α-Helices are the most abundant structures found within proteins and play an important role in the determination of the global structure of proteins and their function. Representation of α-helical structures with the common (φ, ψ) dihedrals, as in Ramachandran maps, does not provide informative details regarding the helical structure apart for the abstract geometric meaning of the dihedrals. We present an alternative coordinate system that describes helical conformations in terms of residues per turn (ρ) and angle (ϑ) between backbone carbonyls relative to the helix direction through an approximate linear transformation between the two coordinates system (φ, ψ and ρ, ϑ). In this way, valuable information on the helical structure becomes directly available. Analysis of α-helical conformations acquired from the Protein Data Bank (PDB) demonstrates that a conformational energy function of the α-helix backbone can be harmonically approximated on the (ρ, ϑ) space, which is not applicable to the (φ, ψ) space due to the diagonal distribution of the conformations. The observed trends of helical conformations obtained from the PDB are captured by four conceptual simulations that theoretically examine the effects of residue bulkiness, external electric field, and externally applied mechanical forces. Flory’s isolated pair hypothesis is shown to be partially correct for α-helical conformations.

Various molecules are known to form self-assembled monolayers (SAMs) on the surface of liquids. We present a simple method of investigating the kinetics of such SAM formation on sessile drops of various liquids such as mercury, water and fluorocarbon. To measure the surface tension of the drops we used an optical tensiometer that calculates the surface tension from the axisymmetric drop shape and the Young-Laplace relation. In addition, we estimated the SAM surface coverage fraction from the surface tension measured by other techniques. With this methodology we were able to optically detect concentrations as low as tenths of ppb increments of SAM molecules in solution and to compare the kinetics of SAM formation measured as a function of molecule concentration or chain length. The analysis is performed in detail for the case of alkanethiols on mercury and then shown to be more general by investigating the case of SAM formation of stearic acid on a water droplet in hexadecane and of perfluorooctanol on a Fluorinert FC-40 droplet in ethanol.

The 3D interface between a sessile water drop that is found on a superhydrophobic microtextured surface has been directly imaged using a confocal microscope with an immersion lens. The local mean curvature of the water−air interface was derived and was shown to be constant and close to zero not only for the case of pure water, but also for cases of variable drop density and surface tension. Although the mean curvature is constant and close to zero, the standard deviation on the mean curvature increases with increasing drop density and lower surface tension. The resulting 3D image of the water−air interface at the bottom of a water drop demonstrates the possibility of investigating practical interfaces of water on given textures and confirms that no matter what the superhydrophobic surface characteristics are, the interface remains with a constant curvature of close to zero.

The synthetic formation of mercury thiolates has been known for almost 200 years. These compounds are usually formed by a slow reaction of mercury salts with thiolates or disulfides to produce small (up to 1 μm), plate-like crystals of Hg(S-R)(2). Herein we show that such mercury thiolates can be formed directly from liquid mercury via sonication with neat thiols. The process not only produces crystals very rapidly (within seconds) but also leads to the formation of large crystals (up to hundreds of micrometers). The high quality of these crystals enabled their detailed structural characterization, which showed that the crystals are composed of ordered Hg(thiol)(2) stacks. We extended the experimental procedure to form and characterize a range of Hg thiolate crystals with various chain lengths. We propose a new self-assembly mechanism that can explain how sonication--which is usually used to break chemical bonds, to disperse materials, and to form nanosized crystallites--may lead to the growth of large, high-quality crystals.