Modeling thymine photodimerizations in DNA: mechanism and correlation diagrams

The basic mechanistic traits of the main photochemical reactions in DNA, the formation of the cyclobutane and oxetane thymine dimerization adducts, are established with the help of CASSCF and CASPT2 calculations for a gas-phase model of two stacked thymines. Both reactions go through conical intersections between the ground and the excited state that are connected through minimum energy paths to the corresponding products. This explains the ultrafast formation of the cyclobutane adduct detected experimentally, and it suggests that the oxetane formation also occurs on that time scale. Moreover, the states responsible for the photoproduct formation correlate with two high-lying states of the pair in its ideal B-DNA conformation. These states are different from the delocalized states resulting from coupling of the localized ones, which suggests that the origin of the reactive electronic states lies in the pi stacking. Formation of the photoproducts requires population of these states, by direct excitation of favorable conformations, or preceded by a localized excitation.     

Spontaneous resolution, whence and whither: from enantiomorphic solids to chiral liquid crystals, monolayers and macro- and supra-molecular polymers and assemblies

One of the great challenges in stereochemistry is the explanation of why some molecules resolve spontaneously while others do not. In this critical review the recent advances in the creation of chiral systems from achiral and racemic compounds in three-, two- and one-dimensional systems are discussed. There are some groups of molecules in some systems that do tend to display conglomerates, which may suggest that there are enantiophobic and enantiophilic molecules whose assembly is guided by the structural and thermodynamic properties of the systems in question.     

Nondegenerate pi-donor/pi-acceptor [2]catenanes containing proton-ionizable 1H-1,2,4-triazole subunits: synthesis and spontaneous resolution

Chirality can hold the key to inducing directionality of motion in components of molecular devices. With this idea in mind, we describe here 1) the template-directed synthesis of two [2]catenanes wherein cyclobis(paraquat-p-phenylene) is interlocked with polyether macrocycles containing, in addition to one 3,5-bis(oxymethylene)-1H-1,2,4-triazole unit, either one 1,4-dioxybenzene or one 1,5-dioxynaphthalene ring system. We also report 2) the full characterization of both [2]catenanes by fast atom bombardment mass spectrometry (FABMS), X-ray crystallography, and dynamic (1)H NMR spectroscopy. We reveal 3) the fact that the [2]catenanes not only exist, both in the solution-state and in the solid-state, as strictly one of the two possible translational isomers, but that they also exhibit spontaneous resolution on crystallization leading to formation of homochiral crystals, as indicated by X-ray crystallography and circular dichroism (CD) experiments. Finally, we comment 4) on the chances of switching these catenanes chemically.     

Complete maps of molecular-loop conformational spaces

This paper presents a numerical method to compute all possible conformations of distance-constrained molecular loops, i.e., loops where some interatomic distances are held fixed, while others can vary. The method is general (it can be applied to single or multiple intermingled loops of arbitrary topology) and complete (it isolates all solutions, even if they form positive-dimensional sets). Generality is achieved by reducing the problem to finding all embeddings of a set of points constrained by pairwise distances, which can be formulated as computing the roots of a system of Cayley-Menger determinants. Completeness is achieved by expressing these determinants in Bernstein form and using a numerical algorithm that exploits such form to bound all root locations at any desired precision. The method is readily parallelizable, and the current implementation can be run on single- or multiprocessor machines. Experiments are included that show the method's performance on rigid loops, mobile loops, and multiloop molecules. In all cases, complete maps including all possible conformations are obtained, thus allowing an exhaustive analysis and visualization of all pseudo-rotation paths between different conformations satisfying loop closure.     

A Chromogenic Probe for the Selective Recognition of Sarin and Soman Mimic DFP

The synthesis, characterization and sensing features of a novel probe 1 for the selective chromogenic recognition of diisopropylfluorophosphate (DFP), a sarin and soman mimic, in 99:1 (v/v) water/acetonitrile and in the gas phase is reported. Colour modulation is based on the combined reaction of phosphorylation of 1 and fluoride-induced hydrolysis of a silyl ether moiety. As fluoride is a specific reaction product of the reaction between DFP and the −OH group, the probe shows a selective colour modulation in the presence of this chemical. Other nerve agent simulants, certain anions, oxidant species and other organophosphorous compounds were unable to induce colour changes in 1. This is one of the very few examples of a selective detection, in solution and in the gas phase, of a sarin and soman simulant versus other reactive derivatives such as the tabun mimic diethylcyanophosphate (DCNP).     

Ceria–Zirconia Particles Wrapped in a 2D Carbon Envelope: Improved Low‐Temperature Oxygen Transfer and Oxidation Activity

Engineering the interface between different components of heterogeneous catalysts at nanometer level can radically alter their performances. This is particularly true for ceria‐based catalysts where the interactions are critical for obtaining materials with enhanced properties. Here we show that mechanical contact achieved by high‐energy milling of CeO₂–ZrO₂ powders and carbon soot results in the formation of a core of oxide particles wrapped in a thin carbon envelope. This 2D nanoscale carbon arrangement greatly increases the number and quality of contact points between the oxide and carbon. Consequently, the temperatures of activation and transfer of the oxygen in ceria are shifted to exceptionally low temperatures and the soot combustion rate is boosted. The study confirms the importance of the redox behavior of ceria‐zirconia particles in the mechanism of soot oxidation and shows that the organization of contact points at the nanoscale can significantly modify the reactivity resulting in unexpected properties and functionalities.     

Thermalization and Canonical Typicality in Translation-Invariant Quantum Lattice Systems

It has previously been suggested that small subsystems of closed quantum systems thermalize under some assumptions; however, this has been rigorously shown so far only for systems with very weak interaction between subsystems. In this work, we give rigorous analytic results on thermalization for translation-invariant quantum lattice systems with finite-range interaction of arbitrary strength, in all cases where there is a unique equilibrium state at the corresponding temperature. We clarify the physical picture by showing that subsystems relax towards the reduction of the global Gibbs state, not the local Gibbs state, if the initial state has close to maximal population entropy and certain non-degeneracy conditions on the spectrumare satisfied.Moreover,we showthat almost all pure states with support on a small energy window are locally thermal in the sense of canonical typicality. We derive our results from a statement on equivalence of ensembles, generalizing earlier results by Lima, and give numerical and analytic finite size bounds, relating the Ising model to the finite de Finetti theorem. Furthermore, we prove that global energy eigenstates are locally close to diagonal in the local energy eigenbasis, which constitutes a part of the eigenstate thermalization hypothesis that is valid regardless of the integrability of the model.     

Differential Behavior of Amino–Imino Constitutional Isomers in Nonlinear Optical Processes

A detailed study of the “blocked” amino–imino tautomers derived from N‐acridine‐substituted 2‐aminobenzothiazole—and their effect on the nonlinear optical response—is presented. The synthesis, characterization, and nonlinear optical properties of these frozen tautomers, namely, N‐methyl‐N‐(2‐nitroacridin‐6‐yl)‐2‐aminobenzothia‐zole and 3‐methyl‐N‐(7‐nitroacridin‐3‐yl)‐2‐iminobenzothiazole, are reported. A theoretical model based on valence–bond theory is also proposed and used to analyze the effects of the nuclear configuration corresponding to each frozen tautomer structure. In the present case, the aromatic form and the allylic‐anion‐like system of the ? N? C? N? group inherent to each isomer are crucial for understanding and analyzing the different responses of each “blocked” tautomer.