A route for preparing new neamine derivatives targeting HIV-1 TAR RNA

In the search for molecules possessing antibiotic or antiviral properties and ribonuclease like activity, that is, able to induce the cleavage of bacterial or viral RNA targets, we report a new route for preparing selectively neamine derivatives modified at their 4′- and/or 5-hydroxyl functions. Using trityl protective groups for the amino functions and 4-methoxybenzyl groups for the hydroxyl functions, new neamine derivatives, such as histidine, phenanthroline, flavin, adenine conjugates were efficiently obtained after a single deprotection step under acid conditions. For the first time, 4′-modified neamine derivatives were prepared. Most of the 4′-derivatives showed affinity and selectivity for TAR RNA close to those of the corresponding 5-derivatives. The most potent compound is the 4′-histidine derivative 31 which binds more tightly to TAR RNA compared to its 5-isomer and neamine and recognizes selectively TAR oligonucleotides having a bulge.     

Synthesis and properties of PI polyamide-SAHA conjugate

We have designed and synthesized new types of pyrrole (P)-imidazole (I) polyamide conjugates 1 and 2 possessing a suberoylanilide hydroxamic acid (SAHA) moiety that is a strong inhibitor of histone deacetylase (HDAC). SAHA conjugate 2 was designed to target the promoter region of the p16 tumor suppressor gene. The DNA binding affinity of SAHA conjugate 2 to its target sequence was examined using surface plasmon resonance. HDAC inhibition activity of conjugates 1 and 2 was evaluated using a colorimetric assay. The results demonstrated that even though it possesses the relatively large SAHA moiety, conjugate 2 has high DNA sequence-specific binding properties and moderate HDAC inhibitory activity in vitro. SAHA conjugate 2 was found to cause morphological changes in HeLa cells and to induce selective Histone H3 lysine 9 acetylation.     

Upper rim tetrathiafulvalene-bridged calix[4]arenes

The synthesis of novel upper rim calix[4]arene-tetrathiafulvalene conjugates 1a-d has been performed by bridging the tetrachloromethylated calix[4]arene derivative 4 with the corresponding tetrathiafulvalene-dithiolates. The cyclic voltammetry of 1a-d shows a two-step oxidation behavior, whereas NMR binding titrations showed their binding affinity to pyridinium salts. X-ray structure of 4 features calixarene fixed in the pinched cone conformation; its crystal packing is defined by the network of C-H···Cl weak hydrogen bonds.     

Ferrocenoyl-amino acids: redox response towards di- and trivalent metal ions

The interaction of six ferrocene-amino acid conjugates (Fc-CO-Gly-OH (2a), Fc-CO-Asp-OH (3a), Fc-CO-Glu-OH (4a), 1,1′-Fc(CO-Gly-OH) (2b), 1,1′-Fc(CO-Asp-OH) (3b), and 1,1′-Fc(CO-Glu-OH) (4b)) with Mg²⁺, Ca²⁺, Zn²⁺, La³⁺, and Tb³⁺ was investigated in aqueous solutions using cyclic voltammetry (CV) and differential pulse voltammetry (DPV). Addition of metal ions to solutions caused, in some cases, large changes in the half-wave potential, E_1/2. Our electrochemical results show that the Gly systems, 2a and 2b, show a preference for binding Mg²⁺, whereas the Asp and Glu conjugates prefer binding Ln³⁺.     

Potent lipid peroxidation inhibitors from Withania somnifera fruits

A bioassay-guided purification of the methanolic extract of Withania somnifera fruits yielded novel withanamides A-I (1-9) and withanolides (10-13). Among the withanolides, compound 10 is novel. The structures of these compounds were determined by using FABMS, HRFABMS, 1D and 2D NMR spectral and chemical methods. The withanamides possess novel chemical structures and consisted of serotonin, glucose and long-chain hydroxyl fatty acid moieties. The stereochemistry of the hydroxyl group in the long-chain fatty acid moiety in compound 1 was determined by the modified Mosher's ester method. Compounds 1-13 were tested for their ability to inhibit lipid peroxidation in a model system using large unilamellar vesicles. Withanamides 1-5 and 9 inhibited lipid peroxidation by 98, 93, 79, 94, 81 and 86%, respectively, at 1 μg/mL. However, compounds 6-8 inhibited the lipid peroxidation by 85, 82 and 90%, respectively, at 0.5 μg/mL. Withanolides 10-13 were also tested and only compound 12 inhibited the lipid peroxidation by 82% at 10 μg/mL. To evaluate the structure activity relationships of withanamides A-I, compounds 14-16 were purchased and their lipid peroxidation activity determined as in the case of compounds 1-9. Commercial antioxidants, butylated hydroxyanisole (BHA), butylated hydroxytoluene (BHT) and tert-butylhydroquinone (TBHQ), were also tested in this assay at 1 μg/mL and showed 80, 81 and 85% of inhibition, respectively. Our results suggest that the potent antioxidant activity exhibited by novel withanamides is probably due to the hydroxylated long-chain acyl group. This is the first report of withanamides, unique serotonin conjugates, from W. somnifera fruits.     

Self-assembly of a novel series of hetero-duplexes driven by donor-acceptor interaction

The self-assembly of a novel series of donor-acceptor interaction-driven artificial hetero-duplexes in organic media has been described. Four linear compounds 1a-1d, bearing two to five electron rich 1,5-dioxynaphthalene units connected by the tetra(ethylene glycol) linker, respectively, have been prepared and used as donors, while eight compounds 2a-2d, 13-16, bearing one to four electron deficient pyromellitic diimide, 1,4,5,8-naphthalene-tetracarboxydiimide, or perylene-3,4,9,10-tetracarboxydiimide units, respectively, have been used as acceptors. The structure of the hetero-duplexes has been characterized by the ¹H NMR, UV-vis spectroscopy and vapor pressure osmometry. It is revealed that the binding stability of the duplexes vary greatly, depending on the length and structure of the monomers and also the solvent, and hetero-duplex 1d·2d displays a maximum association constant of ca. 1.0×10⁴ M⁻¹ in chloroform.     

Intramolecular charge transfer dual fluorescent sensors from 4-(dialkylamino)benzanilides with metal binding site within electron acceptor

Three fluoroionophores (2a-c) were designed as the intramolecular charge transfer (CT) dual fluorescent sensors for metal cations with metal binding site within the electron acceptor. These sensors were derived from 4-dialkylaminobenzanilides (alkyl=methyl, ethyl, and n-butyl) with the amido phenyl ring being an arm of 15-crown-5 thus bearing binding site for alkaline and alkaline earth metal cations. Compounds 2a-c were expected to have two possible CT channels of opposite direction. The absorption and fluorescence spectra of 2a-c and their crown-ether free model molecules 3a-c in a variety of solvents were recorded. Dual fluorescence was observed with 2a-c and was assigned to the LE and the CT states, respectively. In nonpolar or less polar solvents the CT occurring with 2a-c was identified as that occurred with benzanilides (BA) with the amido anilines being the electron donor (the BA-like CT), while in polar solvents such as acetonitrile (ACN), the CT was still mainly the BA-like. In the presence of alkali and alkaline earth metal cations in ACN, the CT dual fluorescence underwent substantial changes so as increased total quantum yield, red-shifted LE band and enhanced CT to LE intensity ratio. Binding of the metal cations at the 15-crown-5 moiety of 2a-c was shown to turn the CT direction that the dialkylamino group in the binding complexes being the electron donor while the benzo-15-crown-5 moiety now being within the electron acceptor. The occurrence of this CT enhances metal cation binding to 15-crown-5 ether in 2a-c, which was confirmed by the observed higher metal binding constants. Compounds 2a-c as the CT dual fluorescent sensors were shown to operate under the mechanism of the metal cation binding induced switching of the CT character from the BA-like to that occurred with 4-(dimethylamino)benzamides (the DMABA-like). Compounds 2a-c therefore represent successful examples for the CT dual fluorescent sensors for cations with the metal binding site within the electron acceptor and can be employed as sensitive ratiometric fluorescent sensors for metal cations of improved sensing performance.     

Syntheses of nucleosides with 2′-spirolactam and 2′-spiropyrrolidine moieties as potential inhibitors of hepatitis C virus NS5B polymerase

To discover novel nucleosides as potential antiviral agents, 2′-spirolactam and 2′-spiropyrrolidine-containing nucleoside analogs were envisioned. Efficient synthetic routes were developed with an epoxide opening as the key step to establish the quaternary center at the 2′ position, leading to the design and synthesis of uridine analogs 8 and 21, prodrugs 13–16, and cytidine analog 11.     

Synthesis of aminodisaccharide-nucleoside conjugates for RNA binding

Two types of aminodisaccharide-nucleoside conjugates were synthesized by the condensation of azidodisaccharide and nucleoside using aliphatic diamine as a linker. The corresponding azidodisaccharides could be yielded from neamine in good yield. The binding properties to 16S RNA of these conjugates were evaluated by SPR. It was found that the nucleobase played a significant role in the binding of these conjugates to 16S RNA and a shorter linker between the aminodisaccharide and nucleoside was favorable for 16S RNA binding.     

Synthesis of (±)-pyranonaphthoquinone derivatives, a Cdc25A phosphatase inhibitor

The novel pyranonaphthoquinone 2, carrying Cdc25A phosphatase inhibitory activity, has been successfully synthesized through tricyclic compound 16, which was obtained from 15 by using the intramolecular Michael addition. The precursor 9 was derived from 5-bromoveratraldehyde.     

Cycloadditions of NS functions to cyclopentadienones

Cyclopentadienones react with EtO₂CNSO and related NS reagents to provide ready syntheses of 1,2,5-thiadiazolidines (8, 12, 17), diaminosulfanes (11, 13), an aminocyclopentenone (10) and the first unoxidised 1,2,3-oxathiazolidine (16), all in a mechanistically rational manner.     

Synthesis of indenothiophenone derivatives by cycloaromatization of non-conjugated thienyl tetraynes

Non-conjugated thienyl tetrayne derivatives 1-3 are prepared as novel building block for the construction of indenothiophenone derivatives. Oxidation of 1-3, followed by cycloaromatization of the corresponding ketone derivatives 13-15 proceeds smoothly to afford indenothiophenone derivatives 16-21 in good yields.     

Interactions of acyclic and cyclic bis-phenanthridinium derivatives with ss- and ds-polynucleotides

The acyclic bis-phenanthridinium ligands 1, 2 and the cyclic analogue 3 bind to ss-RNA by bis-intercalation. Due to it's shorter linker 1 exhibits mono-intercalative binding to ds-polynucleotides, while a mixed mode of binding with 2 is shown to strongly dependent on the base composition and tertiary structure of ds-DNA and RNA. The cyclic analogue 3 binds to ds-polynucleotides by non-intercalative mode. Comparing the ss-/ds-polynucleotide selectivity obtained for 3 and previously reported for 3,8-linked bis-phenanthridinium analogues, it is clear that the more rigid structure and sterically more restricted cleft of the latter could better distinguish ss- from ds-polynucleotide regions.     

Total synthesis of (+)-ambruticin S

A convergent total synthesis of the novel antifungal agent ambruticin S (1) has been completed from the assembly of intermediates 18, 33 and 52 that served as the respective A-, B-, and C-ring precursors. The first generation approach to a potential A-ring intermediate eventuated in the synthesis of 9a via a route that featured oxidation of the dihydroxy furan 2 and elaboration of the dihydropyranone 3 derived therefrom. Although 9a served as a precursor of 31E to complete a formal synthesis of 1, there were several inefficiencies associated with the preparation of 9a. A more expedient and efficient route to an A-ring subunit was devised that commenced with the carbohydrate-derived bisacetonide aldehyde 10 and produced 18 in five steps and 46% overall yield. The synthesis of the cyclopropyl sulfone 33 was initiated with the enantioselective cyclopropanation of 19 catalyzed by Rh₂[5(S)-MEPY]₄. Ring opening of the resultant lactone 20 followed by a series of refunctionalizations gave 33 in a total of seven steps and 46% yield from 19. Coupling of the A- and B-ring precursors 18 and 33 was then achieved via a modified Julia coupling followed by deprotection and oxidation to furnish the key intermediate 35. The dihydropyran core of the C-ring subunit precursor 49 was formed from the ring closing metathesis of the diene 48, which was prepared in three steps from the known epoxide 45, followed by oxidation. A chelation-controlled addition to the methyl ketone 49 set the stage for a stereoselective [2,3]-Wittig rearrangement that delivered the alcohol 51 that was then transformed in two steps to the sulfone 52. A traditional Julia coupling of 52 and 35 proceeded with excellent stereoselectivity, and subsequent removal of the various protecting groups gave ambruticin S (1). The longest linear sequence was 13 steps and proceeded in 4.3% overall yield.     

A new total synthesis of (±)-oestrone

A conceptually new total synthesis of oestrone, based on a novel cascade of radical cyclisations from the iodo aryl vinylcyclopropane 2, via 10, 15, 16 and 17, leading to the intermediate trans,anti,trans-oestradiol derivative 11 in one step, is described. Oxidation of 11, followed by demethylation of the resulting aryl methyl ether 18 then gives (±)-oestrone 1.     

Stereoselective synthesis of (2R,3S,4S)-3-hydroxy-4-methyl-2-tetradecyl-4-butanolide starting from 2,5-anhydro-d-mannitol

A novel approach to natural β-hydroxy-γ-lactone 2 from 2,5-anhydro-d-mannitol (1) is described. The key reactions in this synthesis include stereoselective methylation of aldehyde 3 with lithium dimethylcuprate, an intramolecular radical cyclization of seleno carbonate 11 and an intermolecular cross-metathesis of 3-allyl-4-hydroxy-γ-lactone 16 with 1-tridecene.     

Synthesis, conformation and PKC isozyme surrogate binding of indolinelactam-Vs, new conformationally restricted analogues of (−)-indolactam-V

New conformationally restricted analogues of tumor promoter (−)-indolactam-V (1), indolinelactam-Vs (8, 11) and their hexyl derivatives at position 1 or 7 (9, 10, 12, 13), were synthesized from 1. (3R)-Indolinelactam-V (8) adopted a conformation similar to the twist form of 1 with a cis amide, while the conformation of (3S)-indolinelactam-V (11) was close to that of the sofa form of 1 with a trans amide. 7-Hexyl derivatives of 8 and 11 (10, 13) showed binding affinities for C1 domains of protein kinase C (PKC) isozymes compared to 1, but exhibited little selectivity among these PKC isozymes. However, introduction of the hexyl group at position 1 of 8 and 11 significantly enhanced their binding selectivity for novel PKC isozymes. The best selectivity for novel PKC isozymes was observed in (3S)-1-hexylindolinelactam-V (12) with a sofa-like conformation. These results suggest that a sofa-restricted analogue of 1 with a hydrophobic chain at an appropriate position would be a promising lead for designing agents with a high selectivity for novel PKC isozymes.     

Cycloaddition reactions of cross-conjugated enaminones

A detailed study on the cycloaddition reactions of cross-conjugated enaminones 1 and 9 with dimethyl acetylenedicarboxylate (DMAD) and ketenes is described. The reactions provide a variety of pyran (4, 11), pyran-2-one 14 and pyrrol-3-ylidene 8 derivatives having great pharmacological and medicinal significance. Moreover, the preferred formation of product 8 over 7 has been explained on the basis of molecular dynamics (MD) simulations performed on the intermediate 5 in the gas phase. The synthetic potential of enaminones 9 has further been explored by treating them with Lawesson's reagent (LR) and trapping the in situ generated enaminothiones 16 with some acrylates 17 leading to the formation of thiopyran derivatives 19. To the best of our knowledge, this is the first report in which cross-conjugated enaminothiones 16 have been utilized in cycloaddition reactions.     

Design and synthesis of triazole-based peptide dendrimers

A series of novel designer dendrimers (8, 9, 11, 13 and 16) was synthesized by employing click chemistry. The dendritic structures reported here include symmetrical, unsymmetrical and cationic dendrimers with a variety of cores such as triazole, cystine and Lys-Asp dipeptide.     

A novel strapped porphyrin receptor for molecular recognition

A novel strapped porphyrin receptor Zn1, in which two electron-rich bis(p-phenylene)-34-crown ether-10 units are incorporated, has been designed and synthesized from the newly developed intermediate 7 for investigating new chemistry of molecular recognition. ¹H NMR and UV-Vis studies revealed that Zn1 displays relatively weak binding abilities to neutral electron deficient naphthalene-1,8,4,5-tetracarboxydiimide (NDI) derivatives 13 (no simple complexing stoichiometry was observed), 19 (K_a=48(±5) M⁻¹) and 30 (K_a=46(±5) M⁻¹) in chloroform-d, strong binding ability to pyridine derivative 25, (K_a=1.5(±0.12)×10³ M⁻¹) in chloroform, moderately strong binding ability to tetracationic compound 35·4PF₆ (K_a=475(±50) M⁻¹) in acetone-d₆, and very strong binding affinity to compound 22 (K_a=6.5(±0.7)×10⁵ M⁻¹), which consists of one pyridine and two NDI units, in chloroform. Remarkable cooperative effect of the intermolecular metal-ligand coordination and donor-acceptor interactions in complex Zn1·22 was observed by comparing the complexing behaviors between Zn1 and the appropriately designed guests. Complex Zn1·22 possesses an unique three-dimensional tri-site binding feature. For comparison, the complexing affinity of 1 toward compounds 13, 19, and 30 in chloroform-d and 35·4PF₆ in acetone-d₆ has also been investigated and the binding patterns in different complexes were explored. The results demonstrate that strapped porphyrin derivatives are ideal precursors for constructing new generation of three-dimensional multi-site artificial receptors for molecular recognition and host-guest chemistry.