Artificial oligopeptide scaffolds for stoichiometric metal binding

Two artificial peptides with pendant pyridine or bipyridine ligands have been synthesized and incorporated into oligomeric strands that are analogous to peptide nucleic acid. Spectrophotometric titrations with Cu(2+) and Fe(2+) show that the oligomers bind stoichiometric quantities of transition metals based on the number of pendant ligands. The identities of the titration products are confirmed by high resolution mass spectrometry. In the case of the bipyridine tripeptides, the titration stoichiometry and mass spectra indicate that the metal ions form interstrand cross-links between two oligopeptides, creating duplex structures linked exclusively by metal ions. Calculated molecular structures of the metalated oligopeptides and duplexes indicate that the peptide backbone acts as a scaffold for the directed assembly of metal ions. Electron paramagnetic resonance spectroscopy of the Cu-containing molecules have varying degrees of electronic interaction based on their charge and supramolecular structure. Cyclic voltammetry of the Fe(2+)- and Cu(2+)-linked bpy oligopeptide duplexes shows that they possess unique electrochemical signatures based on the redox reactivity of the metal complex.     

High-speed optimization of inhibitors of the malarial proteases plasmepsin I and II

Four focused libraries targeted for inhibition of the malarial proteases plasmepsin I and II were designed, synthesized, purified, and screened. Selected carboxylic acids and organometallic reactants with diverse physical properties were attached to the hydroxylethylamine scaffold in the P3 and P1' positions to furnish inhibitors with highly improved activity. The concept of controlled and sequential microwave heating was employed for rapid library generation. This combinatorial optimization protocol afforded plasmepsin inhibitors not only with K(i) values in the low nanomolar range, but also with high selectivity versus the human protease cathepsin D. With this class of inhibitory agents, modifications of the P1' substituents resulted in the largest impact on the plasmepsin/cathepsin D selectivity.     

The effect of mutation on RNA Diels-Alderases

Chemical mutagenesis of a previously reported RNA Diels-Alderase (DA22) was followed by in vitro selection based on [4 + 2] catalysis. New mutated families of RNA Diels-Alderases closely related in sequence space were obtained. The mutated Diels-Alderases selected showed significant improvements in catalytic efficiency (k(cat)/K(m)) as compared to the original DA22. The improvement in catalytic activity was primarily due to a decrease in K(m), but modest increases in k(cat) were also observed. The increase in catalytic activity of these new Diels-Alderases was found not to negatively affect their dienophile specificity. Surprisingly, one of the most active Diels-Alderases (DAM 40), a subtle sequence mutant of DA22, was found to show a new metal dependence and could function with Ni(2+) as the only transition-metal ion. Truncation experiments of DA22 showed that the region shown to be hypervariable at the 3'-end of the structure could be deleted without a significant decrease in the relative rate of Diels-Alder catalysis.     

Efficient synthesis of 1β-O-acyl glucuronides via selective acylation of allyl or benzyl d-glucuronate

Acyl glucuronides are key metabolites for many carboxylic acid-containing drugs, notably those of the non-steroidal anti-inflammatory class. In the processes of drug safety assessment and new drug development, it is essential that acyl glucuronides, if formed in vivo, should be made conveniently available for bioevaluation. We recently showed that selective acylation of allyl glucuronate is a promising method for the synthesis of these metabolites in good yield and with excellent β-anomeric selectivity. We now give fuller details of the allyl ester method and further report that benzyl glucuronate performs at least equally well in the acylation step, offering the advantage of very mild deprotection by catalytic transfer (or conventional) hydrogenation. Depending on the compatibility of other functional groups, as discussed below, this will be the method of choice for many acyl glucuronide syntheses. The value of the method is demonstrated in particular by the synthesis of several acyl glucuronides that are known metabolites of important drugs.     

Synthesis and characterization of zinc sensors based on a monosubstituted fluorescein platform

The synthesis of a new fluorescein carboxaldehyde asymmetrically substituted on the xanthene (top) ring is reported. This molecule is a key precursor for two of three monofunctionally derivatized fluorescein-based Zn(II) sensors presented in this work. Detailed preparative routes to, and photophysical characterization of, these sensors are described. The sensors are based on the previously reported ZP4 motif (Burdette, S. C.; Frederickson, C. J.; Bu, W.; Lippard, S. J. J. Am. Chem. Soc. 2003, 125, 1778-1787) and incorporate a di(2-picolyl)amine-containing aniline-derivatized ligand framework. By varying the nature of the substituent (X) para to the aniline nitrogen atom, which is responsible for PET quenching of the unbound ZP dye, we investigated the extent to which such electronic tuning might improve the fluorescent properties of asymmetrical ZP sensors. Although a comparison of probes with X = H, F, Cl, OMe reveals that the photophysical behavior of these dyes is not readily predictable, our methodology illustrates the ease with which aniline-based ligands may be linked to fluorescein dyes.     

Rapid separation of antimicrobial metabolites by microchip electrophoresis with UV linear imaging detection

This research examines microchip electrophoresis with linear imaging UV detection for the analysis of antimicrobial metabolites, monoacetylphloroglucinol (MAPG) and 2,4-diacetylphloroglucinol (2,4-DAPG) from Pseudomonas fluorescens F113. Initial results show the separation of MAPG, 2,4-DAPG and resorcinol in less than 20 s. This was achieved using a quartz microchip with a separation channel length of 25 mm. In order to quantitate the amount of MAPG and 2,4-DAPG in a microbial cultured supernatant sample, on-chip sample introduction in a methanol/buffer matrix was investigated. Sample introduction/injection parameters were optimized to improve sensitivity and thus decrease the limit of detection (LOD). The amount of antimicrobial metabolites present was quantitated with a separation time of 15 s. A previously developed capillary electrophoretic method was compared to the microchip method in relation to speed, efficiency, precision, linear range and limit of detection. This investigation shows the fastest separation so far of these antimicrobial metabolites with high efficiency.     

RELATIONSHIP BETWEEN SURVIVAL, PHOTOPRODUCT PRODUCTION AND REPAIR CAPACITY IN A VARIANT OF BACILLUS CEREUS

Abstract —As sporulation progresses, there is an increased resistance to UV irradiation of the cells of Bacillus cereus var. alesti. This progressive increase is independent of post-irradiation treatment and appears to be a property of the stage of sporulation. In addition, the proportion of photoproducts formed is different for each stage of sporulation. Cells irradiated at Stage I (axial filament) of sporulation display relatively large amounts of spore photoproduct 'c' and less of photoproduct 'b'. As sporulation proceeds, UV irradiation results in the production of more spore photoproduct 'b' and less 'c', suggesting a progressive change in configuration of the DNA within the sporulating cell. If irradiated early in the process (Stage II), large amounts of cyclobutane-type dimers are also produced which, with the 'spore-specific' photoproducts, may be retained in the resultant spore. Although no excision-repair was detectable during germination of these spores, both vegetative and 'spore-specific' damage is reduced during this period. The 'spore-specific' repair mechanism may be able to remove vegetative damage from germinating spores.     

Preparation of polymeric amines from poly(schiff bases)

A study was made of the preparation of aromatic polymeric amines in order to test their thermal stability. The most useful method was the hydrogenation of polymeric Schiff bases by the dimethylamine—borane reagent or the borane—tetrahydrofuran reagent. The Schiff bases were prepared by the solution polymerization of terephthalaldehyde with various aromatic diamines, including 4,4′-methylenedianiline, benzidine, and p-phenylenediamine, and for comparison, 1,6-hexanediamine. The Schiff bases and the polyamines from the aromatic diamines were found to be dimers or trimers, not high polymers: the polymers from the aliphatic diamine had a degree of polymerization of about 14. Thermogravimetric analyses of the aromatic polyamines under nitrogen showed that the initial temperatures of marked degradation were 350–400°C.     

The effects of individual amino acids on the fast folding dynamics of alpha-helical peptides

Nanosecond temperature jump experiments coupled to time-resolved infrared spectroscopy were carried out on a series of alanine-based peptides containing different guest amino acids to study the effects of residues with different helix propensities on the helix-coil dynamics.