The effect of tin fluorophosphate‐glass (Pglass) nanoparticles on the polyamide‐6 (PA6) matrix in Pglass/PA6 hybrids has been investigated by 13C solid‐state nuclear magnetic resonance (NMR). The crystallinity determined by direct‐polarization 13C NMR combined with longitudinal relaxation‐time (T1C) filtering varied between 31 and 44%. T1C‐filtered 13C spectra with cross polarization clearly showed resonances of both the α‐ and γ‐crystalline phases of PA6, typically at ratios near 45:55, while the similarly processed neat polymer contained only the α‐phase. This suggests that the Pglass promotes the growth of the γ‐crystalline phase. © 2008 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 46: 857–860, 2008

The effects of melt blending conditions on the rheology, crystallization kinetics, and tensile properties of phosphate glass/polyamide 12 hybrid systems were investigated for the first time, to understand their complex processing/structure/property relationships. Increasing amounts of phosphate glass (Pglass) caused an increase in hybrid viscosity. Hybrid viscosity was also affected by processing (melt-mixing) speed and small-amplitude oscillatory shear tests and scanning electron microscopy (SEM) were used for a qualitative examination of the hybrid morphology. The addition of Pglass caused a decrease in hybrid crystallinity that was unaffected by processing (melt-mixing) speed. The two-parameter Avrami equation was applied successfully to the hybrid systems, and Pglass was found to nucleate the growth of polyamide 12 crystals. The nucleation effect was found to be dependent on concentration and processing history. The tensile properties of the hybrids were also studied, and the Halpin-Tsai equation was applied to the results to determine the maximum packing fraction of the Pglass. These results provide a basis for the prediction of hybrid mechanical properties for different Pglass concentrations and processing histories. Further, because of their facile processibility and desirable characteristics, such as the strong physicochemical interaction between the hybrid components and favorable viscoelasticity, these Pglass/polyamide 12 hybrids can be used as model systems for exploring feasibility of new routes for driving organic polymers and inorganic Pglass to self-assemble into useful organic/inorganic hybrid materials.

The objective of this study is to evaluate the structure and protein recognition properties of hybrid four-way junctions (4WJs) composed of DNA and peptide nucleic acid (PNA) strands. We compare a classic immobile DNA junction, J1, vs. six PNA-DNA junctions, including a number with blunt DNA ends and multiple PNA strands. Circular dichroism (CD) analysis reveals that hybrid 4WJs are composed of helices that possess structures intermediate between A- and B-form DNA, the apparent level of A-form structure correlates with the PNA content. The structure of hybrids that contain one PNA strand is sensitive to Mg+2. For these constructs, the apparent B-form structure and conformational stability (Tm) increase in high Mg+2. The blunt-ended junction, b4WJ-PNA3, possesses the highest B-form CD signals and Tm (40.1°C) values vs. all hybrids and J1. Protein recognition studies are carried out using the recombinant DNA-binding protein, HMGB1b. HMGB1b binds the blunt ended single-PNA hybrids, b4WJ-PNA1 and b4WJ-PNA3, with high affinity. HMGB1b binds the multi-PNA hybrids, 4WJ-PNA1,3 and b4WJ-PNA1,3, but does not form stable protein-nucleic acid complexes. Protein interactions with hybrid 4WJs are influenced by the ratio of A- to B-form helices: hybrids with helices composed of higher levels of B-form structure preferentially associate with HMGB1b.

Holliday or DNA four-way junctions (4WJs) are cruciform/bent structures composed of four DNA duplexes. 4WJs are key intermediates in homologous genetic recombination and double-strand break repair. To investigate 4WJs in vitro, junctions are assembled using four asymmetric DNA strands. The presence of four asymmetric strands about the junction branch point eliminates branch migration, and effectively immobilizes the resulting 4WJ. The purpose of these experiments is to show that immobile 4WJs composed of DNA and peptide nucleic acids (PNAs) can be distinguished from contaminating labile nucleic acid structures. These data compare the electrophoretic mobility of hybrid PNA–DNA junctions vs. i) a classic immobile DNA 4WJ, J1 and ii) contaminating nucleic acid structures.

Aminoacyl‐tRNA synthetases (aaRSs) are a well‐known class of enzymes that act as sentinels of genome. During protein translation, aaRSs ensure that L‐amino acids are charged or acylated onto their cognate tRNA isoacceptor(s). Hence, aaRSs help ensure that ribosomally translated proteins contain the proper sequence of amino acids. aaRS catalyze tRNA charging in a two‐step process. In step one, aaRSs selectively form a high energy amino acid adenylate. This step, refereed to amino acid activation, is the first level of selectivity in protein translation. Here, aaRSs effectively discriminate non‐cognate L‐amino acids. In step two, aaRSs transfer adenylated amino acids onto the cognate tRNA isoacceptor. This step is referred to as aminoacylation or tRNA charging. A great deal is known about aaRS reaction mechanisms but a number of confounding idiosyncrasies remain. The focus of this work aims to elucidate idiosyncrasies associated with amino acid activation. Here, a 32P‐based assay is used to measure the level to which E. coliaaRSs activate non‐cognate L‐amino acids. The purpose of these assays is to measure the plasticity of aaRS active sites to define additional underlying binding interactions that modulate amino acid recognition. This information could also be used to develop small molecule inhibitors of aaRS. Moreover, these data could reveal underlying clues to the potential origins of aaRSs. Here, three aaRSs are investigated: ArgRS, IleRS and LysRS. The activation data shows that each aaRS perhaps somewhat surprisingly activates more than five non‐cognate AAs to varying levels. Next, computer docking experiments are used to visualize the binding interaction of synthetase active site residues to each non‐cognate amino acid. These data are currently being used to construct protein‐ligand interaction maps of each aaRS active site. The resulting interactions maps can be used to more clearly elucidate idiosyncrasies associated with amino activation.