'Twisted' isophthalamide analogues

Steric interactions in 1,3-dicarboxamidoanthraquinones have been employed to 'twist' isophthalamide-like anion binding sites; the crystal structure of the fluoride complex of a bis-3,5-dichlorophenylamide derivative shows the receptor acting as a 'hydrogen-bonding corner' in a '2 + 2' fluoride containing molecular box.     

Photorepair of Ultraviolet Radiation (UVR)-lnduced Pyrimidine Dimers in Lens Epithelial DNA of Monodelphis domestica

Abstract— The repair of UV radiation-induced pyrimidine dimers has been measured in lens epithelial DNA of the marsupial Monodelphis domestica using a pyrimidine dimerspecific endonuclease from Micrococcus luteus. Approximately 40% of the initially induced dimers were repaired during 90 min exposures to photoreactivating light. This capacity of the lens epithelium to photorepair pyrimidine dimers may provide a means with which to determine whether pyrimidine dimers in lens epithelial DNA are involved in UV radiation-induced pathologic changes of the lens.     

Fluoride-selective binding in a new deep cavity calix[4]pyrrole: experiment and theory

A new "super-extended cavity" tetraacetylcalix[4]pyrrole derivative was synthesized and characterized, and X-ray crystal structures of complexes bound to fluoride and acetonitrile were obtained. The binding behavior of this receptor was investigated by NMR titration, and the complex was found to exclusively bind fluoride ions in DMSO-d(6). This unusual binding behavior was investigated by Monte Carlo free energy perturbation simulations and Poisson calculations, and the ion specificity was seen to result from the favorable electrostatic interactions that the fluoride gains by sitting lower in the phenolic cavity of the receptor. The effect of water present in the DMSO on the calculated free energies of binding was also investigated. Owing to the use of a saturated ion solution, the effect of contaminating water is small in this case; however, it has the potential to be very significant at lower ion concentrations. Finally, the adaptive umbrella WHAM protocol was investigated and optimized for use in binding free energy calculations, and its efficiency was compared to that of the free energy perturbation calculations; adaptive umbrella WHAM was found to be approximately two times more efficient. In addition, structural evidence demonstrates that the protocol explores a wider conformational range than free energy perturbation and should therefore be the method of choice. This paper represents the first complete application of this methodology to "alchemical" changes.     

Metal-organic anion receptors: arranging urea hydrogen-bond donors to encapsulate sulfate ions

A new class of synthetic receptors for anions can be prepared by arranging urea hydrogen-bond donor groups on a simple metal-organic scaffold. The complex cation [PtL4]2+ (L = 8-(n-butylurea)iso-quinoline) can adopt four conformations reminiscent of calix[4]arene-based receptors; "cone", "partial cone", "1,2-alternate", or "1,3-alternate". 1H NMR solution data and solid-state X-ray structures show that a "1,2-alternate" conformation is used to bind spherical halide ions while a "cone" conformation is involved in strong binding with the tetrahedral oxy-anions such as the sulfate ion; even in a strongly competitive solvent such as DMSO.     

Evaluation of 15 polymerases and phosphorothioate primer modification for detection of UV-induced C:G to T:A mutations by allele-specific PCR

Allele-specific polymerase chain reaction is based on polymerase extension from primers that contain a 3' end base that is complementary to a specific mutation and inhibition of extension with wild-type DNA due to a 3' end mismatch. Taq polymerase is commonly used for this assay, but because of the high rate of nucleotide extension from primer 3' base mismatches documented for Taq polymerase, high sensitivity is difficult to achieve. To determine whether other polymerases might improve assay sensitivity, 15 polymerases were tested with mutation-specific primers for two ultraviolet-induced mutations in the human 5S ribosomal RNA genes. Of the 15 polymerases tested, six were capable of discriminating these mutations at levels equivalent to or better than Taq polymerase. All primers were phosphorothioate modified on the 3' end to block removal of the critical 3' mutation-specific base by polymerases containing 3' --> 5' exonuclease "proofreading" activity. The effectiveness of phosphorothioate modification was measured in mock polymerase chain reaction reactions and a time course. All six enzymes containing this exonuclease activity showed some ability to digest phosphorothioate-modified primers and could be divided into two groups, showing fast and slow digestion kinetics. Of the three enzymes that showed slow digestion kinetics, two also showed significantly slower digestion kinetics of unmodified primers.     

E‐glass/DGEBA/m‐PDA single fiber composites: New insights into the statistics of fiber fragmentation

The interfacial shear strength is a critical parameter for assessing composite performance and failure behavior. This parameter is usually obtained from a single‐fiber fragmentation test that induces sequential fracture with increasing strain of a single embedded fiber with output being the distribution of fragment lengths. An exact analytical form for the expected fragment length distribution is still not known. Such data are often fit empirically to Weibull, shifted‐exponential, or lognormal distribution functions. In this report, new insights into the sequential fiber fracture process are provided by detailed analyses of the fiber break locations along the length of the embedded fiber. From this approach, the high degree of uniformity of the break coordinate loci strongly suggests that there can be no mechanistic rationale for the use of the Weibull, or lognormal, or exponential functions to fit the fragment lengths. © 2009 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 47: 2301–2312, 2009     

Voltage‐Switchable HCl Transport Enabled by Lipid Headgroup–Transporter Interactions

Synthetic anion transporters that facilitate transmembrane H⁺/Cl^? symport (cotransport) have anti‐cancer potential due to their ability to neutralize pH gradients and inhibit autophagy in cells. However, compared to the natural product prodigiosin, synthetic anion transporters have low‐to‐modest H⁺/Cl^? symport activity and their mechanism of action remains less well understood. We report a chloride‐selective tetraurea macrocycle that has a record‐high H⁺/Cl^? symport activity similar to that of prodigiosin and most importantly demonstrates unprecedented voltage‐switchable transport properties that are linked to the lack of uniport activity. By studying the anion binding affinity and transport mechanisms of four other anion transporters, we show that the lack of uniport and voltage‐dependent H⁺/Cl^? symport originate from strong binding to phospholipid headgroups that hampers the diffusion of the free transporters through the membrane, leading to an unusual H⁺/Cl^? symport mechanism that involves only charged species. Our work provides important mechanistic insights into different classes of anion transporters and a new approach to achieve voltage‐switchability in artificial membrane transport systems.     

Spatial Behavior and Continuous Dependence Results in the Linear Dynamic Theory of Magnetoelectroelasticity

This paper is concerned with some general theorems for the linear dynamic theory of magnetoelectroelasticity. First, the spatial behavior of solutions is studied. In this sense, the so called ??support?? of the given data in a fixed interval of time [0,T] is introduced and an adequate time-weighted surface power function associated with the solution at issue is considered. Using their properties, we get the domain of influence and an exponential decay estimate with time-independent rates inside the domain of influence. As a by-product, a uniqueness result is derived for both bounded and unbounded bodies. Then, the case of non-zero initial conditions is also considered. Under a boundedness restriction on the initial data, an energy estimate is obtained. Finally, a continuous dependence result of solutions upon initial data and body forces is established.