Nucleophilicity shape

There are ways to plot data with several pieces of data at each point in space. One example would be an isosurface of electron density that has been colorized to show the electrostatic potential value at each point on the surface (Figure 13.6). The shape of the surface shows one piece of information (i.e., the electron density), whereas the color indicates a different piece of data (i.e., the electrostatic potential). This example is often used to show the nucleophilic and electrophilic regions of a molecule. 

Although the conventional mass spectra of the five C- nitro derivatives of indazole are nearly identical, the corresponding metastable peak shapes associated with the loss of NO-can be used to differentiate the five isomers (790MS114). The protonation and ethylation occurring in a methane chemical ionization source have been studied for a variety of aromatic amines, including indazoles (80OMS144). As in solution (Section 4.04.2.1.3), the N-2 atom is the more basic and the more nucleophilic (Scheme 5). 

Another way to assess nucleophilic reactivity is to examii the shape of the nucleophile s electron-donor orbital (th is the highest-occupied molecular orbital or HOMC Examine the shape of each anion s HOMO. At which ato would an electrophile, like methyl bromide, find the be orbital overlap (Note This would involve overlap of tl the HOMO of the nucleophile and the lowest-unoccupif molecular orbital or LUMO of CH3Br.) Draw all of tl products that might result from an Sn2 reaction wi CHaBr at these atoms. 

The product of nucleophilic attack can be anticipated by examining the lowest-unoccupied molecular orbital (LUMO) on protonated cyclopentene oxide. From which direction (top or bottom) would a nucleophile be more likely to approach each epoxide carbon in order to transfer electrons into this orbital Explain. Does one carbon contribute more to the LUMO, or is the orbital evenly spread out over both epoxide carbons Assuming that LUMO shape dictates product stereochemistry, predict which stereoisomers will be obtained, and their approximate relative amounts. Is the anticipated kinetic product also the thermodynamic product (Compare energies of 1,2-cyclopentanediol stereoisomers to tell.)... 

One way to investigate the electrophilic properties of these molecules is to examine the orbital that each uses to accept electrons from a nucleophile. This orbital is the lowest-unoccupied molecular orbital (LUMO). Examine the LUMO for methyl acetate (Z=OCH3), acetaldehyde (Z=H), N,N-dimethylacetamide (Z=N(CH3)2) and acetyl chloride (Z=C1) (acetaldehyde is not a carboxylic acid derivative, but is included here for comparison). What is the shape of the LUMO in the region of the carbonyl group Is it a o or 7U orbital Is it bonding or antibonding What other atoms contribute to the LUMO Which bonds, if any, would be weakened when a nucleophile transfers its electrons into the LUMO ... 

The nucleophilic behavior of polyanions can be anticipated by examining the shape of electron donor orbitals (typically the highest-occupied molecular orbital or HOMO). Examine the HOMO of the dianion. Which part of this orbital is best able to overlap with an electrophile ... 

Notice that the mechanism of the nucleophilic acyl substitution step can be given in an abbreviated form that saves space by not explicitly showing the tetrahedral reaction intermediate. Instead, electron movement is shown as a heart-shaped path around the carbonyl oxygen to imply the full mechanism. 

NMR line shape analysis, 260-263 Negative activation enthalpy, 162 Noncompetitive inhibitor, 93 Nucleophilic catalysis, 237-238 Numerical simulations, 112-119... 

E = S, Se X = I, Br) cation.20 Whether this cation really forms in solutions, especially in low-polar solvents, is difficult to prove. It has been shown, however, that the calculated NBO charge distribution on [LE-X]+ can be of great help in predicting the most likely product, at least among [LE-EL]2+ dications, C.-T. spoke , and T-shaped hypervalent adducts.21,22 In fact, these three types of products can formally derive from a nucleophilic attack of the appropriate nucleophile on the [LE-X]+ cation at the chalcogen or the halogen site. 

Even more efficient bimetallic cooperativity was achieved by the dinuclear complex 36 [53]. It was demonstrated to cleave 2, 3 -cAMP (298 K) and ApA (323 K) with high efficiency at pH 6, which results in 300-500-fold rate increase compared to the mononuclear complex Cu(II)-[9]aneN at pH 7.3. The pH-metric study showed two overlapped deprotonations of the metal-bound water molecules near pH 6. The observed bell-shaped pH-rate profiles indicate that the monohydroxy form is the active species. The proposed mechanism for both 2, 3 -cAMP and ApA hydrolysis consists of a double Lewis-acid activation of the substrates, while the metal-bound hydroxide acts as general base for activating the nucleophilic 2 -OH group in the case of ApA (36a). Based on the 1000-fold higher activity of the dinuclear complex toward 2, 3 -cAMP, the authors suggest nucleophilic catalysis of the Cu(II)-OH unit in 36b. The latter mechanism is comparable to those of protein phosphatase 1 and fructose 1,6-diphosphatase. 

Two structurally unrelated immunosuppressant drugs, cyclosporin A and FK506, have been shown to bind to separate proteins, which have in common the ability to catalyse the interconversion (8) of the cis and trans rotamers of peptidyl-proline bonds of peptide substrates. A profound change in the conformation, and hence the shape and binding properties of the protein, may result. The mechanism of this isomerization appears, on the basis of recent work (Rosen et al., 1990 Van Duyne et al., 1993 Albers et al., 1990), to involve simple twisting about the amide bond, rather than such alternatives as conversion to a C-N single bond by addition of a nucleophile to C=0.y The proteins which catalyse the reaction may be... 

When the monosodium salts of uracil and similar pyrimidines react with diphenyl phosphorochloridate, phosphorylation takes place on oxygen unless other suitable nucleophilic centres are present and free.69 The reaction between the sodium salt of a 1,3-dicarbonyl compound and diethyl phosphorochloridothionate yields the Z-vinylphosphorothionate if the tetrabutylammonium salt is employed, the product has E geometry. This phenomenon has been interpreted in terms of the shape of the... 

A good example of clearable and non-clearable stereocentres is found in the two following stereoisomers of bicylo[3.3.0]octan-2-one, in which the shape of the molecule forces the attack of the nucleophile to the carbonyl group from the convex face (attack at the (3-face). 

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