Solvent Effects on the Kinetics and Thermodynamics of Stacking in Poly(cytidylic acid)

Susan M. Freier, K. O. Hill, T. G. Dewey, Douglas H. Turner, Luis A. Marky, Kenneth J. Breslauer

Research output: Contribution to journalArticlepeer-review

66 Scopus citations


The Raman laser temperature-jump technique has been used to measure the kinetics of the coil to helix reaction of poly(cytidylic acid) [poly(C)] in aqueous cosolvent mixtures. The rate of helix formation has a low activation energy and is proportional to reciprocal solvent viscosity. The observations suggest helix formation is rotationally diffusion controlled. The rate of coil formation in poly(C) has an activation energy of - 11 kcal/mol, presumably reflecting the electronic stacking interactions which stabilize the helix. Viscous cosolvents, glycerol or sucrose, slow down the rate of coil formation; acetonitrile and formamide at 5 mol % increase the rate relative to that in water. The polar cosolvents may specifically attack a cytosine stack. The absorbance vs. temperature profiles for poly(C) are analyzed with the one-dimensional Ising model. When only optical data are used, the cooperativity parameter, σ, and the enthalpy, ∆H, cannot be uniquely determined. A method is proposed that allows determination of σ by combining spectroscopic and calorimetric data. The values of σ derived for poly(C) are between 0.8 and 1.0, and AH is about -9 kcal/mol of stack. An alternative method using integration of the excess heat capacity curve and extrapolation to fully stacked and random coil species yields a ∆H of -7 kcal/mol of stack.

Original languageEnglish (US)
Pages (from-to)1419-1426
Number of pages8
Issue number6
StatePublished - Mar 1981
Externally publishedYes

ASJC Scopus subject areas

  • Biochemistry


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