models: unique features of the Watson-Crick duplex.

@article{Sekharudu1993MolecularDI,
  title={Molecular dynamics investigations of DNA triple helical models: unique features of the Watson-Crick duplex.},
  author={Chandra Sekharudu and Narayanarao Yathindra and Muttaiya Sundaralingam},
  journal={Journal of biomolecular structure & dynamics},
  year={1993},
  volume={11 2},
  pages={
          225-44
        }
}
We have built computer models of triple helical structures with a third poly(dT) strand Hoogsteen base paired to the major groove of a poly(dA).poly(dT) Watson-Crick (WC) base-paired duplex in the canonical A-DNA as well as B-DNA. For the A-DNA form, the sugar-phosphate backbone of the third strand intertwines and clashes with the poly(dA) strand requiring a radical alteration of the duplex to access the hydrogen bonding sites in the major groove. In contrast, when the duplex was in the… CONTINUE READING