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Two different research projects are described in this dissertation. The first one focuses on microwave-promoted iminyl radical cyclization for the formation of azaheterocycles which are embedded within numerous pharmaceuticals and biologically active natural products (such as clindamycin, eletriptan, moxiflaxin, etc.). We are quite interested in this project because of the significance of nitrogen-containing heterocycles as pharmaceuticals and organocatalysts combined with the need for safe, simple, and economical means of constructing them. We have successfully developed an efficient one-step synthesis of 2-acylpyrroles and diastereoselective dihydropyrroles from readily available oxime ether substrates. This remarkably efficient and environmentally friendly methodology should be useful for rapid and easy preparation of potent drugs containing pyrrolidine ring systems. The second project focuses on the total synthesis of yaku'amide A. The natural compound, isolated from a marine sponge in 2010, is a medium-sized peptide that contains bulky dehydroamino acids. It has an excellent IC50 value (14 ng/mL) against leukemia cells, making it a promising anticancer agent. Because of the unique anticancer profile, potent bioactivity, and limited supply, the natural product was attractive to us for an efficient synthesis and mechanistic investigation. We have devised more efficient strategies compared to Inoue's methods for the synthesis of bulky ∆AAs and their incorporation into peptides, which are innovative and will allow us to synthesize yaku'amide A rapidly and conveniently. A one-pot sequence consisting Martin sulfurane mediated anti dehydration, azide reduction, and O→N acyl transfer was developed for the construction of E- and Z-dehydroisoleucine-containing peptides. We also developed a three-step synthesis of N-terminal acyl group involving a one-pot indium-catalyzed cross-Claisen condensation/reduction from a known compound. The most hindered coupling reaction of pentapeptide acid and nanapeptide amine in the late stage is accomplished. Our total synthesis of yaku'amide A can be completed in 19 longest linear steps and 66 total steps. Further identification of yaku'amide A for elucidation of its biological target and mode of action will be explored, which will open up new avenues in the fight against cancer.

The first project in this dissertation describes the use of microwave-promoted iminyl radical fragmentations to form functionalized nitriles. Nitrogen-centered radical chemistry is a useful tool to construct valuable C-N bonds commonly found in pharmaceuticals and biologically active molecules. Classically, these reactions require the use of toxic initiators and propagators. Iminyl radical chemistry has been gaining momentum as a means of avoiding these harsh conditions. This project utilizes the fragmentation of cyclic iminyl radicals via irradiation of O-phenyl oxime ethers to produce a synthetically useful nitrile tethered to an alkyl radical in the absence of metal catalysts and redox chemistry. The efficacy of this synthetic method was demonstrated by the diverse functionalization of estrone. We believe this useful chemistry can be a powerful tool when applied to both early and late-stage synthetic endeavors. The latter half of this dissertation focuses on the total synthesis of yaku'amide A, a natural product isolated from a marine sponge. This peptide contains potent anticancer activity and exhibits a novel, unique mode of action. Due to its scarcity in nature, comprehensive biological studies have remained elusive. The structure of yaku'amide A contains complex, unsymmetrical bulky dehydroamino acids such as E- and Z- dehydroisoleucine which pose a synthetic challenge. Despite the efficient strategy developed in our lab, the synthesis remains lengthy. Simpler symmetrical dehydroamino acids dehydrovaline and dehydroethylnorvaline were substituted in place to prepare two analogues of yaku'amide A that closely resemble the conformation of the natural peptide. Activity profile of the simplified analogues showed comparable potency to that of yaku'amide A.

The first project in this dissertation describes the total synthesis of yaku’amide A analogues. Natural product yaku’amide A possesses potent anticancer activity and exhibits a novel mode of action. However, due to its complex asymmetrical isoleucine dehydroamino acids, the synthesis of this polypeptide poses a unique challenge. Despite the efficient synthesis developed in our lab, the total synthesis of this natural product remains lengthy. In order to simplify the overall synthesis, symmetrical dehydroamino acids were incorporated to replace the dehydroisoleucine residues yielding two analogues of yaku’amide A that closely resembles the conformation of the natural product. Biological testing of the simplified analogues disclosed similar potency to that of yaku’amide A. The second part of this dissertation focuses on the influence that dehydroamino acids have on secondary structures. Peptides have an important role in medicine despite their limitations due to poor bioavailability and stability. Therapeutic use of peptides can be enhanced by designing new strategies to improve the proteolytic stability of these compounds. Attempts to increase peptide stability using trisubstituted and tetrasubstituted dehydroamino acids (ΔAAs) have been reported. Similarly, modified ΔAAs should also help tune the electronic and steric properties of peptides, while improving proteolytic stability. However, studies of peptides containing modified ΔAAs and are scarce. This project describes the synthesis and studies of incipient 310 helical tetrapeptides containing dehydroamino acids. Bulky and cyclic ΔAAs were demonstrated to alter the conformation of these tetrapeptides and impart greater stability against proteolysis and thiol additions. We believe these results can be a powerful tool to design peptide drug candidates with high proteolytic resistance and stability. tetrasubstituted dehydroamino acids (ΔAAs) have been reported. Similarly, modified ΔAAs should also help tune the electronic and steric properties of peptides, while improving proteolytic stability. However, studies of peptides containing modified ΔAAs and are scarce. This project describes the synthesis and studies of incipient 310 helical tetrapeptides containing dehydroamino acids. Bulky and cyclic ΔAAs were demonstrated to alter the conformation of these tetrapeptides and impart greater stability against proteolysis and thiol additions. We believe these results can be a powerful tool to design peptide drug candidates with high proteolytic resistance and stability.

The first project in this dissertation endeavors to outline the total synthesis of yaku'amide A and its analogs. Yaku'amide A is a natural product comprised of dehydroamino acids, including E-dehydro isoleucine, and unprecedented Z-dehydro isoleucine. These amino acids present a significant challenge to their synthesis owing to their unsymmetrical nature. To simplify the synthesis process, we synthesized analogs by substituting the E and Z dehydroamino acids with symmetrical subunits. This substitution facilitated the synthesis process and enabled us to obtain a similar three-dimensional structure to that of the natural product. Furthermore, biological testing of the simplified analogs revealed potency similar to yaku'amide A. The second part of this project describes the synthesis of the bicycle core of virosinine A, commencing with an enantioselective Evans glycolate aldol reaction. Following a series of transformations, an oxime phenyl ether is generated, which, upon microwave irradiation, triggers an iminyl radical cascade reaction. The iminium formed in the microwave reactor is reduced with red-Al, obtaining the desired diastereomer.

The first project in this dissertation presents a simplified and efficient protocol for synthesizing pyrrolines through 5-exo iminyl radical cyclizations. The microwave irradiation of O-Phenyloximes tethered to alkenes causes N-O homolysis resulting in iminyl radical generation, which subsequently undergoes 5-exo-trig cyclizations furnishing pyrrolines. This eliminates the need for toxic radical initiators (AIBN, benzoyl peroxide), propagating agents (Bu3SnH, (Me3Si)3SiH), and expensive catalysts or single-electron transfer (SET) cycles. We explored the scope of diverse traps and substrates for iminyl radical cyclizations. The iminyl radical cyclizations formed versatile pyrrolines with moderate to excellent yields. The diastereoselectivity also ranged from low to high. Moreover, these versatile pyrrolines were further transformed via various reactions, such as hydrogenation, allylation, dihydroxylation, and cross-metathesis. The second part of this project extends the scope of the non-redox iminyl-radical based approach to γ-C(sp3)−H ketone activation. The sequence of N-O homolysis triggered by microwave irradiation of O-phenyloximes, 1,5-hydrogen atom transfer (HAT), trapping of the radical intermediate, and in situ imine hydrolysis, ultimately leads to the formal γ-C–H functionalization of ketones. We achieved both C-O and C-C bond formation by using diverse O-phenyloxime substrates. This work's notable achievement was accomplishing γ-C–H activation of 1o carbon atoms, a feat that has not been attained using SET-based iminyl radical chemistry. The third part of this dissertation focuses on the influence that dehydroamino acids have on secondary structures. This project describes the synthesis of incipient 310 helical tetrapeptides containing dehydroamino acids. A bulky dehydroethylnorvaline-containing tetrapeptide was synthesized. Based on our published data, we speculated that dehydroethylnorvaline might increase peptide proteolytic stability.

Yaku'amide A shows a unique inhibitory profile against a series of 39 human cancer cell lines (JFCR39). In our efforts to synthesize yaku'amide A, we have optimized our regioselective base-free aminohydroxylation method with a series of nitrogen sources, developed a chiral reagent-mediated aminohydroxylation strategy and chemoselective deprotections of the resulting aminohydroxylation product, and explored a stereospecific E2 dehydration and O-N acyl transfer sequence. In addition, we have prepared the right-hand tetrapeptide and the NTA subunit. For our bulky α,β-dehydroamino acids project, we have developed strategies to incorporate α,β-dehydroamino acids such as ΔVal and ΔEnv into small synthetic peptides via Solid Phase Peptide Synthesis (SPPS). We have also prepared two analogues of a monomeric helical peptide with 13 residues.

The synthetic progress towards yaku'amide A is described. The study leads to development of new synthetic methodologies. Base-free regioselective aminohydroxylation is convenient to deliver β-tert-hydroxyamino acids. A sequence consisting of alkylative esterification, Martin sulfurane mediated anti dehydration, a tandem azide reduction-O→N acyl transfer allows the rapid access of E- and Z-dehydroisoleucine-containing peptides from β-tert-hydroxyisoleucine derivatives. Those methods are effective in constructing complicated peptides and advanced subunits of yaku'amide A.

Yaku’amide A (YA) is a linear anticancer peptide that is rich in bulky dehydroamino acids (ΔAAs) and β-hydroxyamino acids (β-OHAAs). In our recent total synthesis of YA, we featured a one-pot anti dehydration–azide reduction–O→N acyl transfer process for the stereospecific construction of Z- and E- ∆Ile residues. Despite previous total syntheses and our efforts, the synthesis of YA remains lengthy. Via computational studies, we identified two analogue peptides that closely resemble the conformation of YA. The use of simpler and symmetrical bulky ΔAAs such as dehydrovaline (ΔVal) and dehydroethylnorvaline (ΔEnv) as surrogates of ∆Ile, along with azlactone chemistry for their incorporation, significantly decreased the overall number of synthetic steps. Biological studies revealed that our analogues exhibited very similar activity to that of the natural product YA, demonstrating their suitability as mimics and consistency with our computational model. Despite its utility in the construction of YA analogues, azlactone chemistry is sluggish and moderate to low yielding. For this reason, we have explored strategies to streamline the synthesis of peptides containing Z-dehydroaminobutyric acid (∆Abu), ∆Val, and Z-dehydrophenylalanine (∆Phe). The key process is to form the alkene moiety via elimination of a β-sulfonium or β-OHAA embedded within a peptide, avoiding the need to form the alkene moiety via azlactone-dipeptide dehydration and bypassing sluggish amidation/ring opening steps. β-sheet disruption of Tau-model hexapeptides is a key type of inhibition for modulating Alzheimer’s disease progression. Previous studies replaced key residues with proline, due to its rigidity and lack of amide proton, to inhibit β-sheet formation. Similar to proline, ∆AAs are also known for their rigidity and ability to favor other conformations (e.g. β-hairpin, 310-helix) along with increasing peptide half-life. We have incorporated ∆Abu, ∆Val and dehydrocyclohexylglycine (∆Chg) in a highly aggregative hexapeptide sequence, using previously studied methods, to assess their capabilities as putative β-sheet breakers and to stabilize against proteolysis. Studies are continuing.

This thesis reports diverse synthetic and mechanistic studies in six chapters, as summarized below. Chapter 1. Revised mechanism and improved methodology for the perkin condensation.1 The generally accepted mechanism for the well-known Perkin condensation is unviable for at least two reasons: (1) the normally employed base, acetate ion, is too weak to deprotonate acetic anhydride (Ac2O, the substrate); and (2) even were Ac2O to be derprotonated , its anion would rapidly fragment to ketene and acetate ion at the high temperatures employed for the reaction. It has proved in this study that the Perkin condensation occurs most likely via the initial formation of a fem-diacetate (3, Scheme 1) from benzaldehyde (2) and acetic anhydride (1).1 The key nucleophile appears to be the enolate of 3 (and not of 1), which adds t the C=O group of the aldehyde 2 (present in equilibrium with 3). Thus cinnamic acid (4a) was formed in -75% yield with 3 as the substrate under the normal conditions of the Perkin reaction. The deprotonation of the diacetate appears to be electrophilically assisted by the neighbouring acetate group, the resulting enolate being also thermodynamically stabilized in form of an orthoester (I). The possibility that the diacetate 3 is the actual substrate in the Perkin reaction indicates that the reaction can be effected under far milder conditions, with a base much stronger than acetate ion. This was indeed realized with potassium t-butoxide in dioxane, which converted the gem-diacetates derived from a variety of aromatic aldehydes to the corresponding cinnamic acids (4), rapidly and in good yields at room temperature (Scheme 2). This represents a vast improvement in the synthetic protocol for the classical Perkin reaction, which remains an important carbon-carbon bond forming reaction to this day. Chapter 2. Aromaticity in azlactone anions and its sifnificance for the Erlenmeyer synthesis.2 The classical Erlenmeyer azlactone synthesis of amino acids occur via the formation of an intermediate azlactone, and its subsequent deprotonation by a relatively weak base(acetate ion),. The resulting azlactone anion (cf. II, Scheme 3) functions as a glycine enolate equilvalent, and is considered in situ with an aromatic aldehyde, subsequent dehydration leading to the 4-alkylidene oxazolone(analogously to the Perkin reaction). Interestingly, azlactone anions are possibly aromatic, as they possess 6π electrons in cyclic conjugation; this would explain their facile formation as also the overall success of the Erlenmeyer synthesis. The following studies evidence this possibility. The strategy involved studying the rates of base-catalyzed deprotonation in 2-phenyl-5(4H)-oxazolone (azlactone, 5) and its amide and ketone analogs, 3-methyl-2-phenyl-4(5H)-imidazolone (6), and 3,3-dimethyl-2-phenyl-493H)-pyrrolone (7) respectively.2 Two processes were studied, deuterium exchange and condensation with hexadeuteroacetone (Scheme3): both are presumably mediated by the anions II-IV, so their stabilities would govern the overall rates. These were followed by 1H NMR spectroscopy by monitoroing the disappearance of the resonance of the proton α to the carbonyl group. The order of deprotonation was found to be 6 > 5 > 7. However, the expected order based on pKa values would be ketone > ester > amide, i.e. 7 > 5 > 6. The inverted order observed strongly indicates the incursion of aromaticity, which would be enhanced by the electron-donor capabilities of the heteroatoms is 5 and 6. This is further substantiated by the greater reactivity in the case of the nitrogen analog 6 relative to the oxygen 5, which parallel the electronegativity order. (The aromaticity order would thus be: III > II > IV. The imidazole nucleus is indeed to be considerably more aromatic than the oxazole.) The synthesis of the analogs 6 and 7 was accomplished via an interesting intramolecular aza-Wittig reaction (Schemes 4 & 5) Chapter 3. Umpolung approach to the Erlenmeyer process in the synthesis of dehydro amino acids. These studies are based on the general observation that most of the strategies for the synthesis of α-amino acids introduce the side chain (or part was inverted in an umpolung sense. The key reaction studied was that of 2-phenyl-4-ethoxymethylne-5(4H)-oxazolone (11) with Grignard reagents: this resulted in the opening to yield a protected dehydro amino acid (12), in good to excellent yields (65-87%)(Scheme ^). As the azlactone reactant 11 is the ekectrophilic partner, this may be viewed as a partial umpolung version of the classical Erlenmeyer process. The readily available reactants, simple procedure and mild reaction conditions make this a very attractive method for the synthesis of a variety of α-dehydro amino acids. Chapter 4. The Erlenmeyer azlactone synthesis with aliphatic aldehydes under solvent-free microwave conditions. 3 A serious limitation to the classical Erlenmeyer reaction is that it generally fails in the case of aliphatic aldehydes. This chapter describes a convenient approach to this problem that extends the scope of the Erlenmeyer synthesis, via a novel microwave-induced, solvent-free process. This, it was observed that azlactones (5) react with aliphatic aldehydes (13) upon adsorption on neutral alumina and irradiation with microwaves (< 2 min), forming the corresponding Erlenmeyer products (14) in good yields (62-78%, Scheme 7). (The possible mechanistic basis of the procedure, which is presumably mediated by V , is discussed).3 Chapter 5. 2,4, 10-Trioxaadamantane as a carboxyl protecting group: application to the asymmetric synthesis of α-amino acids (umpolung approach).It is known that the 2,4,10-trioxaadamantane moiety is not only remarkably stable to nucleophilic attack, but can also be easily hydrolyzed to the corresponding carboxylic acid.4 It was of interest to apply this carboxyl protection strategy for designing a synthesis of α-amino acids, essentially by starting with a protected glyoxylic acid. The corresponding aldimine was expected to (nucleophilically) add organometallic reagents at the C=N moiety (cf. Shceme 8), the side chain of the amino acid being thus introduced in umpolung fashion. Also, a chiral aldimine would define an asymmetric synthesis of amino acids. Indeed, the chiral aldimine 17, derived from 2,4,10-troxaadamantane-3-carbaldehyde 15 and [(S)-(-)-1-phenylethylamine] 16, reacted with a variety of Grignard reagents to furnish the corresponding protected α-amino acids (18) in good yields, with moderate diastereometric excess (Scheme 8). Better yields and ‘de’ values were obtained with organolithium reagents. Chapter 6: possible one-pot oligopeptide synthesis with azlactones or amino acid N-carboxyanhydrides (NCAs). This chapter describes a novel approach to oligopeptide synthesis employing azlactones or NCA’s as amino acid equivalents which are simultaneously protected and activated (Scheme 9). Thus, the addition of the 4-substituted 2-benzyloxyazlactone (19) to an N-protected amino acid under basic conditions, was initially explored. The reaction was expected to yield a dipeptide (21) via the rearrangement of the mixed anhydride intermediate (VI) (Scheme 9). The subsequent addition of a different azlactone to the dipeptide (21) would analogously lead to the formation of a tripeptide (22). This may be performed repetitively to define a strategy for C-terminal extension of an oligopeptide chain, noting that no intervening deprotecting and activating steps are necessary. (In toto deprotection may be effected finally via the hydrogenolyis of the bvenzyloxy groups, to obtain 23.) A closely analogous strategy may also be envisaged by employing N.carboxyanhydrides (NCA’S, 24) instead of azlactones, as shown in Scheme 10 (forming dipeptide 26 and tripeptide 27). The main difference n this case is that the carbamic acid moiety of the intermediate mixed anhydride (VII) is expected to undergo decarboxylation to VIII (thus obviating the need for a deprotection step). However, this putative advantage is offset by the instability of NCA’s and their tendency toward polymerization. However, only partial success could be achieved in these attempts, although a variety of conditions were explored. The strategy and the experimental results have been analyzed in detail, as this interesting approach appears to be promising, and worth further study. (For structural formula pl refer the pdf file)