Molecular mechanical devices based on quinone-pyrrole and quinone-indole dyads: a computational study

A set of intramolecularly connected dyads consisting of a quinone unit and a pyrrole or indole moiety have been designed and evaluated in quantum-chemical calculations. It is shown computationally for several systems, depending on the length and attachment points of the interconnecting chains, that a reduction of the quinone to the semiquinone radical anion or quinolate dianion state leads to a reversible intramolecular reorientation from a pi-stacked to a T-stacked arrangement. In the rearranged structures, a hydrogen bond from the pyrrole or indole N-H function to the semiquinone or quinolate pi-system is created upon reduction. In some systems, hydrogen bonds to the semiquinone or quinolate oxygen atoms are partly feasible and will be preferred over T-stacking. The choice of systems has been based on recent computational observations related to photosystem I. Systems with pyrrole or indole units should provide a better basis for the envisioned molecular motor than recently proposed quinone-benzene dyads. The intramolecular interactions modify the quinone redox potentials. Electronic g-tensors have been computed for the semiquinone states. These reflect characteristically the presence and nature of hydrogen bonds to the semiquinone and represent suitable electron paramagnetic resonance spectroscopic probes for the preferred structures. Intramolecular proton transfer is possible in the dianionic state.     

Smectic behaviour of methyl 4-alkoxybenzoates with a partially fluorinated alkyl chain

A series of 4-alkoxybenzoic acids 1[m,n] and their methyl esters 2[m,n] containing a partially fluorinated alkyl chain was prepared and their physical properties were investigated by optical, thermal and powder X-ray diffraction (XRD) methods. The former exhibits an SmC phase, while the latter form an SmA phase. XRD analysis indicated liquid-like character of the linking alkyl chains, and showed a decreasing layer thermal expansion coefficient from positive to negative upon increasing the degree of fluorination. The new esters 2[m,n] expanded the series and permitted analysis of trends in thermal stability of the SmA phase. The results demonstrate that the SmA–I transition temperature increases by about +20 K per CF₂CF₂ unit, and is destabilised by –5.6 K upon extending the hydrocarbon part by each CH₂CH₂ group. Data for the expanded series 2[m,n] were used for comparative analysis of mesogenic behaviour in two other series of derivatives of 1[m,n]. Synthetic methods for 1[m,n] and 2[m,n] are reviewed.     

On the mechanism of anion desorption from DNA induced by low energy electrons

Our knowledge of the mechanisms of radiation damage to DNA induced by secondary electrons is still very limited, mainly due to the large sizes of the system involved and the complexity of the interactions. To reduce the problem to its simplest form, we investigated specific electron interactions with one of the most simple model system of DNA, an oligonucleotide tetrameter compound of the four bases. We report anion desorption yields from a thin solid film of the oligonucleotide GCAT induced by the impact of 3-15 eV electrons. All observed anions (H-, O-, OH-, CN-, and OCN-) are produced by dissociative electron attachment to the molecule, which results in desorption peaks between 6 and 12 eV. Above 14 eV nonresonant dipolar dissociation dominates the desorption yields. By comparing the shapes and relative intensities of the anion yield functions from GCAT physisorbed on a tantalum substrate with those obtained from isolated DNA basic subunits (i.e., bases, deoxyribose, and phosphate groups) from either the gas phase or condensed phase experiments, it is possible to obtain more details on the mechanisms involved in low energy electron damage to DNA, particularly on those producing single strand breaks.     

Protein-cofactor interactions and EPR parameters for the Q(H) quinone binding site of quinol oxidase. A density functional study

Recent multifrequency EPR studies of the "high-affinity" quinone binding site of quinol oxidase (Q(H) site) have suggested a very asymmetric hydrogen-bonding environment for the semiquinone radical anion state. Single-sided hydrogen bonding to the O1 carbonyl position was one of the proposals, which contrasts with some previous experimental indications. Here density functional calculations of the EPR parameters (g-tensors, 13C, 1H, and 17O hyperfine tensors) for a wide variety of supermolecular model complexes have been used to provide insight into the detailed relations among structure, environment, and EPR parameters of ubisemiquinone radical anions. A single-sided binding model is not able to account for the experimentally observed low g(x) component of the g-tensor or for the observed magnitude of the asymmetry of the 13C carbonyl HFC tensors. Based on the detailed comparison between computation and experiment, a model with two hydrogen bonds to O1 and one hydrogen bond to O4 is suggested for the Q(H) site, but a model with one more hydrogen bond on each side cannot be excluded. Several general conclusions on the interrelations between EPR parameters and hydrogen bond patterns of ubisemiquinones in proteins are provided.     

Fe-N-C catalysts for oxygen electroreduction under external magnetic fields:Reduction of magnetic O2 to nonmagnetic H2O

An extensive analysis of iron-nitrogen-carbon(Fe-N-C)electrocatalysts synthesis and activity is presented concerning synthesis conditions such as initial Fe content,pyrolysis temperature and atmosphere(inert N₂,reducing NH₃,oxidizing Cl₂ and their sequential combinations)and the influence of an external magnetic field on their performance in oxygen reduction reaction(ORR).Thermosetting porous polymers doped with FeCl₃ were utilized as the Fe-N-C catalysts precursors.The pyrolysis temperature was varied within a 700-900℃range.The temperature and atmosphere of pyrolysis strongly affect the porosity and compositi on of the resultant Fe-N-C catalysts,while the in itial amount of Fe precursor shows much weaker impact.Pyrolysis under NH₃ yields materials similar to those pyrolyzed under an inert atmosphere(N₂).In contrast,pyrolysis under Cl₂ yields carbon of peculiar character with highly disordered structure and extensive microporosity.The application of a static external magnetic field strongly enhances the ORR process(herein studied in an alkaline environment)and the enhancement correlates with the Fe content in the Fe-N-C catalysts.The Fe-N-C materials containing ferromagnetic iron phase embedded in N-doped microporous carbon constitute attractive catalysts for magnetic field-aided anion exchange membrane fuel cell technology.