Polymeric Tubular Aromatic Amide Helices

Conjugated polymers may be induced by intra‐ and/or intermolecular non‐covalent forces to fold into helical conformations. Helices formed by aromatic amide, hydrazide, and urea polymers possess a well‐organized cavity and depth, which is defined by their degree of polymerization. Driving forces may be intramolecular hydrogen bonding and/or solvophobicity, or guest induction. The resulting long helices represent a new class of unimacromolecular dynamic tubular architectures that exhibit unique properties or functions in, for example, molecular recognition, chirality transfer, and ion transporting. The recent advances are highlighted here.

     

Induced chiral helical effect on the main chain of aliphatic polyacetylenes

11‐Dodecyn‐1‐ol as an achiral, aliphatic, monosubstituted acetylene was copolymerized with cholesteryl 3‐butynyl carbonate as a chiral, aliphatic, monosubstituted acetylene with Rh(nbd)[B(C₆H₅)₄] (nbd = norbornadiene) in tetrahydrofuran. The main chain of the obtained copolymers seemed to be mainly composed of the cis‐type structure. The backbone π–π* transition of these copolymers showed significant circular dichroism (CD), indicating an excess of one‐handed helical conformation. These CD signals were varied with the contents of the cholesteryl units in the copolymers. © 2001 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 39: 913–917, 2001     

Geometric Hermite interpolation by spatial Pythagorean-hodograph cubics

It is shown that, depending upon the orientation of the end tangents t₀,t₁ relative to the end point displacement vector p=p₁–p₀, the problem of G¹ Hermite interpolation by PH cubic segments may admit zero, one, or two distinct solutions. For cases where two interpolants exist, the bending energy may be used to select among them. In cases where no solution exists, we determine the minimal adjustment of one end tangent that permits a spatial PH cubic Hermite interpolant. The problem of assigning tangents to a sequence of points p₀,...,p_n in R³, compatible with a G¹ piecewise-PH-cubic spline interpolating those points, is also briefly addressed. The performance of these methods, in terms of overall smoothness and shape-preservation properties of the resulting curves, is illustrated by a selection of computed examples.     

Raman spectroscopy of proteins: a review

In this work, 26 proteins of different structure, function and properties are investigated by Raman spectroscopy with 488, 532 and 1064 nm laser lines. The excitation lines were chosen in NIR and Vis range as the most common and to show the difference due to normal and resonance effect, sometimes accompanied by the fluorescence. The selected proteins were divided, according to the Structural Classification of Proteins, into four classes according to their secondary structure, i.e. α‐helical (α), β‐sheet (β), mixed structures (α/β, α + β, s) and others. For all compounds, FT‐Raman and two Vis spectra are presented along with the detailed band assignment. To the best of our knowledge, this is the first review showing the potential of Raman spectroscopy for the measurement and analysis of such a large collection of individual proteins. This work can serve as a comprehensive vibrational spectra library, based on our and previous Raman measurements. Copyright © 2013 John Wiley & Sons, Ltd.     

Laser emission at the second-order photonic band gap in an electric-field-distorted cholesteric liquid crystal

ABSTRACT

We study the optical properties of a cholesteric liquid crystal doped with a fluorescent dye in the regime of highly distorted helix without full helix unwinding. The distortion was achieved by applying a pulsed AC electric field, perpendicular to the helix axis. If the pulse is in the millisecond range, the helix is deformed but keeps its original pitch even for electric fields higher than the theoretical critical field for helix unwinding. In this field regime, very pronounced high-order photonic band gaps are observed, in agreement with our calculations. We theoretically explore the possibility of obtaining viable laser emission at the second-order photonic band gap, and experimentally find that lasing is not only possible but has a figure of merit similar to that of the usual laser at the main-gap region. Therefore, electric-field-induced high-order photonic band gaps are potentially useful for multiline laser applications.     

Amphiphilic Peptide–Polymer Conjugates with Side‐Conjugation

Polymers conjugated to the exterior of a protein mediate its interactions with surroundings, enhance its processability and can be used to direct its macroscopic assemblies. Most studies to date have focused on peptide–polymer conjugates based on hydrophilic polymers. Engineering amphiphilicity into protein motifs by covalently linking hydrophobic polymers has the potential to interface peptides and proteins with synthetic polymers, organic solvents, and lipids to fabricate functional hybrid materials. Here, we synthesized amphiphilic peptide–polymer conjugates in which a hydrophobic polymer is conjugated to the exterior of a heme‐binding four‐helix bundle and systematically investigated the effects of the hydrophobicity of the conjugated polymer on the peptide structure and the integrity of the heme‐binding pocket. In aqueous solution with surfactants present, the side‐conjugated hydrophobic polymers unfold peptides and may induce an α‐helix to β‐sheet conformational transition. These effects decrease as the polymer becomes less hydrophobic and directly correlate with the polymer hydrophobicity. Upon adding organic solvent to solubilize the hydrophobic polymers, however, the deleterious effects of hydrophobic polymers on the peptide structures can be eliminated. Present studies demonstrate that protein structure is sensitive to the local environment. It is feasible to dissolve amphiphilic peptide–polymer conjugates in organic solvents to enhance their solution processability while maintaining the protein structures.

     

A sequence-based computational model for the prediction of the solvent accessible surface area for α-helix and β-barrel transmembrane residues

Predicting the solvent accessible surface area (ASA) of transmembrane (TM) residues is of great importance for experimental researchers to elucidate diverse physiological processes. TM residues fall into two major structural classes (α-helix membrane protein and β-barrel membrane protein). The reported solvent ASA prediction models were developed for these two types of TM residues respectively. However, this prevents the general use of these methods because one cannot determine which model is suitable for a given TM residue without information of its type. To conquer this limitation, we developed a new computational model that can be used for predicting the ASA of both TM α-helix and β-barrel residues. The model was developed from 78 α-helix membrane protein chains and 24 β-barrel membrane protein. Its prediction ability was evaluated by cross validation method and its prediction result on an independent test set of 20 membrane protein chains. The results show that our model performs well for both types of TM residues and outperforms other prediction model which was developed for the specific type of TM residues. The prediction results also proved that the random forest model incorporating conservation score is an effective sequence-based computational approach for predicting the solvent ASA of TM residues.     

Locking the Absolute Configuration of Achiral Amine Ligand: A Strategy for Helicity Introduction in Coordination Polymers

A novel coordination polymer {[Mn（m-cpdba）（H2O）4]·H2O}n 1 has been synthesized and characterized. Single-crystal X-ray diffraction analysis reveals that compound 1 contains one-dimensional single-stranded helical chains, in which the chirality of a stereochemically labile amine of the ligands can be locked by the Mn（II） ion via coordination bonds and transferred to the whole coordination polymeric chain, exhibiting an identical absolute configuration. Crystal data for 1： C14H17Mn1N3O13, Mr = 490.25, space group C2/c, a = 18.5177（18）, b = 6.6194（5）, c = 31.563（4）A, β = 105.046（5）°, Z = 8, V = 3736.2（7）A^3, Dc = 1.743 g/cm^3, F（000） = 2008 and μ = 0.786 mm^-1.     

Engineering a β‐Helical d,l‐Peptide for Folding in Polar Media

β Helices—helices formed by alternating d,l ‐peptides and stabilized by β‐sheet hydrogen bonding—are found naturally in only a handful of highly hydrophobic peptides. This paper explores the scope of β‐helical structure by presenting the first design and biophysical characterization of a hydrophilic d,l ‐peptide, 1 , that forms a β helix in methanol. The design of 1 is based on the β‐hairpin/β helix—a new supersecondary that had been characterized previously only for hydrophobic peptides in nonpolar solvents. Incorporating polar residues in 1 provided solubility in methanol, in which the peptide adopts the expected β‐hairpin/β‐helical structure, as evidenced by CD, analytical ultracentrifugation (AUC), NMR spectroscopy, and NMR‐based structure calculations. Upon titration with water (at constant peptide concentration), the structure in methanol ( 1 m ) transitions cooperatively to an extended conformation ( 1 w ) resembling a cyclic β‐hairpin; observation of an isodichroic point in the solvent‐dependent CD spectra indicates that this transition is a two‐state process. In contrast, neither 1 m nor 1 w show cooperative thermal melting; instead, their structures appear intact at temperatures as high as 65 °C; this observation suggests that steric constraint is dominant in stabilizing these structures. Finally, the ¹H NMR CαH spectroscopic resonances of 1 m are downfield‐shifted with respect to random‐coil values, a hitherto unreported property for β helices that appears to be a general feature of these structures. These results show for the first time that an appropriately designed β‐helical peptide can fold stably in a polar solvent; furthermore, the structural and spectroscopic data reported should prove useful in the future design and characterization of water‐soluble β helices.