Self-sorting: the exception or the rule?

In this paper, we pose the question of whether self-sorting in designed systems is exceptional behavior or whether it is likely to become a more general phenomenon governing molecular recognition and self-assembly. To address this question we prepared a mixture comprising two of Davis' self-assembled ionophores, Rebek's tennis ball and calixarene tetraurea capsule, Meijer's ureidopyrimidinone, Reinhoudt's calixarene bis(rosette), and two molecular clips in CDCl(3) solution and observed the behavior of this ensemble by (1)H NMR. As hypothesized, high-fidelity self-sorting behavior was observed. The influence of several key variables-temperature, concentration, equilibrium constants, and the presence of competitors-on the fidelity of self-sorting is described. These results show that self-sorting is neither the exception nor the rule. They suggest, however, that the subset of known molecular aggregates that exceed the criteria required for thermodynamic self-sorting is larger than previously appreciated and potentially quite broad.     

Does the topological approach characterize the hydrogen bond?

 The topological analysis of the electron localization function has been applied to complexes representative of the weak, medium and strong hydrogen bond. For both the weak and the medium hydrogen bonds, the number of basins in the complexes is the sum of those of the moieties. In this case, the formation of a weak or a medium hydrogen-bonded complex does not involve a chemical reaction. In the weak hydrogen bond case, the reduction of the localization domain yields two domains in the first step, which can be partitioned afterwards into valence and core domains. In contrast, for medium complexes the core–valence separation is the first event which occurs during the reduction process and therefore the complex should be considered as a single molecular species. Moreover, the analysis of the basin population variance indicates in this case a noticeable delocalization between the V(A, H) and V(B) basins. Finally, the symmetrical strong hydrogen bond has a protonated basin V(H) at the bond midpoint. Such a topology corresponds to an incomplete proton transfer and to a rather covalent bond. Received: 19 April 1999 / Accepted: 22 July 1999 / Published online: 17 January 2000     

What is the structure of the RecA-DNA filament?

The bacterial RecA protein has been a model system for understanding how a protein can catalyze homologous genetic recombination. RecA-like proteins have now been characterized from many organisms, from bacteriophage to humans. Some of the RecA-like proteins, including human RAD51, appear to function as helical filaments formed on DNA. However, we currently have high resolution structures of inactive forms of the protein, and low resolution structures of the active complexes formed by RecA-like proteins on DNA in the presence of ATP or ATP analogs. Within a crystal of the E. coli RecA protein, a helical polymer exists, and it has been widely assumed that this polymer is quite similar to the active helical filament formed on DNA. Recent developments have suggested that this may not be the case.     

Is the Chandler Period Stable?

The problem on the Chandler period is an unsolved one. Several authors suggested a hypothesis that the Chandler wobble is only one free period which slightly changes in time and is amplitude-dependent. In this paper, we shall examine the hypothesis more rigorous than that which has been carried yet. A new deconvolution method for Fourier transform is suggested. Using this method, the polar motion data since 1900 are analysed and the varying process of the Chandlerian period and amplitude are given. The analytical results show that the Chandler period is not stable and is indeed amplitude-dependent. The probable explanation for this phenomenon is that it might be caused by non-equilibrium response of the ocean.     

Is the HCCS radical linear in the excited state?

The A (2)Pi-X (2)Pi 415 nm band system of the linear HCCS radical has been known since 1978, but the vibronic structure in this complex spectrum, which has both spin-orbit and Renner-Teller complications, has never been satisfactorily assigned, despite serious experimental and theoretical efforts. In a further attempt to understand the spectrum, we have studied the laser-induced fluorescence spectra of jet-cooled HCCS and DCCS, produced from thiophene precursors using the discharge jet technique. The 0(0) (0) bands of HCCS and DCCS have been rotationally analyzed, providing precise ground and excited state spin-orbit splittings. The energy levels of the v(')=0 (2)Pi(3/2) component of DCCS are found to be perturbed by a very low-lying (2)Sigma vibronic level, indicating that the HCC bending mode Renner-Teller effect is much larger than predicted by ab initio calculations with a linear excited state geometry. With this observation, the vibronic bands in the spectra of both isotopomers have been consistently assigned for the first time. Model calculations show that the large Renner-Teller effect and substantially different HCCS and DCCS excited state zero-point spin-orbit splittings can be explained with the assumption of a quasilinear excited state geometry.     

Where is the road to bio-water-saving for the globe?

The First International Conference on the Theory and Practices in Bio-water-saving (ICTPB) was held from May 21 to 25, 2006 in Beijing, China. This indicated that the work related to this hot topic on the globe has been paid more attention to. Most progress in this field has been presented from near 300 participating people worldwide, who were meeting together to discuss about the theory and practices of water-saving biology and how to serve global agricultural and ecological sustainable development. The work related to bio-water-saving has been involved in different scales and soil–plant root biointerfaces. On the basis of this background and in combination with the work from our laboratory and the center, we provided some ideas for global bio-water-saving in this paper, sharing the achievement in this field and advocating true bio-water-saving for the world and promoting the pace of global bio-water-saving.     

Is the Cassie-Baxter formula relevant?

The utility of the Cassie-Baxter formula to predict the apparent contact angle of a drop on rough hydrophobic surfaces has been questioned recently. To resolve this issue, experimental and numerical data for advancing and receding contact angles are reported. In all cases considered it is seen that contact angles follow the overall trend of the Cassie-Baxter formula, except for the advancing front on pillar type roughness. It is shown that deviations from the Cassie-Baxter angle have a one-to-one correlation with microscopic distortions of the contact line with respect to its configuration in the Cassie-Baxter state.     

How to revise the GUM?

The announcement of a revision of the Guide to the expression of uncertainty in measurement has renewed the debate about the topic of measurement uncertainty. In this paper the author, chairman of Working Group 1 of the Joint Committee for Guides in Metrology, replies to the theses given in two recent papers by Semion Rabinovich. His opinions are personal, and are not necessarily shared by the JCGM/WG1. They are to be intended as a further contribution to the present discussion. Papers published in this section do not necessarily reflect the opinion of the Editors, the Editorial Board and the Publisher.     

Resolving the controversy on the glass transition temperature of water?

We consider experimental data on the dynamics of water (1) in glass-forming aqueous mixtures with glass transition temperature T(g) approaching the putative T(g) = 136 K of water from above and below, (2) in confined spaces of nanometer in size, and (3) in the bulk at temperatures above the homogeneous nucleation temperature. Altogether, the considered relaxation times from the data range nearly over 15 decades from 10(-12) to 10(3) s. Assisted by the various features in the isothermal spectra and theoretical interpretation, these considerations enable us to conclude that relaxation of un-crystallized water is highly non-cooperative. The exponent β(K) of its Kohlrausch stretched exponential correlation function is not far from having the value of one, and hence the deviation from exponential time decay is slight. Albeit the temperature dependence of its α-relaxation time being non-Arrhenius, the corresponding T(g)-scaled temperature dependence has small steepness index m, likely less than 44 at T(g), and hence water is not "'fragile" as a glassformer. The separation in time scale of the α- and the β-relaxations is small at T(g), becomes smaller at higher temperatures, and they merge together shortly above T(g). From all these properties and by inference, water is highly non-cooperative as a glass-former, it has short cooperative length-scale, and possibly smaller configurational entropy and change of heat capacity at T(g) compared with other organic glass-formers. This conclusion is perhaps unsurprising because water is the smallest molecule. Our deductions from the data rule out that the T(g) of water is higher than 160 K, and suggest that it is close to the traditional value of 136 K.     

Does the chromatomembrane cell improve the quality of environmental analysis?

With the intention of combining partition chromatography and membrane techniques, we succeeded in developing the chromatomembrane cell which has proved to be reliable as an extraction and preconcentration manifold in flow injection analysis. With this technique, two immiscible phases can be induced to flow independently through a block of biporous (macro and micro) PTFE in order to promote analyte exchange. Consequently, the application of chromatomembrane cells in environmental analysis resolves all problems of sample pretreatment simply and effectively whenever a preconcentration step by gas/liquid or liquid/liquid solvent extraction is included. The link-up with analyzers (AAS, UV–Vis photometry, GC, IC, HPLC, voltammetry, ion selective electrodes, etc.) makes possible computer aided automization for environmental monitoring.     

Pointing the way to the products? Comparison of the stress tensor and the second-derivative tensor of the electron density

The eigenvectors of the electronic stress tensor can be used to identify where new bond paths form in a chemical reaction. In cases where the eigenvectors of the stress tensor are not available, the gradient-expansion-approximation suggests using the eigenvalues of the second derivative tensor of the electron density instead; this approximation can be made quantitatively accurate by scaling and shifting the second-derivative tensor, but it has a weaker physical basis and less predictive power for chemical reactivity than the stress tensor. These tools provide an extension of the quantum theory of atoms and molecules from the characterization of molecular electronic structure to the prediction of chemical reactivity.     

To what question is the clamped-nuclei electronic potential the answer?

An examination is made of how the nuclear motion Hamiltonian arises from a consideration of solutions to the eigenvalue problem for the full Coulomb Hamiltonian and the role played by the usual clamped-nuclei electronic Hamiltonian in the construction of such solutions.     

When is an answer the answer?

The Computational Perspective

When is an answer the answer?     

Aptasensors – the future of biosensing?

Aptamers are artificial nucleic acid ligands that can be generated against amino acids, drugs, proteins and other molecules. They are isolated from combinatorial libraries of synthetic nucleic acid by an iterative process of adsorption, recovery and reamplification. Aptamers, first reported in 1990, are attracting interest in the areas of therapeutics and diagnostics and offer themselves as ideal candidates for use as biocomponents in biosensors (aptasensors), possessing many advantages over state of the art affinity sensors. The properties of aptamers, their applicability to biosensor technology, current research and future prospects are addressed in this short review.