Discovery of Elusive K4O6, a Compound Stabilized by Configurational Entropy of Polarons

Synthesis of elusive K₄O₆ has disclosed implications of crucial relevance for new solid materials discovery. K₄O₆ forms in equilibrium from K₂O₂ and KO₂, in an all‐solid state, endothermic reaction at elevated temperature, undergoing back reaction upon cooling to ambient conditions. This tells that the compound is stabilized by entropy alone. Analyzing possible entropic contributions reveals that the configurational entropy of “localized” electrons, i.e., of polaronic quasi‐particles, provides the essential contribution to the stabilization. We corroborate this assumption by measuring the relevant heats of transformation and tracking the origin of entropy of formation computationally. These findings challenge current experimental and computational approaches towards exploring chemical systems for new materials by searching the potential energy landscape: one would fail in detecting candidates that are crucially stabilized by the configurational entropy of localized polarons.     

Electronic and vibrational properties of fluorenone in the channels of zeolite L

Fluorenone (C13H8O) was inserted into the channels of zeolite L by using gas-phase adsorption. The size, structure, and stability of fluorenone are well suited for studying host-guest interactions. The Fourier transform IR, Raman, luminescence, and excitation spectra, in addition to thermal analysis data, of fluorenone in solution and fluorenone/zeolite L are reported. Normal coordinate analysis of fluorenone was performed, based on which IR and Raman bands were assigned, and an experimental force field was determined. The vibrational spectra can be used for nondestructive quantitative analysis by comparing a characteristic dye band with a zeolite band that has been chosen as the internal standard. Molecular orbital calculations were performed to gain a better understanding of the electronic structure of the system and to support the interpretation of the electronic absorption and luminescence spectra. Fluorenone shows unusual luminescence behavior in that it emits from two states. The relative intensity of these two bands depends strongly on the environment and changes unexpectedly in response to temperature. In fluorenone/zeolite L, the intensity of the 300 nm band (lifetime 9 micros) increases with decreasing temperature, while the opposite is true for the 400 nm band (lifetime 115 micros). A model of the host-guest interaction is derived from the experimental results and calculations: the dye molecule sits close to the channel walls with the carbonyl group pointing to an Al3+ site of the zeolite framework. A secondary interaction was observed between the fluorenone's aromatic ring and the zeolite's charge-compensating cations.     

Comparison of three sequential extraction procedures (original and modified 3 steps BCR procedure) applied to sediments of different origin

The 3 steps sequential extraction procedure proposed by the Standards Measurements and Testing program (SM&T--formerly BCR) of the European Union has been applied for the speciation of metals in sediments. Results obtained by the application of the BCR standardized procedure were compared to those of two four step sequential extraction procedures, which are different from the BCR procedure only for the introduction of an additional step with NaOCl, as 2nd and 3rd step respectively. Five different metals have been taken into consideration: Cd, Cu, Ni, Pb and Zn. The analytical performances of the laboratory have been evaluated using three certified reference materials: the BCR 601 lake sediment for the BCR sequential extraction procedure, PACS-1 and MESS-1 for total metal concentration. Results showed that the efficiency of NaOCl treatment is higher or at least equal to that of H2O2 treatment and that its selectivity is quite satisfying. Moreover the NaOCl treatment doesn't significantly influence the extraction of the easily reducible fraction.     

Toward efficient Zn(II)-based artificial nucleases

A series of cis-cis-triaminocyclohexane Zn(II) complex-anthraquinone intercalator conjugates, designed in such a way to allow their easy synthesis and modification, have been investigated as hydrolytic cleaving agents for plasmid DNA. The ligand structure comprises a triaminocyclohexane platform linked by means of alkyl spacers of different length (from C(4) to C(8)) to the anthraquinone group which may intercalate the DNA. At a concentration of 5 microM, the complex of the derivative with a C(8) alkyl spacer induces the hydrolytic stand scission of supercoiled DNA with a rate of 4.6 x 10(-6) s(-1) at pH 7 and 37 degrees C. The conjugation of the metal complex with the anthraquinone group leads to a 15-fold increase of the cleavage efficiency when compared with the anthraquinone lacking Zn-triaminocyclohexane complex. The straightforward synthetic procedure employed, allowing a systematic change of the spacer length, made possible to gain more insight on the role of the intercalating group in determining the reactivity of the systems. Comparison of the reactivity of the different complexes shows a remarkable increase of the DNA cleaving efficiency with the length of the spacer. In the case of too-short spacers, the advantages due to the increased DNA affinity are canceled due to the incorrect positioning of the reactive group, thus leading to cleavage inhibition.     

Rapid calculation of protein chemical shifts using bond polarization theory and its application to protein structure refinement

Although difficult to analyze, NMR chemical shifts provide detailed information on protein structure. We have adapted the semi-empirical bond polarization theory (BPT) to protein chemical shift calculation and chemical shift driven protein structure refinement. A new parameterization for BPT amide nitrogen chemical shift calculation has been derived from MP2 ab initio calculations and successfully evaluated using crystalline tripeptides. We computed the chemical shifts of the small globular protein ubiquitin, demonstrating that BPT calculations can match the results obtained at the DFT level of theory at very low computational cost. In addition to the calculation of chemical shift tensors, BPT allows the calculation of chemical shift gradients and consequently chemical shift driven geometry optimizations. We applied chemical shift driven protein structure refinement to the conformational analysis of a set of Trypanosoma brucei (the causative agent of African sleeping sickness) tryparedoxin peroxidase Px III structures. We found that the interaction of Px III with its reaction partner Tpx seems to be governed by conformational selection rather than by induced fit.     

Structural evolution in the isotropic channel of a water-nonionic surfactant system that has a disconnected lamellar phase: a 1H NMR self-diffusion study

We showed in a previous study that a water-nonionic surfactant system, where the surfactant is a 9:1 mixture of tetraethylene glycol monodecyl ether (C(10)E(4)) and pentaethylene glycol monodecyl ether (C(10)E(5)), forms a disconnected lamellar (L(α)) phase. Thus, the isotropic phase spans the whole concentration range from the water-rich L(1) region to the surfactant-rich L(2) region of the phase diagram. The L(1) and L(2) regions are connected via an isotropic channel that separates the two regions of the L(α) phase. In this letter, we monitored the structural evolution of the isotropic phase along a path through this isotropic channel via (1)H NMR self-diffusion measurements. We used this technique because it enables us to distinguish between discrete and bicontinuous structures by comparing the relative self-diffusion coefficients (obstruction factors) D/D(0) of the solvents (i.e. of water and surfactant in the present case). We found that the obstruction factor of water decreases whereas the obstruction factor of the surfactant increases with increasing surfactant concentration and increasing temperature. This trend is interpreted as the transition from a water-continuous L(1) region, which contains discrete micelles, to a bicontinuous structure, which may extend to very high surfactant concentrations. Although there is good evidence of bicontinuity over a broad concentration range, there is no evidence of inverse micelles or any other microstructure at the highest concentration studied in the surfactant-rich L(2) phase.     

Molecular dynamics reveal that isoDGR-containing cyclopeptides are true αvβ3 antagonists unable to promote integrin allostery and activation

Ain't got that swing(-out): The cyclopeptide isoDGR is emerging as a new αvβ3 integrin binding motif. Agreement between the results of computational and biochemical studies reveals that isoDGR-containing cyclopeptides are true αvβ3 integrin antagonists that block αvβ3 in its inactive conformation (see scheme). isoDGR-based ligands may give αvβ3 antagonists without paradoxical effects.     

Bulky Arylgallium and Indium Derivatives with Co(CO)4 and Mn(CO)5 Substituents

Further investigation of the reaction of Ar*GaCl₂ (Ar* = 2,4,6-t-Bu₃C₆H₂) with Na[Mn(CO)₅] resulted in the new compound, [Ga(Ar*){Mn(CO)₅}₂] 2 . The new indium compounds, [In(Ar*){Co(CO)₄}₂] 3 and [In(Ar*){Mn(CO)₅}₂] 4 , have been prepared by the treatment of Ar*InBr₂ with Na[Co(CO)₄] and Na[Mn(CO)₅], respectively. The structure of 3 was established by single-crystal X-ray diffraction: space group P1 (No. 2), Z = 2, a = 8.625(1) Å, b = 10.557(2) Å, c = 17.55(2) Å, α = 88.43(1)°, β = 83.45(1)°, γ = 71.14(1)°. The X-ray crystal structure of [Ga{Mn(CO)₅}₃] is also reported: space group Pbca (No. 61), Z = 8, a = 12.83(3) Å, b = 11.753(2) Å, c = 29.662(6) Å, α = β = γ = 90°.     

Elektronentransfer und Ionenpaar-Bildung. 40. Mitteilung. Einkristall-Struktur von Bis(Natrium-1,1′-Biphenyl-2-thiolat-Diglyme): Ein Zwischenprodukt der reduktiven Ringöffnung von Dibenzothiophen

Electron Transfer and Ion Pair Formation Single Crystal Structure of Bis(sodium 1,1′-biphenyl-2-thiolate-diglyme): An Intermediate in the Reductive Ring Opening of Dibenzothiophene On Na-metal reduction of dibenzothiophene, the five-membered sulfur ring opens to form a colorless 1,1′-biphenyl-2-thiolate sodium salt, which, according to its single-crystal structure determination, is a dimer containing a four-membered, twice diglyme-solvated ring (diglyme···Na^⊕?SR)₂. Additional measurements provide the following information: cyclic voltammetry in aprotic MeCN solution shows one quasi-reversible electron transfer at E = ?2.58 V. The dibenzothiophene radical anion can be generated in aprotic THF solution at a K mirror and characterized by an 81-line ESR spectrum and its simulation. This blue species is also the first UV/VIS detectable one before the solution changes via green (due to blue + yellow color mixing) to yellow, yielding across an isosbestic point a second and diamagnetic compound. All of the above results suggest a consecutive two-electron reduction followed by an intersystem protonation, M + (e^?) → M^.? (blue) + (e^?) → (M^??, yellow?) + (H^⊕) → MH^? (colorless), to yield the crystallized and structurally characterized reaction intermediate. The diglyme-solvated sodium-salt dimer provides a basis for a quantum-chemical discussion of some facets of the most likely microscopic reduction pathway.