Electrostatic control of thickness and stiffness in a designed protein fiber

Attempts to design peptide-based fibers from first principles test our understanding of protein folding and assembly, and potentially provide routes to new biomaterials. Several groups have presented such designs based on alpha-helical and beta-strand building blocks. A key issue is this area now is engineering and controlling fiber morphology and related properties. Previously, we have reported the design and characterization of a self-assembling peptide fiber (SAF) system based on alpha-helical coiled-coil building blocks. With preceding designs, the SAFs are thickened, highly ordered structures in which many coiled coils are tightly bundled. As a result, the fibers behave as rigid rods. Here we report successful attempts to design new fibers that are thinner and more flexible by further programming at the amino-acid sequence level. This was done by introducing extended, or "smeared", electrostatic networks of arginine and glutamate residues to the surfaces of the coiled-coil building blocks. Furthermore, using arginine--rather than lysine--in these networks plays a major role in the fiber assembly, presumably by facilitating multidentate intra and intercoiled-coil salt bridges.     

Energetics and structures of the initial stages of nucleation of (SiO(2))(N) species: possible routes to highly symmetrical tetrahedral clusters

A detailed survey of the low energy isomer spectrum of (SiO(2))(N), N= 6-10, 13, 16 has been performed using interatomic potential based global optimisations refined via high-level density functional calculations. Within these spectra, including many isomers reported for the first time, structurally and energetically viable pathways for the initial stages of silica cluster growth through SiO(2) nucleation are identified. The role of the exceptionally stable (SiO(2))(8) ground state "magic" cluster is highlighted in the possible formation of highly symmetric fully tetrahedral clusters of size (SiO(2))(10) and (SiO(2))(16). These clusters are found to form a part of a natural (SiO(2))(N)N= 7, 10, 13, 16 sequence together with the C(3v) ground states for (SiO(2))(7) and (SiO(2))(13). The fully tetrahedral clusters are argued to be likely relatively long-lived metastable species in the process of gas phase SiO(2) nucleation due to the manner of their termination. It is speculated that larger tetrahedral (SiO(2))(40) clusters may exhibit porous structures.     

Blackbody radiation shift of the Al<Superscript>+</Superscript> clock transition

The blackbody radiation shift of the Al⁺ 3s^{2 1}S^e ₀ ↦ 3s3p ³P^○ ₀ clock transition is evaluated. The polarizabilities of the two states are determined by means of configuration interaction calculations in conjunction with oscillator strength sum rules. The ground state polarizability was 24.14 ±0.12 a.u. while the metastable state polarizability was 24.62 ±0.25 a.u. The derived frequency shift at 300 K was Δν= -0.0042 ±0.0032 Hz. Some auxiliary sum rules are evaluated that allow for the conversion of a finite frequency polarizability difference to a static polarizability difference.     

Mechanisms of structure formation in particulate gels of β-lactoglobulin formed near the isoelectric point

Particulate gels are known to be formed by bovine β-lactoglobulin near the isoelectric point when partial unfolding is allowed to occur under heating. The aggregation process of the protein has been investigated within the context of a nucleation and growth process by preparing gels under precisely controlled thermal histories. This was achieved using a Differential Scanning Calorimeter (DSC) to provide controlled heating rates, and known final temperatures and incubation times. The resulting particulate gels were characterized by their particle size and polydispersity using Environmental Scanning Electron Microscopy (ESEM), which permits hydrated samples to be observed. Particle size was found to decrease with increasing final temperature, with the aggregation taking longer to reach completion for lower temperatures. Particle size was also found to decrease with increasing heating rate. This system could be modelled as evolving via nucleation and growth by taking into account the fact that the concentration of the aggregating species was varying as a function of temperature as well as time. The intrinsic tryptophan fluorescence as a function of temperature was used as a guide to the fraction of unfolded protein in solution, thereby permitting successful comparisons between the model predictions and the particle sizes to be made.-1     

Evidence for atomic mixing via multiple intermediates during the dynamic interconversion of silicate oligomers in solution

We investigate Si(8)- and Si(16)-based silicate species via global optimisation searches and ab initio calculations and propose a new multi-mechanism interpretation of the experimentally observed atomic mixing of silicate oligomers in solution.     

Stabilising Peptoid Helices Using Non‐Chiral Fluoroalkyl Monomers

Stability towards protease degradation combined with modular synthesis has made peptoids of considerable interest in the fields of chemical biology, medicine, and biomaterials. Given their tertiary amide backbone, peptoids lack the capacity to hydrogen‐bond, and as such, controlling secondary structure can be challenging. The incorporation of bulky, charged, or chiral aromatic monomers can be used to control conformation but such building blocks limit applications in many areas. Through NMR and X‐ray analysis we demonstrate that non‐chiral neutral fluoroalkyl monomers can be used to influence the K_cis/trans equilibria of peptoid amide bonds in model systems. The cis‐isomer preference displayed is highly unprecedented given that neither chirality nor charge is used to control the peptoid amide conformation. The application of our fluoroalkyl monomers in the design of a series of linear peptoid oligomers that exhibit stable helical structures is also reported.     

Importance of intermolecular interactions in assessing hopping mobilities in organic field effect transistors: pentacene versus dithiophene-tetrathiafulvalene

We report on a computational study to understand the high mobility found in dithiophene-tetrathiafulvalene (DT-TTF) transistors, with respect to that known for pentacene, using an extended measure of the reorganization energy (lambdareorg). We demonstrate the high importance of considering intermolecular interactions to assess hole-hopping mobilities. We find that due to the steric, polarizable environment and the structural changes induced by local intermolecular charge delocalization, the calculated lambdareorg for DT-TTF decreases from 0.574 eV in the isolated molecule to 0.042 eV in the crystal embedded molecule, which is of the same order of the previously reported value found for the isolated pentacene molecule, 0.098 eV.     

Tooth enamel proteins enamelin and amelogenin cooperate to regulate the growth morphology of octacalcium phosphate crystals

To examine the hypothetical cooperative role of enamelin and amelogenin in controlling the growth morphology of enamel crystals in the post-secretory stage, we applied a cation selective membrane system for the growth of octacalcium phosphate (OCP) in the truncated recombinant porcine amelogenin (rP148) with and without the 32kDa enamelin fragment. Enamelin alone inhibited the growth in the c-axis direction more than rP148, yielding OCP crystals with the smallest aspect ratio of all conditions tested. When enamelin was added to the amelogenin "gel-like matrix", the inhibitory action of the protein mixture on the growth of OCP in the c-axis direction was diminished, while that in the b-axis direction was increased. As a result, the length to width ratio (aspect ratio) of OCP crystal was markedly increased. Addition of enamelin to amelogenin enhanced the potential of amelogenin to stabilize the amorphous calcium phosphate (ACP) transient phase. The ratio of enamelin and amelogenin was crucial for stabilization of ACP and the growth of OCP crystals with larger aspect ratio. The cooperative regulatory action of enamelin and amelogenin was attained, presumably, through co-assembling of enamelin and amelogenin. These results have important implications in understanding the growth mechanism of enamel crystals with large aspect ratio.