Free energy parameters for parameter file conversion. More...

Detailed Description

Free energy parameters for parameter file conversion.

This file contains the free energy parameters used in ViennaRNAPackage 1.8.4. They are summarized in:

D.H.Mathews, J. Sabina, M. ZUker, D.H. Turner "Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure" JMB, 288, pp 911-940, 1999

Enthalpies taken from:

A. Walter, D Turner, J Kim, M Lyttle, P M"uller, D Mathews, M Zuker "Coaxial stckaing of helices enhances binding of oligoribonucleotides.." PNAS, 91, pp 9218-9222, 1994 D.H. Turner, N. Sugimoto, and S.M. Freier. "RNA Structure Prediction", Ann. Rev. Biophys. Biophys. Chem. 17, 167-192, 1988. John A.Jaeger, Douglas H.Turner, and Michael Zuker. "Improved predictions of secondary structures for RNA", PNAS, 86, 7706-7710, October 1989. L. He, R. Kierzek, J. SantaLucia, A.E. Walter, D.H. Turner "Nearest-Neughbor Parameters for GU Mismatches...." Biochemistry 1991, 30 11124-11132 A.E. Peritz, R. Kierzek, N, Sugimoto, D.H. Turner "Thermodynamic Study of Internal Loops in Oligoribonucleotides..." Biochemistry 1991, 30, 6428–6435