Soret effect of nonionic surfactants in water studied by different transient grating setups

We studied the thermal diffusion behavior of the nonionic surfactant solutions C 12E 6/water and C 12E 5/water at different concentrations and temperatures using thermal diffusion forced Rayleigh scattering (TDFRS). Two different types of TDFRS setups have been applied. In the classical TDFRS, we use an argon laser to write the optical grating into the sample by using a small amount of ionic dye to convert the optical grating into a temperature grating. In the other setup, called IR-TDFRS, we use an infrared laser as the writing beam, which utilizes the water absorption band to convert the optical grating into a temperature grating. The measurements by IR-TDFRS show a one-mode signal for all concentrations and temperatures, while the signal in the classical TDFRS consists of two modes for higher temperatures and lower surfactant concentrations (Ning, H.; et al. J. Phys. Chem. B 2006, 110, 10746). We find good agreement between the Soret coefficient determined in the IR-TDFRS and the one derived from the first fast mode in the previous studies. The Soret coefficient of the nonionic solutions is positive and enhanced at the critical point. In general, the Soret coefficient of the micelles tends to increase with temperature. We found that the presence of the second mode observed in the classical TDFRS is related to the addition of the ionic dye, but even with the ionic dye it is not possible to observe a second mode in the IR-TDFRS. The origin of the second mode is discussed in terms of charged micelles and an inhomogenous dye distribution in the temperature gradient.     

Studies of polyamines transport through liquid membranes with D2EHPA as a carrier

The transport of polyamines through the liquid membranes with di-2-ethylhexyl phosphoric acid (D2EHPA) was investigated. The study was performed in three main steps: liquid-liquid extraction (LLE), bulk liquid membrane (BLM) extraction, and supported liquid membrane (SLM) extraction. Equilibrium distribution experiments allowed determining the extraction constants and stoichiometric coefficients for each polyamine. It turned out that one amino group binds two molecules of carrier (one D2EHPA dimer) and the extractability of polyamine rises with the increase in number of function groups in the molecule. The BLM and SLM experiments showed that despite considerable differences in distribution ratio between various polyamines the extraction efficiencies for all of them are very approximate. The smaller diamines compensate the lowest affinity to membrane phase with faster interface reaction kinetics and higher diffusivity. Finally, the SLM extraction conditions were optimized. The main parameters that influence the transport are the pH of the donor and acceptor phases. The extraction efficiencies obtained for polyamines are high (80-90%) and give hope for an application in bioanalytical chemistry.     

Nonuniqueness for Willmore Surfaces of Revolution Satisfying Dirichlet Boundary Data

In this note Willmore surfaces of revolution with Dirichlet boundary conditions are considered. We show two nonuniqueness results by reformulating the problem in the hyperbolic half plane and solving a suitable initial value problem for the corresponding elastic curves. The behavior of such elastic curves is examined by a method provided by Langer and Singer to reduce the order of the underlying ordinary differential equation. This ensures that these solutions differ from solutions already obtained by Dall’Acqua, Deckelnick and Grunau. We will additionally provide a Bernstein-type result concerning the profile curve of a Willmore surface of revolution. If this curve is a graph on the whole real numbers it has to be a Möbius transformed catenary. We show this by a corollary of the above-mentioned method by Langer and Singer.     

Direct calculation of trans-hydrogen-bond 13C-15N 3-bond J-couplings in entire polyalanine alpha-helices. A density functional theory study

We present the first trans-H-bond 13C-15N 3-bond J couplings calculated from entire neutral and protonated alpha-helical polyalanines. The neutral helices considered are those of the capped peptides, acetyl(Ala)NNH2, where N = 8, 16, 17, and 18, while the protonated peptides are the uncapped (Ala)17 protonated at three different positions. The calculated J values correlate well with O...H distances and somewhat less well with N...O distances, particularly if the terminal H-bonds are eliminated from the correlation. The J values calculated using the entire helix are about 6% lower in magnitude than those recently reported for H-bonding chains whose geometries were extracted from the same helices. Aqueous solvation favors protonation of the alpha-helix on the terminal COOH. Experimental measurements of the trans-H-bond 13C-15N 3-bond J couplings in acidic solution should be interpreted with this context.     

The Resolved Mutual Information Function as a Structural Fingerprint of Biomolecular Sequences for Interpretable Machine Learning Classifiers

In the present article we propose the application of variants of the mutual information function as characteristic fingerprints of biomolecular sequences for classification analysis. In particular, we consider the resolved mutual information functions based on Shannon-, Rényi-, and Tsallis-entropy. In combination with interpretable machine learning classifier models based on generalized learning vector quantization, a powerful methodology for sequence classification is achieved which allows substantial knowledge extraction in addition to the high classification ability due to the model-inherent robustness. Any potential (slightly) inferior performance of the used classifier is compensated by the additional knowledge provided by interpretable models. This knowledge may assist the user in the analysis and understanding of the used data and considered task. After theoretical justification of the concepts, we demonstrate the approach for various example data sets covering different areas in biomolecular sequence analysis.     

Picomolar FKBP inhibitors enabled by a single water-displacing methyl group in bicyclic [4.3.1] aza-amides

Methyl groups can have profound effects in drug discovery but the underlying mechanisms are diverse and incompletely understood. Here we report the stereospecific effect of a single, solvent-exposed methyl group in bicyclic [4.3.1] aza-amides, robustly leading to a 2 to 10-fold increase in binding affinity for FK506-binding proteins (FKBPs). This resulted in the most potent and efficient FKBP ligands known to date. By a combination of co-crystal structures, isothermal titration calorimetry (ITC), density-functional theory (DFT), and 3D reference interaction site model (3D-RISM) calculations we elucidated the origin of the observed affinity boost, which was purely entropically driven and relied on the displacement of a water molecule at the protein–ligand–bulk solvent interface. The best compounds potently occupied FKBPs in cells and enhanced bone morphogenic protein (BMP) signaling. Our results show how subtle manipulation of the solvent network can be used to design atom-efficient ligands for difficult, solvent-exposed binding pockets.

Enhancement by displacement. A single methyl group displaces a water molecule from the binding site of FKBPs, resulting in the most potent binders known, outperforming the natural products FK506 and rapamycin in biochemical and cellular assays.     

Crystal and molecular structure of diastereomeric 2-diphenylthiophosphinoyl-cis-(4,6-dimethyl)-1,3-dithianes

The crystal and molecular structures of a pair of diastereomeric 2-diphenylthiophosphinoyl-cis-(4,6-dimethyl)-1,3-dithianes 2 have been determined by the X-ray method. The differences in corresponding bond distances in cis-2 and trans-2 are discussed in context of the anomeric effect operating in this heterocyclic system. The comparison of selected structural parameters between diastereomeric cis- and trans-dithianes 2 and their 5-t-butyl analogs 1 is also discussed. © 1998 John Wiley & Sons, Inc. Heteroatom Chem 9:537–541, 1998     

The X-ray crystal and molecular structure of 5′-bromo-5′-deoxythymidine

5′-Bromo-5′-deoxythymidine (1) crystallizes with four molecules in a monoclinic unit cell of space group C2. The ribose ring adopts an envelope conformation, transient between T and E₀ (O4′-exo), with the C1′ atom being in the flap position. In the crystal lattice, the molecules are connected by intermolecular one-dimensional chains of hydrogen bondings from the hydroxyl hydrogen H3′(O3′) to the carbonyl oxygen O4. The differences in conformation and a hydrogen-bonding system of 1 with comparison to the structure of thymidine are observed. © 1998 John Wiley & Sons, Inc. Heteroatom Chem 9: 591–596, 1998