One-pot synthesis of β-amino acid derivatives from α-amino acids

The one-pot transformation of α-amino acid into β-amino acid derivatives is described. The application of this method to the synthesis of modified dipeptides was also illustrated.     

The effect of aqueous solvation upon alpha-helix formation for polyalanines

The incremental free energies of aqueous solution for acetyl(ala)NNH2 in its extended unfolded and alpha-helical conformations are compared using the SM5.2 solvation method of Cramer and Truhlar. A combination of density functional theory (DFT) at the B3LYP/D95(d,p) and AM1 has been employed using the ONIOM method. The incremental solvation energies of alpha-helical structures are very similar for both ONIOM and AM1 optimized structures as these structures do not significantly change upon solution. However, the conformations of the unfolded peptides change from extended beta-strand to polyproline II conformations upon aqueous solution. The incremental solvation free energy per residue of the polyproline II structure is about 2 kcal/mol/residue greater than that for the alpha-helix, representing an upper limit for the difference between the solvation energies. However, most of this difference disappears when the energy required to distort the optimized gas-phase extended beta-strand structure to the optimized polyproline II solution structure is included in the analysis, leaving an estimated difference in incremental solvation free energy of 0.3-0.5 kcal/mol favoring the unfolded structure. The solution structure sacrifices the stability derived from the intramolecular C5 H-bonds for more favorable interactions with the aqueous solvent.     

Preparative synthesis of β-amino alcohols from α-amino dicarboxylic acid derivatives

A low-expensive preparative procedure has been developed for the synthesis of protected β-amino alcohols from α-amino dicarboxylic acid derivatives.     

CC bond formation from schiff base and vinyloxyborane: Synthesis of β-amino acid derivatives

An efficient methodology for the preparation of β-amino acid derivatives ($\text{3}$) by CC bond formation from Schiff bases ($\text{1}$) and vinyloxyborane ($\text{2}$) and their utilization in the synthesis of the pyrimidine moiety ($\text{3f}$) of bleomycin are described.     

Geometry and cooperativity effects in adenosine-carboxylic acid complexes

NMR experiments and theoretical investigations were performed on hydrogen bonded complexes of specifically 1- and 7-15N-labeled adenine nucleosides with carboxylic acids. By employing a freonic solvent of CDClF2 and CDF3, NMR spectra were acquired at temperatures as low as 123 K, where the regime of slow hydrogen bond exchange is reached and several higher-order complexes were found to coexist in solution. Unlike acetic acid, chloroacetic acid forms Watson-Crick complexes with the proton largely displaced from oxygen to the nitrogen acceptor in an ion pairing structure. Calculated geometries and chemical shifts of the proton in the hydrogen bridge favorably agree with experimentally determined values if vibrational averaging and solvent effects are taken into account. The results indicate that binding a second acidic ligand at the adenine Hoogsteen site in a ternary complex weakens the hydrogen bond to the Watson-Crick bound carboxylic acid. However, substituting a second adenine nucleobase for a carboxylic acid in the trimolecular complex leads to cooperative binding at Watson-Crick and Hoogsteen faces of adenosine.     

Cooperative alpha-helix formation of beta-lactoglobulin induced by sodium n-alkyl sulfates

It is generally assumed that folding intermediates contain partially formed native-like secondary structures. However, if we consider the fact that the conformational stability of the intermediate state is simpler than that of the native state, it would be expected that the secondary structures in a folding intermediate would not necessarily be similar to those of the native state. beta-Lactoglobulin is a predominantly beta-sheet protein, although it has a markedly high intrinsic preference for alpha-helical structure. The formation of non-native alpha-helical intermediate of beta-lactoglobulin was induced by n-alkyl sulfates including sodium octyl sulfate, SOS; sodium decyl sulfate, SDeS; sodium dodecyl sulfate, SDS; and sodium tetradecyl sulfate, STS at special condition. The effect of n-alkyl sulfates on the structure of native beta-lactoglobulin at pH 2 was utilized to investigate the contribution of hydrophobic interactions to the stability of non-native alpha-helical intermediate. The addition of various concentrations of n-alkyl sulfates to the native state of beta-lactoglobulin (pH 2) appears to support the stabilized form of non-native alpha-helical intermediate at pH 2. The m values of the intermediate state of beta-lactoglobulin by SOS, SDeS, SDS and STS showed substantial variation. The enhancement of m values as the stability criterion of non-native alpha-helical intermediate state corresponded with increasing chain length of the cited n-alkyl sulfates. The present results suggest that the folding reaction of beta-lactoglobulin follows a non-hierarchical mechanism and hydrophobic interactions play important roles in stabilizing the non-native alpha-helical intermediate state.     

Combinatorial synthesis and directed evolution applied to the production of alpha-helix forming antimicrobial peptides analogues

Antimicrobial peptides (AMPs) are effector molecules of innate immune systems found in different groups of organisms, including microorganisms, plants, insects, amphibians and humans. These peptides exhibit several structural motifs but the most abundant AMPs assume an amphipathic alpha-helical structure. The alpha-helix forming antimicrobial peptides are excellent candidates for protein engineering leading to an optimization of their biological activity and target specificity. Nowadays several approaches are available and this review deals with the use of combinatorial synthesis and directed evolution in order to provide a high-throughput source of antimicrobial peptides analogues with enhanced lytic activity and specificity.     

Construction of alpha-helix peptides with beta-cyclodextrin and dansyl units and their conformational and molecular sensing properties

In order to apply de novo peptide design to molecular sensing, we designed and synthesized a-helical peptides with beta-cyclodextrin (beta-CDx) as a binding site and a dansyl unit (Dns) as a fluorescence sensing site. The conformational and molecular sensing properties of the peptides with beta-CDx and Dns in various positions were investigated. Circular dichroism and fluorescence measurements revealed that beta-CDx and Dns form intramolecular complexes which depend on their positions in the peptides. In the 17 residual peptides named EK3 and EK3R, in which beta-CDx and Dns were introduced at the fourth and the eighth positions (EK3) or at the eighth and the fourth positions (EK3R), Dns was deeply included in the CDx cavity and formed a more stable self-inclusion complex with CDx than in the peptides EK6 and EK6R, in which these moieties were at the eighth and the fifteenth positions or at the fifteenth and the eighth positions, respectively. The stability of the self-inclusion complex between beta-CDx and Dns controlled the a-helix structure as well as the binding and sensing abilities for the exogenous guests. These results demonstrate the usefulness of peptide tertiary structure for arranging CDx and other functional units, and suggest that this approach is important in the development of a new type of CDx-based sensory system.     

Controlling 3(10)-helix and alpha-helix of short peptides in the solid state

L-Leu hexapeptide containing alpha-aminoisobutyric acid (Aib) forms a right-handed (P) 3(10)-helix, whereas that containing cyclic alpha,alpha-disubstituted amino acid Ac(5)c(dOM) assumes a right-handed (P) alpha-helix in the solid state.     

Truncated diastereoselective Passerini reaction, a rapid construction of polysubstituted oxazole and peptides having an α-hydroxy-β-amino acid component

The reaction of aldehydes and ketones, including aliphatic and aromatic ones, with amides of α-isocyano-β-phenylpropionic acid in toluene in the presence of lithium bromide gives 2,4,5-trisubstituted oxazoles in good to excellent yield. Protected chiral α-amino aldehydes participate in this reaction to give, after hydrolysis of the oxazoles, norstatine-containing peptides in good overall yield. The nucleophilic addition of isonitriles to N,N-dibenzylphenylalanal is investigated for the first time and is found to be stereoselective leading predominantly to the anti-adduct (dr=9/1). On the other hand, the reaction between the N-Boc phenylalanal and isonitrile is non-stereoselective.     

Inhibition of amyloid fibril formation of human amylin by N-alkylated amino acid and alpha-hydroxy acid residue containing peptides

Amyloid deposits are formed as a result of uncontrolled aggregation of (poly)peptides or proteins. Today several diseases are known, for example Alzheimer's disease, Creutzfeldt-Jakob disease, mad cow disease, in which amyloid formation is involved. Amyloid fibrils are large aggregates of beta-pleated sheets and here a general method is described to introduce molecular mutations in order to achieve disruption of beta-sheet formation. Eight backbone-modified amylin derivatives, an amyloidogenic peptide involved in maturity onset diabetes, were synthesized. Their beta-sheet forming properties were studied by IR spectroscopy and electron microscopy. Modification of a crucial amide NH by an alkyl chain led to a complete loss of the beta-sheet forming capacity of amylin. The resulting molecular mutated amylin derivative could be used to break the beta-sheet thus retarding beta-sheet formation of unmodified amylin. Moreover, it was found that the replacement of this amide bond by an ester moiety suppressed fibrillogenesis significantly. Introduction of N-alkylated amino acids and/or ester functionalities-leading to depsipeptides-into amyloidogenic peptides opens new avenues towards novel peptidic beta-sheet breakers for inhibition of beta-amyloid aggregation.     

Benzocyclobutadienyl anion: formation and energetics of an antiaromatic molecule

Benzocyclobutadienyl diazirine (2) was synthesized and reacted with hydroxide ion in a Fourier transform mass spectrometer to afford the conjugate base of benzocyclobutadiene (1a). Authentication of the ion structure was carried out by a derivatization experiment (i.e., la was converted to benzocyclobutenone enolate, which has previously been studied), and its reactivity was explored. Thermochemical data for benzocyclobutadiene (1) were obtained (deltaH(o)acid (1) = 386 +/- 3 kcal mol(-1), EA(1r) = 1.8 +/- 0.1 eV, and C-H BDE (1) = 114 +/- 4 kcal mol(-1)), compared to MP2 and B3LYP calculations, and contrasted to a series of model compounds. Cyclobutadienyl radical appears to be quite different from benzocyclobutadienyl radical (1r) and worth further exploration.     

A potent triphenylbenzene-based H-bonding donor to assist formation of two-component organogels with stilbazoles

Two-component organogelators based on a discotic H-bonding donor of 1,3,5-tris(4-amidobutanoic acid)phenyl benzene (2), and acceptors of 4-(4-alkoxybenzoyloxy)-4′-stilbazole derivatives were reported. These complexes showed good gelation ability for alcohols, which are known to be unfavorable for H-bonding formation. SEM study revealed that sheet-like network, nanotapes, and nanorods were gained from the self-assembling of the complexes with small difference of the carbon chain length. Based on XRD, IR, temperature-dependent ¹H NMR, and UV-vis absorption investigations, the gel-phase materials were generated from 1D columnar-type packing of complexes facilitated by cooperative H-bonding, π-stacking, and van der Walls interactions.     

Formation of β-hairpins in l-Pro-Gly containing peptides facilitated by 3-amino benzoic acid

Designed β-hairpin peptides tolerate insertion of 3-amino benzoic acid (3-Aba) and also permit accommodation of both enantiomers of Pro-Gly turn motifs.     

Synthesis and structural characterization of binuclear ytterbium(III) complexes with 2-amino and 3-amino benzoic acid

Two novel homobinuclear ytterbium(III) complexes, [Yb₂(2AMB)₆(H₂O)₄] · 2C₂H₆O (I) and Yb₂(3AMB)₆(H₂O)₄] · 3H₂O (II) (2AMB = 2-aminobenzoic acid, 3AMB = 3-aminobenzoic acid) have been synthesized and characterized by elemental analysis, infrared spectroscopy, thermogravimetric analysis and X-ray crystallography (CIF files CCDC nos. 950103 (I), 921652 (II)). Complex I crystallizes in triclinic space group \(P\bar 1\) and complex II crystallizes in monoclinic space group P2₁/n. X-ray analysis shows that both complexes (I, II) have the dinuclear structure. The central Yb³⁺ ions in both complexes are eight-coordinated adopting distorted YbO₈ dodecahedral geometry. Each Yb³⁺ ion is coordinated to two O atoms from bridging carboxylate, four O atoms from the chelating carboxylate ligands and two O atoms of water molecules. The crystal structure of I and II are stabilized by N-H…O, O-H…O, O-H…N, and C-H…O hydrogen bonds, C-H…π interactions and weak π-π stacking interactions.     

An efficient synthesis of γ-amino β-ketoester by cross-Claisen condensation with α-amino acid derivatives

Cross-ester condensation between N-protected amino acid ester and the lithium enolate prepared from alkyl acetate gave the corresponding β-ketoester in high yield without the formation of the tertiary alcohol that is commonly seen as by-product. This interesting reaction is applicable to the amino acid derivatives with suitable N-protecting groups, which can help to stabilize the reaction intermediates.     

Nitrosation of peptide bonds. Cleavage of nitrosated peptides by pyrrolidine and α-amino esters

The reaction of several α-amino acids and peptides (containing Gly, L-Ala, L-Leu, L- or DL-Phe, and/or L- or D-Val) with air-diluted nitrogen oxides has been studied to roughly mimic the N-nitrosation of peptide bonds that the contaminated urban air might produce in pulmonary tissues. Most N-protected α-amino acids give practically quantitative yields of N-nitroso derivatives. N-Protected dipeptides afford either dinitrosated peptides, mixtures of di- and mononitrosated compounds, selectively mononitrosated products, or no reaction at all, depending mainly on steric effects. The same trends are observed for some higher peptides. The (po1y)nitrosated Peptides, which retain the chirality of the starting materials, have been characterized by ¹H and ¹³C NMR spectroscopy and are cleaved by pyrrolidine and amino esters under mild conditions to give (new) amides or peptides plus diazo derivatives.     

An enantioselective synthesis of β2-amino acid derivatives

Enantioselective hydrogenation of a series of (E)-α-substituted β-amidoacrylates using Rh(I)-catalysts with chiral phosphine ligands (BPE, DuPHOS) gives β²-amino acid derivatives with enantioselectivities of up to 67%. A β^2,3-amino acid derivative was also synthesised with similar enantioselectivity (⩽65%) from the corresponding prochiral enamide.