The chemical nature of the 2'-substituent in the pentose-sugar dictates the pseudoaromatic character of the nucleobase (pKa) in DNA/RNA

We here show that the pKa (error limit: 0.01 to 0.03 pKa unit) of a nucleobase in a nucleotide can be modulated by the chemical nature of the 2'-substituent at the sugar moiety. This has been evidenced by the measurement of nucleobase pKa in 47 different model nucleoside 3',5'-bis- and 3'-mono-ethylphosphates. The fact that the electronic character of each of the 2'-substituents (Fig. 1) alters the chemical shift of the H2' sugar proton, and also alters the pKa of the nucleobase in the nucleotides has been evidenced by a correlation plot of pKa of N3 of pyrimidine (T/C/U) or pKa of N7 of 9-guaninyl with the corresponding deltaH2' chemical shifts at the neutral pH, which shows linear correlation with high Pearson's correlation coefficients (R = 0.85-0.97). That this modulation of the pKa of the nucleobase by a 2'-substituent is a through-bond as well as through-space effect has been proven by ab initio determined pKa estimation. Interestingly, experimental pKas of nucleobases from NMR titration and the calculated pKas (by ab initio calculations utilizing closed shell HF 6-31G** basis set) are linearly correlated with R = 0.98. It has also been observed that the difference of ground and protonated/de-protonated HOMO orbital energies (DeltaHOMO, a.u.) for the nucleobases (A/G/C/T/U) are well correlated with their pK(a)s in different 2'-substituted 3',5'-bis-ethylphosphate analogs suggesting that only the orbital energy of HOMO can be successfully used to predict the modulation of the chemical reactivity of the nucleobase by the 2'-substituent. It has also been demonstrated that pKa values of nucleobases in 3',5'-bis-ethylphosphates (Table 1) are well correlated with the change in dipole moment for the respective nucleobases after protonation or de-protonation. This work thus unambiguously shows that alteration of the thermodynamic stability (Tm) of the donor-acceptor complexes [ref. 20], as found with various 2'-modified duplexes in the antisense, siRNA or in triplexes by many workers in the field, is a result of alteration of the pseudoaromatic character of the nucleobases engineered by alteration of the chemical nature of the 2'-substitution.     

A Case of Strong Metal–Support Interactions: Combining Advanced Microscopy and Model Systems to Elucidate the Atomic Structure of Interfaces

A symbiosis of advanced scanning probe and electron microscopy and a well‐defined model system may provide a detailed picture of interfaces on nanostructured catalytic systems. This was demonstrated for Pt nanoparticles supported on iron oxide thin films which undergo encapsulation by supporting oxide as a result of strong metal–support interactions.     

Squeezing,Then Stacking: From Breathing Pores to Three‐Dimensional Ionic Self‐Assembly under Electrochemical Control

We demonstrate the spontaneous and reversible transition between the two‐ and three‐dimensional self‐assembly of a supramolecular system at the solid–liquid interface under electrochemical conditions, using in situ scanning tunneling microscopy. By tuning the interfacial potential, we can selectively organize our target molecules in an open porous pattern, fill these pores to form an auto‐host–guest structure, or stack the building blocks in a stratified bilayer. Using a simple electrostatic model, we rationalize which charge density is required to enable bilayer formation, and conversely, which molecular size/charge ratio is necessary in the design of new building blocks. Our results may lead to a new class of electrochemically controlled dynamic host–guest systems, artificial receptors, and smart materials.     

Solid-state synthesis of boron subnitride, B6N: myth or reality?

Solid-state synthesis of boron subnitride, B₆N, as a result of chemical interaction between boron and boron nitride at 7.5 GPa and 1700 °C has been previously reported by Hubert et al. However, a critical analysis of the results has shown that the evidence for the formation of boron subnitride with B₆O-like structure is inconclusive. We have studied in situ the interaction between boron and BN at the same p–T conditions using X-ray diffraction with synchrotron radiation. At 7.4 GPa and 1700 °C the formation of a new phase has not been observed. At the same time, HP–HT treatment has resulted in strong and unpredictable preferred orientation of boron crystallites. This leads to the rise of some weak boron reflections that might be erroneously attributed to the appearance of a new phase. To cite this article: V.L. Solozhenko et al., C. R. Chimie 9 (2006).     

Benzo[f]isoindole derivatives from cycloaddition reaction of 2,4-dimethylpyrimido[2,1-a]isoindole and maleimides

In contrast to the previously reported results in the reaction of maleimides with pyrido[2,1-a]isoindole and 1,2-bis substituted isoindoles, the reaction between 2,4-dimethylpyrimido[2,1-a]isoindole and maleimides leads to the formation of unusual products. Their structure is assessed by NMR and mass spectrometry. An original reaction pathway is proposed. The high quantum yields observed in fluorescence opens the route to applications as biological probes. To cite this article: Z.V. Voitenko et al., C. R. Chimie 9 (2006).     

Structure of salted and discharged globules of hydrophobic polyelectrolytes adsorbed from aqueous solutions

In this article, we compare structures of protonated poly(2-vinylpyridine) globules (2D compact coils on the surface) adsorbed on the mica surface from aqueous solution when the shrinking is brought about either by discharging the molecules at an elevated pH or by adding monovalent and polyvalent salts. We study the structure of the PE coils using in situ atomic force microscopy experiments in aqueous solutions in a liquid cell. The abrupt coil-to-globule transition caused by pH changes and the discharge of polymer chains resulted in compact globules. If the pH corresponding to extended coil conformation remains unchanged, the coil shrinks due to the added salt. The size of the globule in the latter case corresponds to the unperturbed dimension of the polymer coil. There is no essential difference in the dimensions of the globules as obtained in the presence of monovalent and multivalent counterions for the studied ionic strength. © 2010 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 48: 1623–1627, 2010     

Phase diagram of the B-B2O3 system at 5 GPa: experimental and theoretical studies

X-ray diffraction with synchrotron radiation has been used to study in situ the chemical interaction of beta-rhombohedral boron with boron (III) oxide and phase relations in the B-B2O3 system at pressures up to 6 GPa in the temperature range from 300 to 2800 K. The B-B2O3 system has been thermodynamically analyzed, and its equilibrium phase diagram at 5 GPa has been constructed. Only one thermodynamically stable boron suboxide, B6O, exists in the system. It forms eutectic equilibria with boron and B2O3.     

Shear ordered diblock copolymers with tuneable optical properties

A series of high molecular weight poly(styrene-b-isoprene) block copolymers with optical properties defined by composition in a non-selective solvent were studied using simultaneous ultra small angle X-ray scattering (USAXS) and optical spectrometry. A small magnitude shear produces ordered and oriented states in the copolymer solutions that persist for extended periods of time, and also have superior optical properties that are directly attributable to the mesoscopic block copolymer (BCP) morphology. We have demonstrated that the optical transmission of these materials can be tuned by the addition of low molecular weight poly(isoprene) and poly(styrene) to swell their respective domains within the diblock copolymer. The optical transmission peak for the diblocks could be tuned; from 380 nm-440 nm for the 670k diblock, 425 nm-540 nm for the 850k diblock and 541 nm-625 nm for the 1 million diblock by altering the solution concentration and composition. The full width at half maximum that can be achieved for the optical transmission peaks is as small as 15 nm at 473 nm with a Δλ/λ of 0.03, highlighting the high quality ordering in these systems. Also a small shift in the transmission peak wavelength was observed across a wide angle of view (15 nm at 30°) suggesting that these materials could be used for large area narrow band optical filters.