Alloc deprotection

Scheme 3) [30]. The pY + 3 diversity alcohols (Ri)-OI I (Fig. 15) were attached to the template through a Mitsunobu coupling to provide ether derivatives of 16. Palladium-mediated Alloc deprotection followed by amide formation using the phosphate-ester-containing diversity acids (R2)-C02H provided the fully coupled resin-bound products of 17. Cleavage from the resin with 95% TFA/H20, which also afforded benzyl phosphate deprotection, followed by reversed-phase (RP) semipreparative... 

As part of the same study, the capacity of this novel resin to act as an allyl cation scavenger was demonstrated in a palladium-catalyzed O-alloc deprotection of O-alloc benzyl alcohol (Scheme 7.107) [125], Benzyl alcohol was obtained in high yield with only trace amounts of by-product, thereby eliminating the need for further purification. The resulting C-allylation of the resin was evident from the presence of C-allyl signals in the relevant MAS-probe 1H NMR spectrum. 

Wang X, Peng L, Liu R, Gill SS, Lam KS. Partial alloc-deprotection approach for ladder synthesis of one-bead one-compound combinatorial libraries. J. Comb. Chem. 2005 7 197-209. 

Treatment with excess trifluoroacetic acid furnished the (dihydroiminoethano) carbazole 107 in 71% overall yield. Epoxidation of the alkene followed by a two-step protecting group modification gave epoxide 108, which underwent an oxidative epoxide opening followed by silyl protection to give silyl ether 109. Alloc deprotection, alkylation with (Z)-2-iodo-2-butenyl tosylate, followed by an intramolecular Heck reaction delivered pentacyclic diamine 110. A three-step formation of the p-ketoester 111 followed by a three-step reduction process afforded ester 112, which underwent a reduction and deprotection sequence to provide minfien-sine (99). A sequential catalytic asymmetric Heck-(V-acyliminium ion cyclization for the delivery of the enantiopure 3,4-dihydro-9a,4a-(iminoethano)-9//-carbazole is the highlight of the synthesis. 

The Alloc deprotection is also applicable to automated solid phase synthesis of oligonucleotides as well as linear and cyclic peptidesJ ... 

The readily prepared immobilized phosphoramidite could be used to efficiently synthesize oligodeoxyribonucleotides with modified thymidine residues. Whereas the effect of microwave irradiation on the deprotection by exposing the strand to tet-rakis-triphenylphosphine palladium(O) and diethylammonium bicarbonate was only small using dichloromethane as solvent, complete removal of the alloc group was achieved in N,N-dimethylformamide within 10 min at 80 °C (Scheme 7.30). After the reaction, the solid-supported product was washed with N,N-dimethylformamide and dichloromethane and dried, before being subjected to acylation. The coupling... 

Scheme 7.107 Palladium-catalyzed deprotection of O-alloc benzyl alcohol employing the scavenging resin CHD-SR.

The reaction mechanism (Scheme 6.25) involves formation of a cationic 7t-allylpalladium complex by the oxidative addition of the substrate onto the catalyst. In case of a dimethylallyloxycarbonyl protecting group this step is disfavoured compared to Alloc and therefore the removal of dimethylallyl groups is slower or requires more catalyst. Accordingly, in homogeneous CH3CN/H2O solutions deprotection of (allyl)phenylacetate proceeded instantaneously with 2 mol % [Pd(OAc)2]/TPPTS while it took 85 min to remove the dimethylallyl group (cinnamyl is an intermediate case with 20 min required for complete deprotection). The reactivity differences are... 

Allyl carbonates can be cleaved by nucleophiles under palladium(O) catalysis. Allyl carbonates have been proposed for side-chain protection of serine and threonine, and their stability under conditions of /VT moc or /V-Boc deprotection has been demonstrated [107]. Prolonged treatment with nucleophiles (e.g., 20% piperidine in DMF, 24 h) can, however, lead to deprotection of Alloc-protected phenols [108,109]. Carbohydrates [110], tyrosine derivatives [107], and other phenols have been protected as allyl ethers, and deprotection could be achieved by palladium-mediated allylic substitution (Entry 9, Table 7.8). 9-Fluorenyl carbonates have been used as protected intermediates for the solid-phase synthesis of oligosaccharides [111]. Deprotection was achieved by treatment with NEt3/DCM (8 2) at room temperature. 

Alloc, and racemization does not occur on cleavage. Typical nucleophiles that can be used for the cleavage are amines, water, and alcohols (35). The oxidation sensitivity of the linker does require the coupling reactions, and especially Fmoc deprotecting reactions, to be performed under exclusion of oxygen. 

Deprotection of the A -alloc group of A -imidazoline 1056 with Pd(PPh3)4 catalyst gives cleanly the desired product 1075 if a basic allyl acceptor is used. In contrast, a mixture of 1057 and 1058 is formed when the acidic allyl acceptor dimedone is used (Scheme 254) <1997TL4359>. 

Another instance for this linker class is the safety-catch linker by Lyttle, which was developed for the synthesis of nucleic acids on solid supports [62]. Starting from a resin carrying an Alloc-protected amino group fragment, conventional phosphoramidite chemistry was carried out to build up the desired immobilized nucleotide 57. Removal of the Alloc group via palladium catalysis under neutral conditions produces a polymer-bound intermediate 58 with a free amino functionality that can intramolecularly attack activated phosphonates and liberate the nucleotide 59 from the solid support (Scheme 16.14). More examples of safety-catch linkers that use the deprotection of an N-functionality as the activation step are listed in Table 16.1 (resins 61-65) [63-68]. 

A SPOS approach to DNA synthesis was reported very recently. It involves a ten-step synthesis of a phosphoramidite building block of I -aminomethylthymidine starting from 2-deoxyribose [46]. Microwave-mediated deprotection of a corresponding N-allyloxycarbonyl (alloc-) protected nucleoside and acylation with the residue of pyrene-l-ylbutanolic acid (pyBA) were described (Scheme 16.25). Removal of the alloc protecting group was achieved on a support (controlled pore glass, cpg) under microwave conditions (80 °C, 10 min) to ensure full conversion. 

When the N-alloc protecting group of primary amines such as benzylamine is cleaved rapidly imder these standard conditions in quantitative yields, the use of a 40-fold excess of diethylamine as the 7t-allyl scavenger or a five-fold excess of diethylamine in a butyronitrile/water system is necessary for the quantitative deprotection of aUoc derivatives of secondary amines. 

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