Protection-deprotection protonation

Since the acetylenic proton is acidic, it often needs to be protected as a trialkylsilyl derivative. It is conveniently deprotected with fluoride ion. 

FIGURE 3.10 Deprotection of functional groups by beta-elimination.17 (A) Removal of a labile proton beta to a good leaving group leads to release of the protector as the didehydro compound. (B) Recently developed protectors (Samukov et al., 1988) also designated untra-ditionally as 4-nitrophenyl- (C) Transformation of an O-protected serine residue into a dehydroalanine residue by hefa-elimination. 

The formation of the adduct between 86 and the nitrile, i.e., 89, occurs more readily than that between 86 and ketones, since an activated nitrile is a better nucleophile than a ketone. Since the ce-proton in the adduct 89 is more acidic than the ce-proton in the ketonic adduct, also the ring opening will occur more easily. The interchange of a nitrile carbon with the ring carbon of a pyrimidine ring was also observed with the 3-benzyloxymethyl-l-ribosyl-5-cyanouracil. With a series of activated nitriles, the protected bi-cyclic nucleosides are formed. After deprotection, the corresponding bi-cyclic nucleosides are obtained (Scheme IV.35). 

A further development of the DMSO/H+ method for oxidation of cysteine peptides led to the cysteine-sulfoxide acid-catalyzed intermolecular disulfide formation with a second S-unprotected or acid-labile protected cysteine component as shown in Scheme 19. 1471 The protonation of the sulfoxide by TfOH in the case of 5(0)-Mob or TFA in the case of 5(0)-Acm derivatives provides electrophilicity to the sulfur atom to allow attack by the second S-unprotected cysteine component (formed by the fast deprotection of the 5-Mob group with TfOH in presence of dimethylsulfide) to generate in a site-directed manner the interchain disulfide bond. Although extensive experience with this method has not been accumulated for interchain disulfide bridging, it has been successfully applied for intrachain site-directed disulfide bond formation in chicken calcitonin-gene-related peptide.1 79 ... 

The ability of [18]crown-6 derivatives to complex primary alkylammonium ions has been elegantly exploited in the protection of primary amines (80CC300). In the presence of primary amines, secondary amines can be acylated selectively by adding [18]crown-6 and a proton source. This strategy has obvious advantages over normal amine protecting groups which require a deprotection step. 

Houghten and co-workers[145] introduced a method for combinatorial synthesis of a per-alkylated peptide library using nonspecific N-alkylation. The peptides were synthesized by SMPS methodology 146 in combination with repetitive amide N-alkylation on the solid support after each coupling step. Peptides were synthesized on MBHA-PSty resin using Fmoc chemistry. After Fmoc deprotection the a-amino group was protected by Trt to prevent N -alkylation and to allow only amide alkylation. The on-resin amide alkylation was achieved by amide proton abstraction using LiOtBu in THF followed by nonfunctionalized alkyl and aryl halides in DMSO. 

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