Relay catalysis

FIGURE 7.2. Two alternative mechanisms for the catalytic reaction of serine proteases. Route a corresponds to the electrostatic catalysis mechanism while route b corresponds to the double proton transfer (or the charge relay mechanism), gs ts and ti denote ground state, transition state and tetrahedral intermediate, respectively. 

Catalysis, specific acid, 163 Catalytic triad, 171,173 Cavity radius, of solute, 48-49 Charge-relay mechanism, see Serine proteases, charge-relay mechanism Charging processes, in solutions, 82, 83 Chemical bonding, 1,14 Chemical bonds, see also Valence bond model... 

Figure 7-7. Catalysis by chymotrypsin. The charge-relay system removes a proton from Ser 195, making it a stronger nucleophile. Activated Ser 195 attacks the peptide bond, forming a transient tetrahedral intermediate. Release of the amino terminal peptide is facilitated by donation of a proton to the newly formed amino group by His 57 of the charge-relay system, yielding an acyl-Ser 195 intermediate. His 57 and Asp 102 collaborate to activate a water molecule, which attacks the acyl-Ser 195, forming a second tetrahedral intermediate. The charge-relay system donates a proton to Ser 195, facilitating breakdown of tetrahedral intermediate to release the carboxyl terminal peptide .

The cyclization of alkenols can also occur through an interesting relay mechanism (Equation (125)). Under AuC13 catalysis, the alkyne of an enynol is first activated to promote a cationic G-G bond-forming cyclization with the alkene. The G-O bond-forming ring closure then occurs via capture of the carbocation by the alcohol.451... 

In most cases the electronic connection between an immobilized redox enzyme and the electrode requires a mediator to shuttle the electrons to the prosthetic group or some type of wiring that plays the same role. There are cases, however, especially those involving relatively small enzymes, where direct electron transfer takes place between the electrode and the prosthetic group or some electronic relay in the enzyme. Analysis of the catalysis responses then follows the principles described and illustrated in Section 4.3.2. Somewhat more complicated schemes are treated in references7, where illustrative experimental examples can also be found. 

R. L. Schowen, Structural and Energetic Aspects of Proteolytic Catalysis by Enzymes Charge-Relay Catalysis in the Function of Serine Proteases , in Mechanistic Principles of Enzyme Activity , Eds. J. F. Liebman, A. Greenberg, VCH, New York, 1988, p. 119 — 165. 

Schowen, R.L. (1988). Structural and energetic aspects of protolytic catalysis by enzymes charge-relay catalysis in the function of serine proteases. In Mechanistic Principles of Enzyme Activity, Liebman, J.P. and Greenberg, A. (eds), pp. 119-168. VCH Publishers, New York... 

Beeleth, E. S. and Pickart, C. M. Mechanism of ubiquitin conjugating enzyme E2—230K catalysis involving a thiol relay Biochemistry 1995, 35, 1664-71. 

Crystallographic studies (Blow, 1976) of the structure of the enzyme, enzyme-substrate complexes and enzyme-product complexes have identified a common feature in catalysis by the serine protease enzymes such as a-chymotrypsin. This is the well-known charge-relay system (44), in which... 

One of the important applications of mono- and multimetallic clusters is to be used as catalysts [186]. Their catalytic properties depend on the nature of metal atoms accessible to the reactants at the surface. The possible control through the radiolytic synthesis of the alloying of various metals, all present at the surface, is therefore particularly important for the catalysis of multistep reactions. The role of the size is twofold. It governs the kinetics by the number of active sites, which increase with the specific area. However, the most crucial role is played by the cluster potential, which depends on the nuclearity and controls the thermodynamics, possibly with a threshold. For example, in the catalysis of electron transfer (Fig. 14), the cluster is able to efficiently relay electrons from a donor to an acceptor, provided the potential value is intermediate between those of the reactants [49]. Below or above these two thresholds, the transfer to or from the cluster, respectively, is thermodynamically inhibited and the cluster is unable to act as a relay. The optimum range is adjustable by the size [63]. 

The association of sulfur and iron into simple to more complex molecular assemblies allows a great flexibility of electron transfer relays and catalysis in metalloproteins. Indeed, the array of different structures, the interactions with amino-acid residues and solvent and their effect on redox potential and spectroscopic signatures is both inspiring for chemists and electrochemists, and of paramount importance for the study of these centers in native conditions. Most of the simpler natural clusters have been synthesized and studied in the laboratory. Particularly, the multiple redox and spin states can be studied on pure synthetic samples with electrochemical and spectroscopic techniques such as EPR or Fe Mossbauer spectroscopy. More complex assembhes still resist structural... 

Several studies have tackled the structure of the diketopiperazine 1 in the solid state by spectroscopic and computational methods [38, 41, 42]. De Vries et al. studied the conformation of the diketopiperazine 1 by NMR in a mixture of benzene and mandelonitrile, thus mimicking reaction conditions [43]. North et al. observed that the diketopiperazine 1 catalyzes the air oxidation of benzaldehyde to benzoic acid in the presence of light [44]. In the latter study oxidation catalysis was interpreted to arise via a His-aldehyde aminol intermediate, common to both hydrocyanation and oxidation catalysis. It seems that the preferred conformation of 1 in the solid state resembles that of 1 in homogeneous solution, i.e. the phenyl substituent of Phe is folded over the diketopiperazine ring (H, Scheme 6.4). Several transition state models have been proposed. To date, it seems that the proposal by Hua et al. [45], modified by North [2a] (J, Scheme 6.4) best combines all the experimentally determined features. In this model, catalysis is effected by a diketopiperazine dimer and depends on the proton-relay properties of histidine (imidazole). R -OH represents the alcohol functionality of either a product cyanohydrin molecule or other hydroxylic components/additives. The close proximity of both R1-OH and the substrate aldehyde R2-CHO accounts for the stereochemical induction exerted by RfOH, and thus effects the asymmetric autocatalysis mentioned earlier. 

Generally speaking, the role of the enzyme consists of the selective and specific attraction of substrate and the highly efficient catalysis. Every enzyme has its own characteristic feature for example, the specificity in the binding and a charge-relay action in the catalysis in a-chymotrypsin, the contribution of the imidazole moiety as an electron donor to the electrophilicity of zinc ion in carboxypeptidase, the change in the spin state and the reactivity of the transition metal ion by the coordination of the imidazole in the hemochrome. These typical characteristic features are the result of the cooperative actions of the constituents. 

In addition, as stated above, the catalytic active center forms the charge-relay system and creates a high activity in the catalysis. Recent NMR studies support the concept of the charge-relay system (5, 6). By the theoretical calculation the importance of the charge-relay is also discussed (7). In both cases where Asp is absent, and where the water molecule is in place of His, the potential barrier of the reaction becomes higher and the substrate plays a role of reduction of the potential barrier of the reaction by 0.21 eV. 

Essentially, a-chymotrypsin has these characteristics the selectivity in the substrate binding, the charge-relay system in the active center and a contribution of the bound substrate to the catalysis, as cooperativities. 

This enzyme, which is relatively stable under reaction conditions, will retain 70% of its activity after 10 days at pH 5 and 25°C. Although it is not yet commercially available, it has been overexpressed in E. coli, making large quantities easily accessible.68 The detailed mechanism of DERA has been determined based on the atomic structure (ca. 1.0 A) combined with site-directed mutagenesis, kinetic, and NMR studies136 (Scheme 5Alb). A proton relay system composed of Lys and Asp appears to activate a conserved active-site water that functions as the critical mediator for proton transfer in acid-base catalysis. 

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