Temperature jump

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The temperature jump method is a technique used in chemical kinetics for the measurement of very rapid reaction rates. It is one of a class of chemical relaxation methods pioneered by the German physical chemist Manfred Eigen in the 1950s. In these methods, a reacting system initially at equilibrium is perturbed rapidly and then observed as it relaxes back to equilibrium. [1] [2] [3] In the case of temperature jump, the perturbation involves rapid heating which changes the value of the equilibrium constant, followed by relaxation to equilibrium at the new temperature.

The heating usually involves discharging of a capacitor (in the kV range) through a small volume (< 1 mL) of a conducting solution containing the molecule/reaction to be studied. In some versions of the apparatus used, the solution is heated instead by the output of a pulsed laser which emits in the near infra-red. When laser heating is employed, the solution need not be conducting. In both cases, the temperature of the solution is caused to rise by a small amount in microseconds (or less in the case of laser heating). This allows the study of the shift in equilibrium of reactions that equilibrate in milliseconds (or microseconds with laser temperature jump), these changes most commonly being observed using absorption spectroscopy or fluorescence spectroscopy. Due to the small volumes involved the temperature of the solution returns to that of its surroundings in minutes. [4]

The fractional extent of the reaction (i.e. the percentage change in concentration of a measurable species) depends on the molar enthalpy change (ΔH°) between the reactants and products and the equilibrium position. If K is the equilibrium constant and dT is the change in temperature then the enthalpy change is given by the Van 't Hoff equation:

where R is the universal gas constant and T is the absolute temperature. When a single step in a reaction is perturbed in a temperature jump experiment, the reaction follows a single exponential decay function with time constant equal to a function of the forward (ka) and reverse (kb) rate constants. For the perturbation of a simple equilibrium which is first order in both directions, the reciprocal of the time constant equals the sum of the two rate constants [2]

The two rate constants can be determined from the values of and the equilibrium constant :, yielding two equations for two unknowns.

In more complex reaction networks, when multiple reaction steps are perturbed, then the reciprocal time constants are given by the eigenvalues of the characteristic rate equations. The ability to observe intermediate steps in a reaction pathway is one of the attractive features of this technology. [5]

Related chemical relaxation methods include pressure jump, [6] [3] electric field jump [6] and pH jump. [3] [7]

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In a chemical reaction, chemical equilibrium is the state in which both the reactants and products are present in concentrations which have no further tendency to change with time, so that there is no observable change in the properties of the system. This state results when the forward reaction proceeds at the same rate as the reverse reaction. The reaction rates of the forward and backward reactions are generally not zero, but they are equal. Thus, there are no net changes in the concentrations of the reactants and products. Such a state is known as dynamic equilibrium.

<span class="mw-page-title-main">Activation energy</span> Energy that must be input to a system to undergo a reaction or process

In chemistry and physics, activation energy is the minimum amount of energy that must be provided for compounds to result in a chemical reaction. The activation energy (Ea) of a reaction is measured in joules per mole (J/mol), kilojoules per mole (kJ/mol) or kilocalories per mole (kcal/mol). Activation energy can be thought of as the magnitude of the potential barrier separating minima of the potential energy surface pertaining to the initial and final thermodynamic state. For a chemical reaction to proceed at a reasonable rate, the temperature of the system should be high enough such that there exists an appreciable number of molecules with translational energy equal to or greater than the activation energy. The term "activation energy" was introduced in 1889 by the Swedish scientist Svante Arrhenius.

In physical chemistry, the Arrhenius equation is a formula for the temperature dependence of reaction rates. The equation was proposed by Svante Arrhenius in 1889, based on the work of Dutch chemist Jacobus Henricus van 't Hoff who had noted in 1884 that the van 't Hoff equation for the temperature dependence of equilibrium constants suggests such a formula for the rates of both forward and reverse reactions. This equation has a vast and important application in determining the rate of chemical reactions and for calculation of energy of activation. Arrhenius provided a physical justification and interpretation for the formula. Currently, it is best seen as an empirical relationship. It can be used to model the temperature variation of diffusion coefficients, population of crystal vacancies, creep rates, and many other thermally-induced processes/reactions. The Eyring equation, developed in 1935, also expresses the relationship between rate and energy.

<span class="mw-page-title-main">Reaction rate</span> Speed at which a chemical reaction takes place

The reaction rate or rate of reaction is the speed at which a chemical reaction takes place, defined as proportional to the increase in the concentration of a product per unit time and to the decrease in the concentration of a reactant per unit time. Reaction rates can vary dramatically. For example, the oxidative rusting of iron under Earth's atmosphere is a slow reaction that can take many years, but the combustion of cellulose in a fire is a reaction that takes place in fractions of a second. For most reactions, the rate decreases as the reaction proceeds. A reaction's rate can be determined by measuring the changes in concentration over time.

A single chemical reaction is said to be autocatalytic if one of the reaction products is also a catalyst for the same or a coupled reaction. Such a reaction is called an autocatalytic reaction.

<span class="mw-page-title-main">Instanton</span> Solitons in Euclidean spacetime

An instanton is a notion appearing in theoretical and mathematical physics. An instanton is a classical solution to equations of motion with a finite, non-zero action, either in quantum mechanics or in quantum field theory. More precisely, it is a solution to the equations of motion of the classical field theory on a Euclidean spacetime.

Chemical kinetics, also known as reaction kinetics, is the branch of physical chemistry that is concerned with understanding the rates of chemical reactions. It is to be contrasted with chemical thermodynamics, which deals with the direction in which a reaction occurs but in itself tells nothing about its rate. Chemical kinetics includes investigations of how experimental conditions influence the speed of a chemical reaction and yield information about the reaction's mechanism and transition states, as well as the construction of mathematical models that also can describe the characteristics of a chemical reaction.

The equilibrium constant of a chemical reaction is the value of its reaction quotient at chemical equilibrium, a state approached by a dynamic chemical system after sufficient time has elapsed at which its composition has no measurable tendency towards further change. For a given set of reaction conditions, the equilibrium constant is independent of the initial analytical concentrations of the reactant and product species in the mixture. Thus, given the initial composition of a system, known equilibrium constant values can be used to determine the composition of the system at equilibrium. However, reaction parameters like temperature, solvent, and ionic strength may all influence the value of the equilibrium constant.

An activity coefficient is a factor used in thermodynamics to account for deviations from ideal behaviour in a mixture of chemical substances. In an ideal mixture, the microscopic interactions between each pair of chemical species are the same and, as a result, properties of the mixtures can be expressed directly in terms of simple concentrations or partial pressures of the substances present e.g. Raoult's law. Deviations from ideality are accommodated by modifying the concentration by an activity coefficient. Analogously, expressions involving gases can be adjusted for non-ideality by scaling partial pressures by a fugacity coefficient.

In chemical kinetics a reaction rate constant or reaction rate coefficient, k, quantifies the rate and direction of a chemical reaction.

In the physical sciences, relaxation usually means the return of a perturbed system into equilibrium. Each relaxation process can be categorized by a relaxation time τ. The simplest theoretical description of relaxation as function of time t is an exponential law exp(−t/τ).

Fluorescence correlation spectroscopy (FCS) is a statistical analysis, via time correlation, of stationary fluctuations of the fluorescence intensity. Its theoretical underpinning originated from L. Onsager's regression hypothesis. The analysis provides kinetic parameters of the physical processes underlying the fluctuations. One of the interesting applications of this is an analysis of the concentration fluctuations of fluorescent particles (molecules) in solution. In this application, the fluorescence emitted from a very tiny space in solution containing a small number of fluorescent particles (molecules) is observed. The fluorescence intensity is fluctuating due to Brownian motion of the particles. In other words, the number of the particles in the sub-space defined by the optical system is randomly changing around the average number. The analysis gives the average number of fluorescent particles and average diffusion time, when the particle is passing through the space. Eventually, both the concentration and size of the particle (molecule) are determined. Both parameters are important in biochemical research, biophysics, and chemistry.

The Eyring equation is an equation used in chemical kinetics to describe changes in the rate of a chemical reaction against temperature. It was developed almost simultaneously in 1935 by Henry Eyring, Meredith Gwynne Evans and Michael Polanyi. The equation follows from the transition state theory, also known as activated-complex theory. If one assumes a constant enthalpy of activation and constant entropy of activation, the Eyring equation is similar to the empirical Arrhenius equation, despite the Arrhenius equation being empirical and the Eyring equation based on statistical mechanical justification.

In MRI and NMR spectroscopy, an observable nuclear spin polarization (magnetization) is created by a homogeneous magnetic field. This field makes the magnetic dipole moments of the sample precess at the resonance (Larmor) frequency of the nuclei. At thermal equilibrium, nuclear spins precess randomly about the direction of the applied field. They become abruptly phase coherent when they are hit by radiofrequent (RF) pulses at the resonant frequency, created orthogonal to the field. The RF pulses cause the population of spin-states to be perturbed from their thermal equilibrium value. The generated transverse magnetization can then induce a signal in an RF coil that can be detected and amplified by an RF receiver. The return of the longitudinal component of the magnetization to its equilibrium value is termed spin-latticerelaxation while the loss of phase-coherence of the spins is termed spin-spin relaxation, which is manifest as an observed free induction decay (FID).

In probability theory, the Gillespie algorithm generates a statistically correct trajectory of a stochastic equation system for which the reaction rates are known. It was created by Joseph L. Doob and others, presented by Dan Gillespie in 1976, and popularized in 1977 in a paper where he uses it to simulate chemical or biochemical systems of reactions efficiently and accurately using limited computational power. As computers have become faster, the algorithm has been used to simulate increasingly complex systems. The algorithm is particularly useful for simulating reactions within cells, where the number of reagents is low and keeping track of the position and behaviour of individual molecules is computationally feasible. Mathematically, it is a variant of a dynamic Monte Carlo method and similar to the kinetic Monte Carlo methods. It is used heavily in computational systems biology.

Fluorescence anisotropy or fluorescence polarization is the phenomenon where the light emitted by a fluorophore has unequal intensities along different axes of polarization. Early pioneers in the field include Aleksander Jablonski, Gregorio Weber, and Andreas Albrecht. The principles of fluorescence polarization and some applications of the method are presented in Lakowicz's book.

The Stern–Volmer relationship, named after Otto Stern and Max Volmer, allows the kinetics of a photophysical intermolecular deactivation process to be explored.

<span class="mw-page-title-main">Transition state theory</span> Theory describing the reaction rates of elementary chemical reactions

In chemistry, transition state theory (TST) explains the reaction rates of elementary chemical reactions. The theory assumes a special type of chemical equilibrium (quasi-equilibrium) between reactants and activated transition state complexes.

Equilibrium chemistry is concerned with systems in chemical equilibrium. The unifying principle is that the free energy of a system at equilibrium is the minimum possible, so that the slope of the free energy with respect to the reaction coordinate is zero. This principle, applied to mixtures at equilibrium provides a definition of an equilibrium constant. Applications include acid–base, host–guest, metal–complex, solubility, partition, chromatography and redox equilibria.

Pressure jump is a technique used in the study of chemical kinetics. It involves making rapid changes to the pressure of an experimental system and observing the return to equilibrium or steady state. This allows the study of the shift in equilibrium of reactions that equilibrate in periods between milliseconds to hours, these changes often being observed using absorption spectroscopy, or fluorescence spectroscopy though other spectroscopic techniques such as CD, FTIR or NMR can also be used.

References

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  2. 1 2 Atkins P. and de Paula J. Atkins' Physical Chemistry (8th ed., W.H.Freeman 2006) p.805, ISBN   0-7167-8759-8
  3. 1 2 3 Steinfeld J.I., Francisco J.S. and Hase W.L., Chemical Kinetics and Dynamics (2nd ed., Prentice-Hall 1998) p.140-3, ISBN   0-13-737123-3
  4. Daniel L. Purich, R. Donald Allison (1999). Handbook of biochemical kinetics. Academic Press. ISBN   0-12-568048-1.
  5. Urbanke, C; Wray, J. (2001). "A fluorescence temperature-jump study of conformational transitions in myosin subfragment 1" (PDF). Biochemical Journal. 358 (Pt 1): 165–173. doi:10.1042/0264-6021:3580165. PMC   1222044 . PMID   11485564.
  6. 1 2 Espenson J.H. Chemical Kinetics and Reaction Mechanisms (2nd ed., McGraw-Hill 2002) p.256 ISBN   0-07-288362-6
  7. Gutman, M. and Huppert, D.J. (1979) Biochem. Biophys. Methods 1, 9-19