Density functional theory theoretical studies

A wealth of spectroscopic (EPR, FTIR, Mossbauer, XAS), kinetic and mutated enzyme data has been published concerning the Ni - Fe active site and many review articles are available (e.g. [11,48,64-72]). In addition, many density functional theory (DFT) studies of the Ni - Fe active site have been reported, but consensus on the nature of the various structures and on the catalytic mechanism is lacking (e.g. [73-79]). These theoretical studies will not be further discussed here. 

Because of the complexity of the pathway, the sensitivity of the reagents involved, the heterogeneous nature of the reaction, and the limitations of modern experimental techniques and instrumentation, it is not surprising that a compelling picture of the mechanism of the Simmons-Smith reaction has yet to emerge. In recent years, the application of computational techniques to the study of the mechanism has become important. Enabling theoretical advances, namely the implementation of density functional theory, have finally made this complex system amenable to calculation. These studies not only provide support for earlier conclusions regarding the reaction mechanism, but they have also opened new mechanistic possibilities to view. 

Orlova et al. (2003) theoretically studied the mechanism of the firefly bioluminescence reaction on the basis of the hybrid density functional theory. According to their conclusion, changes in the color of light emission by rotating the two rings on the 2-2 axis is unlikely, whereas the participation of the enol-forms of oxyluciferin in bioluminescence is plausible but not essential to explain the multicolor emission. They predicted that the color of the bioluminescence depends on the polarization of the oxyluciferin molecule (at its OH and O-termini) in the microenvironment of the luciferase active site the... 

Fischer-type carbene complexes, generally characterized by the formula (CO)5M=C(X)R (M=Cr, Mo, W X=7r-donor substitutent, R=alkyl, aryl or unsaturated alkenyl and alkynyl), have been known now for about 40 years. They have been widely used in synthetic reactions [37,51-58] and show a very good reactivity especially in cycloaddition reactions [59-64]. As described above, Fischer-type carbene complexes are characterized by a formal metal-carbon double bond to a low-valent transition metal which is usually stabilized by 7r-acceptor substituents such as CO, PPh3 or Cp. The electronic structure of the metal-carbene bond is of great interest because it determines the reactivity of the complex [65-68]. Several theoretical studies have addressed this problem by means of semiempirical [69-73], Hartree-Fock (HF) [74-79] and post-HF [80-83] calculations and lately also by density functional theory (DFT) calculations [67, 84-94]. Often these studies also compared Fischer-type and... 

Geometries, hyperfme structure, and relative stabilities of the different positional isomers of monodeuterated benzene cations have been studied theoretically by density functional theory, using the B3-LYP functional, and experimentally by ESR and ENDOR spectroscopy. A comparison between theoretical and experimental results at 30 K gives acceptable agreement, but further experiments on multiply deuterated species should improve the analysis by making the effects of deuteration larger. 

Detection of the dA N1 and dC N3 adducts may not in one sense be particularly important for DNA based on their central position within the helical conformation and hydrogen bonding network.37,38 Still, the deoxynucleoside studies helped to focus attention on the reversibility of alkylation by QM and provided insight into the reactions of duplex DNA described below in Section 9.3. Reaction at the deoxynucleoside level also provided an essential system for developing a theoretical treatment of QM reaction.50-52 Computations based on density functional theory well rationalized the published results on d A and correctly anticipated the results on dG and dC reviewed above and described in more detail in Chapter 2 (Freccero). 

Deng, L., Ziegler, T., 1997, Theoretical Study of the Oxidation of Alcohols to Aldehyde by d° Transition-Metal-Oxo Complexes Combined Approach Based on Density Functional Theory and die Intrinsic Reaction Coordinate Method , Organometallics, 16, 716. 

A theoretical study of the reaction mechanism for addition of organozincate complexes to aldehydes was recently performed using density functional theory.298 It has been suggested that the addition takes place through formation of a four-centered transition state and, therefore, it can be considered a typical nucleophilic reaction. 

There are many varieties of density functional theories depending on the choice of ideal systems and approximations for the excess free energy functional. In the study of non-uniform polymers, density functional theories have been more popular than integral equations for a variety of reasons. A survey of various theories can be found in the proceedings of a symposium on chemical applications of density functional methods [102]. This section reviews the basic concepts and tools in these theoretical methods including techniques for numerical implementation. 

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