Entropic contributions

Page, M. L., Jencks, W. P. Entropic contributions to rate accelerations in enzymic and intramolecular interactions and the chelate effect. Proc. Natl. Acad. Sci. USA 68 (1971) 1678-1683... 

To conclude this section let us note that already, with this very simple model, we find a variety of behaviors. There is a clear effect of the asymmetry of the ions. We have obtained a simple description of the role of the major constituents of the phenomena—coulombic interaction, ideal entropy, and specific interaction. In the Lie group invariant (78) Coulombic attraction leads to the term -cr /2. Ideal entropy yields a contribution proportional to the kinetic pressure 2 g +g ) and the specific part yields a contribution which retains the bilinear form a g +a g g + a g. At high charge densities the asymptotic behavior is determined by the opposition of the coulombic and specific non-coulombic contributions. At low charge densities the entropic contribution is important and, in the case of a totally symmetric electrolyte, the effect of the specific non-coulombic interaction is cancelled so that the behavior of the system is determined by coulombic and entropic contributions. 

Some P values are greatly in excess of unity, and these may result from very favorable entropic contributions. This factor can be considered quantitatively later in this chapter. 

For the phosphoric anhydrides, and for most of the high-energy compounds discussed here, there is an additional entropic contribution to the free energy of hydrolysis. Most of the hydrolysis reactions of Table 3.3 result in an increase in the number of molecules in solution. As shown in Figure 3.11, the hydrolysis of ATP (as pH values above 7) creates three species—ADP, inorganic phosphate (Pi), and a hydrogen ion—from only two reactants (ATP and HgO). The entropy of the solution increases because the more particles, the more disordered the system. (This effect is ionization-dependent because, at low pH, the... 

An important part of the optimization process is the stabilization of the monomer-template assemblies by thermodynamic considerations (Fig. 6-11). The enthalpic and entropic contributions to the association will determine how the association will respond to changes in the polymerization temperature [18]. The change in free volume of interaction will determine how the association will respond to changes in polymerization pressure [82]. Finally, the solvent s interaction with the monomer-template assemblies relative to the free species indicates how well it will stabilize the monomer-template assemblies in solution [16]. Here each system must be optimized individually. Another option is simply to increase the concentration of the monomer or the template. In the former case, a problem is that the crosslinking as well as the potentially nonselective binding will increase simultaneously. In the... 

In the following section we will only consider the contribution to z0 from the configurations which are within the solvent cage region (the remaining contributions are evaluated in Exercise 5.1). Thus we will be focusing on entropic contributions to Ag at rather than AG. ... 

After learning to estimate AG7" and AS, we might ask how AASf is affected by the steric restriction of the protein environment. As is clear from eq. (9.7), we need the differences between the entropic contributions to A G rather than the individual AS. This requires the examination of the difference between the potential surfaces of the protein and solution reaction. Here we exploit the fact that the electrostatic potential changes rather slowly and use the approximation... 

The simplest way of thinking about the entropic contribution is to consider the half-way stage in the formation of a chelate complex (Fig. 8-3). 

The value should be that of single polymer chain elasticity caused by entropic contribution. At first glance, the force data fluctuated a great deal. However, this fluctuation was due to the thermal noise imposed on the cantilever. A simple estimation told us that the root-mean-square (RMS) noise in the force signal (AF-lS-b pN) for an extension length from 300 to 350 nm was almost comparable with the thermal noise, AF= -21.6 pN. 

One weakness of this treatment, however, is that it neglects entropic contributions. Entropic contributions were considered in the free energy profiles (FEP) calculated earlier using umbrella sampling [58] and Monte Carlo Free energy Perturbation [59], both using a QM/MM scheme and the AMI Hamiltonian for the QM part. Our group used the same SIESTA DFT-based QM/MM method described above... 

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