Nucleophilic-electrophilic-general acid catalysis

Calixcrown 5, featuring two diethylaminomethyl side-arms at the polyether bridge, testifies an attempt at a higher order multifunctional catalysis of ester cleavage, namely, from nucleophilic-electrophilic to nucleophilic-electrophilic-general acid catalysis [20]. 

Looking at the mode of activation, one should consider two commonly accepted mechanisms (a) specific acid catalysis and (b) general acid catalysis. While specific acid catalysis refers to the reversible protonation of the electrophile with a strong acid in a pre-equilibrium step prior to nucleophilic attack, general acid catalysis involves the proton transfer or hydrogen bonding activation to the transition state in the rate-determining step e.g. nucleophilic attack), usually under weakly acidic or neutral conditions (Scheme 95) 366). 

A series of diaquatetraaza cobalt(III) complexes accelerated the hydrolysis of adenylyl(3 -50adenosine (ApA) (304), an enhancement of 10 -fold being observed with the triethylenetetramine complex (303) at pH 7. The pentacoordinated intermediate (305), which is formed with the complex initially acting as an electrophilic catalyst, then suffers general acid catalysis by the coordination water on the Co(III) ion to yield the complexed 1,2-cyclic phosphate (306), the hydrolysis of which occurs via intracomplex nucleophilic attack by the metal-bound hydroxide ion on the phosphorus atom. Neomycin B (307) has also been shown to accelerate the phosphodiester hydrolysis of ApA (304) more effectively than a simple unstructured diamine. 

Br0nsted acid catalysis, the substrate electrophile is reversibly protonated in a pre-equilibrium step, prior to the nucleophilic attack (Scheme 2). In general acid catalysis, however, the proton is (partially or fuUy) transferred in the transition state of the rate-determining step (Scheme 2). Clearly, the formation of a hydrogen bond precedes proton transfer. 

The mechanism is closely related to general acid catalysis in which a proton transfers to the transition state in the rate-determining step, and to specific acid catalysis in which an electrophile is protonated prior to nucleophilic attack. 

The magnitude of general-acid-base catalysis by oxygen and nitrogen bases depends only on their pATa s, and is independent of their chemical natures (apart from an enhanced activity of oximes in general-acid catalysis). Nucleophilic reactivity depends markedly on the nature of the reagents. These reactions may be divided into two broad classes nucleophilic attack on soft and on hard electrophilic centers.47... 

General-Base and General-Acid Catalysis Avoids the Need for Extremely High or Low pH Electrostatic Interactions Can Promote the Formation of the Transition State Enzymatic Functional Groups Provide Nucleophilic and Electrophilic Catalysis Structural Flexibility Can Increase the Specificity of Enzymes... 

Hydrous metal surface sites may act as general catalysts or as specific catalysts. Weak acidic sites and weak basic sites are found on surfaces that can promote reactions by donating protons (general acid catalysis) or hydroxide ions (general base catalysts). Surface sites may also exhibit nucleophilic or electrophilic character. 

Of the many reagents, both heterogeneous and homogeneous, that can facilitate chemical reactions, the cycloamyloses stand out. Reactions can be catalyzed with many species such as hydronium ions, hydroxide ions, general acids, general bases, nucleophiles, and electrophiles. More effective catalysis can sometimes be achieved by combinations of catalytic species as in multiple catalysis, intramolecular catalysis, and catalysis by com-plexation. Only the latter catalysis can show the real attributes of an efficient catalytic system, namely speed and selectivity. In analogy to molecular sieves, selectivity can be attained by stereospecific complexation and speed can be likewise attained if the stereochemistry within the complex is correct. The cycloamyloses, of any simple chemical compound, come the closest to these goals. 

As we have seen (Section 4, p. 191) the range of effective molarities associated with ring-closure reactions is very much greater than that characteristic of intramolecular general acid-base catalysis the main classification is therefore in terms of mechanism. By far the largest section (I, Tables A-D) gives EM s for intramolecular nucleophilic reactions. These can be concerted displacements (mostly at tetrahedral carbon), stepwise displacements (mostly addition-elimination reactions at trigonal carbon), or additions, and they have been classified in terms of the nucleophilic and electrophilic centres. 

One of the central mechanistic questions regarding ubiquitination has been whether the reaction utilizes general acid/base catalysis, possibly in a manner analogous to the catalysis of peptide-bond cleavage. For example, an acidic catalytic residue could deprotonate the substrate lysine and make it a better nucleophile for attacking the ubiquitin thioester bond. In addition, a basic catalytic residue could polarize the thioester bond making the carbonyl carbon a better electrophile, and... 

The lower effective concentrations found in intramolecular base catalysis are due to the loose transition states of these reactions. In nucleophilic reactions, the nucleophile and the electrophile are fairly rigidly aligned so that there is a large entropy loss. In general-base or -acid catalysis, there is considerable spatial freedom in the transition state. The position of the catalyst is not as closely defined as in nucleophilic catalysis. There is consequently a smaller loss in entropy in general-base catalysis, so that the intramolecular reactions are not favored as much as their nucleophilic counterparts. 

Effective concentration 65-72 entropy and 68-72 in general-acid-base catalysis 66 in nucleophilic catalysis 66 Elastase 26-30, 40 acylenzyme 27, 40 binding energies of subsites 356, 357 binding site 26-30 kinetic constants for peptide hydrolysis 357 specificity 27 Electrophiles 276 Electrophilic catalysis 61 metal ions 74-77 pyridoxal phosphate 79-82 Schiff bases 77-82 thiamine pyrophosphate 82-84 Electrostatic catalysis 61, 73, 74,498 Electrostatic effects on enzyme-substrate association rates 159-161... 

In general, the environment of polymer domain influences activities of nucleophile, electrophile and general base catalysis. It is easily understood that unusual pK values of amino acid residues in enzymes are given, as is shown in Table 15 (92). 

Cage, solvent, 134 Cancellation assumption. 447 Catalysis, 263 acid, 453 buffer, 269 definitions of, 263 electrophilic, 265 general acid, 265, 268 general base, 265, 268, 271 intermolecular, 266 intramolecular, 266 nucleophilic, 266, 268, 271... 

Highly Increased Number of Effective Collisions Active Site Preorganization of Solvation and General Acid/Base Catalysts Avoiding High-Energy Intermediates Electrostatic Catalysis by Metal Ions Covalent Catalysis by Enzyme-Bound Electrophiles and Nucleophiles Coupling ATP Hydrolysis to Drive Equilibria... 

Controlled oxidation of A-acyl-piperidines and -pyrrolidines can be used to prepare 2-alkoxy derivatives or the equivalent enamides, which are useful general synthetic intermediates. The former are susceptible to nucleophilic substitution under Lewis-acid catalysis, via Mannich-type intermediates, and the latter can undergo electrophilic substitution at C-3 or addition to the double bond. 

The term nucleophilicity refers to the relative rate of reaction of an electron donor with a given electrophile, as distinct from basicity, which refers to its relative affinity for a proton in an acid-base equilibrium. A quantitative relationship between rate and equilibrium constants was discovered by Brpnsted and Pedersen (1) in 1924. These authors found that the rate constants for the catalytic decomposition of nitramide by a family of bases, such as carboxylate ions (GCH2C02 ), could be linearly correlated with the acidities of their conjugate acids, pKHB. This observation led to the discovery of general base catalysis and the first linear free-energy relationship, which later became known as the Brpnsted equation ... 

Buffer, General Acid-Base, and Nucleophilic-Electrophilic Catalysis... 

In addition to possible general acid-base catalysis where a buffer can act as either a proton donor or acceptor (Bronsted acid or base), buffer species can also act as a Lewis acid or base through nucleophilic or electrophilic mechanisms. 

Many chemical reactions involve a catalyst. A very general definition of a catalyst is a substance that makes a reaction path available with a lower energy of activation. Strictly speaking, a catalyst is not consumed by the reaction, but organic chemists frequently speak of acid-catalyzed or base-catalyzed mechanisms that do lead to overall consumption of the acid or base. Better phrases under these circumstances would be acid promoted or base promoted. Catalysts can also be described as electrophilic or nucleophilic, depending on the catalyst s electronic nature. Catalysis by Lewis acids and Lewis bases can be classified as electrophilic and nucleophilic, respectively. In free-radical reactions, the initiator often plays a key role. An initiator is a substance that can easily generate radical intermediates. Radical reactions often occur by chain mechanisms, and the role of the initiator is to provide the free radicals that start the chain reaction. In this section we discuss some fundamental examples of catalysis with emphasis on proton transfer (Brpnsted acid/base) and Lewis acid catalysis. 

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