Native chemical ligation (NCL) has shown great utility in protein chemistry and has yielded impressive success in the preparation of a wide variety of proteins.[1] This methodology requires peptide thioesters that serve as chemoselective acylating agents for N-terminal cysteinyl peptides to afford ligated peptides through a sequence of reactions consisting of S-S and S-N acyl transfers. The susceptibility of the thioester moiety to basic reagents has necessitated the preparation of the key intermediate by Boc-based solid-phase peptide synthesis (Boc-SPPS) without requiring a nucleophile-mediated deprotection procedure.[2] However, the preferred use of Fmoc-based SPPS with piperidine treatment demands the development of a synthetic methodology using peptide thioesters that are compatible with Fmoc chemistry.In this context, many research groups, including ours, have explored an Fmoc-based synthetic protocol for thioesters. [3][4][5] Among the reported studies, N-S acyl-transfer-mediated procedures have great potential in Fmoc chemistry.[5] We have also developed an N-sulfanylethylaniline linker that can be used for the acyl-transfer-mediated synthesis of peptide thioesters.[5g]Standard Fmoc-SPPS on the sulfanylethylaniline linker followed by N-S acyl transfer under acidic conditions (4 m HCl in DMF) efficiently yielded peptide thioesters (Scheme 1). On the basis of these experimental results, we attempted to utilize an N-terminal cysteinyl N-sulfanylethylanilide (SEAlide) peptide as the middle fragment(s) for sequential NCL, which features the use of more than one thioester fragment.[6] Here, involvement of the SEAlide peptide in the first NCL with a peptide thioester would seem to selectively afford the corresponding ligated SEAlide peptide, which can be used in the second NCL step after conversion of the anilide moiety to the thioester under acidic conditions. The first NCL doubtlessly proceeded; however, contrary to our expectations, a not insignificant amount of cyclic material resulting from the unanticipated intramolecular NCL of the cysteinyl SEAlide peptide was observed (Scheme 2). This unexpected result indicated that the SEAlide moiety could work as a thioester in the presence of an N-terminal cysteinyl residue even under neutral NCL conditions to afford the corresponding NCL product. [7] In this study, we first examined the feasibility of the SEAlide peptide as a crypto-thioester peptide, and discuss the utility of the cryptic thioester in a kinetically controlled NCL. [8] Initial evaluation of the utility of the SEAlide peptide under NCL conditions was attempted through model coupling reactions between peptide 1 and 2 (Table 1). After preliminary experiments, we first fixed the control coupling conditions (1 mm each peptide in 6 m guanidine·HCl (Gn·HCl)-0.2 m sodium phosphate in the presence of 100 mm (4-carboxymethyl)thiophenol (MPAA) [9,10] and 40 mm tris(2-carboxyethyl)phosphine (TCEP), pH 7.3, 37 8C). Under standard conditions, the attempted NCL between 1 a and 2 was almost complete in 48 h and ...