Folding Dynamics of 10‐Residue β‐Hairpin Peptide Chignolin

Short peptides that fold into β‐hairpins are ideal model systems for investigating the mechanism of protein folding because their folding process shows dynamics typical of proteins. We performed folding, unfolding, and refolding molecular dynamics simulations (total of 2.7 μs) of the 10‐residue β‐hairpin peptide chignolin, which is the smallest β‐hairpin structure known to be stable in solution. Our results revealed the folding mechanism of chignolin, which comprises three steps. First, the folding begins with hydrophobic assembly. It brings the main chain together; subsequently, a nascent turn structure is formed. The second step is the conversion of the nascent turn into a tight turn structure along with interconversion of the hydrophobic packing and interstrand hydrogen bonds. Finally, the formation of the hydrogen‐bond network and the complete hydrophobic core as well as the arrangement of side‐chain–side‐chain interactions occur at approximately the same time. This three‐step mechanism appropriately interprets the folding process as involving a combination of previous inconsistent explanations of the folding mechanism of the β‐hairpin, that the first event of the folding is formation of hydrogen bonds and the second is that of the hydrophobic core, or vice versa.     

Digital holographic PTV for complicated flow in a water by two cameras and refractive index-matching method

Optical Review - A basic heat transfer promoter such as packed beds of spheres is one of the technologies of the promotion of heat transfer using the turbulent mixture. We carried out 3-D...     

Bound fluxon pair in one-dimensional SQUID array

We propose a one-dimensional array of superconducting quantum interference devices (SQUIDs) composed of three asymmetrically positioned Josephson junctions to realize a discrete double sine-Gordon (DSG) model. Two fluxons in this SQUID array attract each other and form bound states with internal oscillation modes. We conduct numerical simulations of a discrete DSG equation, and show that the period of the internal oscillation of a moving fluxon pair exhibits relativistic time dilation except near the speed of light. We also show that driving with a pure alternating current causes progressive motion of the bound fluxon pair even in the presence of dissipation.     

C1s and O1s photoelectron satellite spectra of CO with symmetry-dependent vibrational excitations

The photoelectron shake-up satellite spectra that accompany the C1s and O1s main lines of carbon monoxide have been studied by a combination of high-resolution x-ray photoelectron spectroscopy and accurate ab initio calculations. The symmetry-adapted cluster-expansion configuration-interaction general-R method satisfactorily reproduces the satellite spectra over a wide energy region, and the quantitative assignments are proposed for the 16 and 12 satellite bands for C1s and O1s spectra, respectively. Satellite peaks above the pi(-1)pi(*) transitions are mainly assigned to the Rydberg excitations accompanying the inner-shell ionization. Many shake-up states, which interact strongly with three-electron processes such as pi(-2)pi(*2) and n(-2)pi(*2), are calculated in the low-energy region, while the continuous Rydberg excitations are obtained with small intensities in the higher-energy region. The vibrational structures of low-lying shake-up states have been examined for both C1s and O1s ionizations. The vibrational structures appear in the low-lying C1s satellite states, and the symmetry-dependent angular distributions for the satellite emission have enabled the Sigma and Pi symmetries to be resolved. On the other hand, the potential curves of the low-lying O1s shake-up states are predicted to be weakly bound or repulsive.     

Photochemical stitching of a tubularly assembled hexabenzocoronene amphiphile by dimerization of coumarin pendants

A coumarin-appended amphiphilic hexa-peri-hexabenzocoronene (1) self-assembled to form graphitic nanotubes. Upon irradiation of lambda > 300 nm, the nanotubes in the solid state and suspension both underwent dimerization of the coumarin pendants, affording covalently stitched nanotubes, which were hardly soluble in CHCl3, a good solvent of 1. In contrast, a thin film cast from a homogeneous solution of 1 was intact to photoirradiation. Owing to the reversible nature of the photochemical stitching, both negative and positive patterns of the graphitic nanotubes were developed on a silicon substrate by a lithographic post processing.     

Hyosgerin, a new optically active coumarinolignan, from the seeds of Hyoscyamus niger

Hyosgerin, a new optically active coumarinolignan, has been isolated and characterized along with three other coumarinolignans, venkatasin, cleomiscosin A and cleomiscosin B, from the seeds of Hyoscyamus niger L. The structure was determined on the basis of spectroscopic analysis and chemical conversion. The optical properties and absolute stereochemistry of these coumarinolignans have also been studied and discussed.     

A short and efficient asymmetric synthesis of komaroviquinone

An asymmetric total synthesis of komaroviquinone (1), which is a natural product isolated from Dracocephalum komarovi and shows novel potent trypanocidal activity, was achieved in five steps from the known starting materials. The synthetic route is shorter and more efficient than the reported methods and also useful for the scale-up synthesis.