title: Thermodynamic molecular switch in sequence-specific hydrophobic interaction: two computational models compared.
abstract: We have shown in our published work the existence of a thermodynamic switch in biological systems wherein a change of sign in DeltaCp(o)(T)reaction leads to a true negative minimum in the Gibbs free energy change of reaction, and hence, a maximum in the related K(eq). We have examined 35 pair-wise, sequence-specific hydrophobic interactions over the temperature range of 273-333 K, based on data reported by Nemethy and Scheraga in 1962. A closer look at a single example, the pair-wise hydrophobic interaction of leucine-isoleucine, will demonstrate the significant differences when the data are analyzed using the Nemethy-Scheraga model or treated by the Planck-Benzinger methodology which we have developed. The change in inherent chemical bond energy at 0 K, DeltaH(o)(T0) is 7.53 kcal mol(-1) compared with 2.4 kcal mol(-1), while <Ts> is 365 K as compared with 355 K, for the Nemethy-Scheraga and Planck-Benzinger model, respectively. At <Tm>, the thermal agitation energy is about five times greater than DeltaH(o)(T0) in the Planck-Benzinger model, that is 465 K compared to 497 K in the Nemethy-Scheraga model. The results imply that the negative Gibbs free energy minimum at a well-defined <Ts>, where TDeltaS(o) = 0 at about 355 K, has its origin in the sequence-specific hydrophobic interactions, which are highly dependent on details of molecular structure. The Nemethy-Scheraga model shows no evidence of the thermodynamic molecular switch that we have found to be a universal feature of biological interactions. The Planck-Benzinger method is the best known for evaluating the innate temperature-invariant enthalpy, DeltaH(o)(T0), and provides for better understanding of the heat of reaction for biological molecules.
authors.affiliation: Department of Biochemistry and Molecular Biology, Box 100245, College of Medicine, University of Florida, Gainesville, FL 32610-0245, USA. pwchun@biochem.med.ufl.edu
authors.forename: Paul W
authors.initials: PW
authors.lastname: Chun
mesh_terms: D055598:Chemical Phenomena; D002627:Chemistry, Physical; D003198:Computer Simulation; D004151:Dipeptides / Q000737:chemistry*; D057927:Hydrophobic and Hydrophilic Interactions; D008956:Models, Chemical; D013696:Temperature; D013816:Thermodynamics
chemical_list: D004151:Dipeptides