Molecular dynamics simulation of the hydrated d(CGCGAATTCGCG)2 dodecamer

@inproceedings{Miskiewicz1993MolecularDS,
  title={Molecular dynamics simulation of the hydrated d(CGCGAATTCGCG)2 dodecamer},
  author={Karol Miąskiewicz and Roman Osman and Harel Weinstein},
  year={1993}
}
A 150-ps MD simulation of the DNA dodecamer d(CGCGAATTCGCG)[sub 2] surrounded by 22 sodium counterions and 1431 water molecules was performed with the AMBER force field. The trajectory of the simulation shows that the DNA structure was stable in the first 60 ps, it changed continuously in the interval 60-100 ps, and it stabilized again in the interval 100-150 ps. The structure was analyzed in the two time periods of simulation, 20-60 and 100-150 ps, in which the structure fluctuated around a… CONTINUE READING