Solvent effects on thermodynamics of double-helix formation in (dG-dC)3.
The thermodynamics of double-helix formation by (dG-dC)3 have been measured in aqueous solvent mixtures containing 10 mol % methanol, ethanol, 1-propanol, formamide, N,N-dimethylformamide, or urea and 20 mol % ethanol. Optical activity measurements indicate the conformation of the double helix at 3 degree C is the same in all the solvent mixtures except 20 mol % ethanol. All the cosolvents destabilize the helix relative to water. With 10 mol % alcohol cosolvents, this destabilization is associated with a more unfavorable entropy change averaging approximately 8% and a more favorable enthalpy change averaging approximately 5%. This is consistent with a small contribution of hydrophobic bonding to stability. In contrast, the destabilization by formamide, N,N-dimethylformamide, and urea is associated with a more unfavorable enthalpy change averaging approximately 23% and a more favorable entropy change averaging approximately 21%. Since all three of these cosolvents have dipole moments larger than water, this is consistent with increased competition for dipolar interactions between the nucleic acid bases. None of the results correlate with any one bulk solvent parameter such as surface tension, viscosity, or dielectric constant. With 20 mol % ethanol, optical activity measurements are consistent with a partial B to C form transition. This is associated with a 27% less favorable enthalpy and 25% more favorable entropy for helix formation relative to water. Since the B to C transition is associated with helix dehydration, this may imply a significant contribution of bound water to stability.
D000431:Ethanol; D009690:Nucleic Acid Conformation; D009838:Oligodeoxyribonucleotides; D009841:Oligonucleotides; D012997:Solvents; D013057:Spectrum Analysis; D013816:Thermodynamics; D014867:Water
D009838:Oligodeoxyribonucleotides; D009841:Oligonucleotides; D012997:Solvents; D014867:Water; D000431:Ethanol; C030178:tri-(deoxyguanylic acid-deoxycytidylic acid)