Conformations random coil

Proteins fold on a time scale from p seconds to seconds. Starting from a random coil conformation, proteins can find their stable fold quickly, although the number of possible conformations is astronomically high. 

The inability of the strain softened molecules to recover their random coil conformation when unloaded. 

Typically in solution, a polymer molecule adopts a conformation in which segments are located away from the centre of the molecule in an approximately Gaussian distribution. It is perfectly possible for any given polymer molecule to adopt a very non-Gaussian conformation, for example an all-trans extended zig-zag. It is, however, not very likely. The Gaussian set of arrangements are known as random coil conformations. 

The typical shape of most polymer molecules in solution is the random coil. This is due to the relative ease of rotation around the bonds of the molecule and the resulting large number of possible conformations that the molecule can adopt. We should note in passing that where rotation is relatively hindered, the polymer may not adopt a random coil conformation until higher temperatures. 

These studies showed thaL in the absence of nucleic acid, the backbone 1 aPNA had significant a-hehcal content at pH 7 whereas the backbone 2 aPNA was largely in a random coil conformation at physiological pH. The latter aPNA did become a-helical at higher pHs in a manner reminiscent of the structurally related amphipathic peptides. 

After secretion from the cell, certain lysyl residues of tropoelastin are oxidatively deaminated to aldehydes by lysyl oxidase, the same enzyme involved in this process in collagen. However, the major cross-links formed in elastin are the desmosines, which result from the condensation of three of these lysine-derived aldehydes with an unmodified lysine to form a tetrafunctional cross-hnk unique to elastin. Once cross-linked in its mature, extracellular form, elastin is highly insoluble and extremely stable and has a very low turnover rate. Elastin exhibits a variety of random coil conformations that permit the protein to stretch and subsequently recoil during the performance of its physiologic functions. 

Fresh solutions of pustulan, which are presumably in a random-coil conformation, have a positive c.d. at 180 nm (see Fig. 8). The c.d. spectrum... 

Relationships between dilute solution viscosity and MW have been determined for many hyperbranched systems and the Mark-Houwink constant typically varies between 0.5 and 0.2, depending on the DB. In contrast, the exponent is typically in the region of 0.6-0.8 for linear homopolymers in a good solvent with a random coil conformation. The contraction factors [84], g=< g >branched/ <-Rg >iinear. =[ l]branched/[ l]iinear. are another Way of cxprcssing the compact structure of branched polymers. Experimentally, g is computed from the intrinsic viscosity ratio at constant MW. The contraction factor can be expressed as the averaged value over the MWD or as a continuous fraction of MW. 

The conformations adopted by polyelectrolytes under different conditions in aqueous solution have been the subject of much study. It is known, for example, that at low charge densities or at high ionic strengths polyelectrolytes have more or less randomly coiled conformations. As neutralization proceeds, with concomitant increase in charge density, so the polyelectrolyte chain uncoils due to electrostatic repulsion. Eventually at full neutralization such molecules have conformations that are essentially rod-like (Kitano et al., 1980). This rod-like conformation for poly(acrylic acid) neutralized with sodium hydroxide in aqueous solution is not due to an increase in stiffness of the polymer, but to an increase in the so-called excluded volume, i.e. that region around an individual polymer molecule that cannot be entered by another molecule. The excluded volume itself increases due to an increase in electrostatic charge density (Kitano et al., 1980). 

Random coil conformations can range from the spherical contracted state to the fully extended cylindrical or rod-like form. The conformation adopted depends on the charge on the polyion and the effect of the counterions. When the charge is low the conformation is that of a contracted random coil. As the charge increases the chains extend under the influence of mutually repulsive forces to a rod-like form (Jacobsen, 1962). Thus, as a weak polyelectrolyte acid is neutralized, its conformation changes from that of a compact random coil to an extended chain. For example poly(acrylic acid), degree of polymerization 1000, adopts a spherical form with a radius of 20 nm at low pH. As neutralization proceeds the polyion first extends spherically and then becomes rod-like with a maximum extension of 250 nm (Oosawa, 1971). These pH-dependent conformational changes are important to the chemistry of polyelectrolyte cements. 

Altschuler EL, Hud NY, Mazrimas JA, Rupp B. Random coil conformation for extended polyglutamine stretches in aqueous soluble monomeric peptides. J Peptide Res 1997 50 73-75. 

We now report that in the region of the absorption band the flow linear dichroism of a solution of 1 is positive (Fig. 3). Assuming that the nature of the flow orientation is of the usual kind, i.e., that the polymer chains in a random coil conformation which dominates in solution (34) tend to align with the flow direction, this observation provides additional support for the absolute assignment of the transition moment direction along the chain direction, even in solution. Similar conclusions based on polarization studies on a stretched film of poly(di-n-hexyl silane) have recently been reported (36). 

An excluded-volume random-coil conformation will be achieved when the solvent quality exceeds the theta point, the temperature or denatu-rant concentration at which the solvent-monomer interactions exactly balance the monomer—monomer interactions that cause the polymer to collapse into a globule under more benign solvent conditions. A number of lines of small-angle scattering—based evidence are consistent with the suggestion that typical chemical or thermal denaturation conditions are good solvents (i.e., are beyond the theta point) and thus that chemically or thermally unfolded proteins adopt a near random-coil conformation. 

Both Reynolds and Karim worked at neutral pH, with denatured proteins, and with reduced disulfide bonds. Under these conditions, proteins are in a random coil conformation (Mattice et al., 1976), so that their hydrodynamic radius is monotoni-cally related to their molar mass. Takagi et al. (1975) reported that the binding isotherm of SDS to proteins strongly depends upon the method of denaturing disulfide bonds. Presumably, protein-SDS complexes are not fully unfolded when disulfide bonds are left intact, which breaks the relationship between molar mass and hydrodynamic... 

The crystallization process of flexible long-chain molecules is rarely if ever complete. The transition from the entangled liquid-like state where individual chains adopt the random coil conformation, to the crystalline or ordered state, is mainly driven by kinetic rather than thermodynamic factors. During the course of this transition the molecules are unable to fully disentangle, and in the final state liquid-like regions coexist with well-ordered crystalline ones. The fact that solid- (crystalline) and liquid-like (amorphous) regions coexist at temperatures below equilibrium is a violation of Gibb s phase rule. Consequently, a metastable polycrystalline, partially ordered system is the one that actually develops. Semicrystalline polymers are crystalline systems well removed from equilibrium. 

Fig. 33 Schematic illustration of the model of two-stage melt relaxation. When ECSCs are melted, the chains within ECSCs are rapidly changed to a random coiled conformation. Then, chains are gradually entangled with each other. Cross-mark denotes the entanglement. rconf and tent are the conformational and topological relaxation time, respectively. At is the melt annealing time (see text)...

The reversible recovery of a deformed elastomer to its original (undeformed) state is due to an entropic driving force. The entropy of polymer chains is minimum in the extended conformation and maximum in the random coil conformation. Cross-linking of an elastomer to form a network structure (IX) is... 

In the via precursor method, however, it is difficult to prepare the ji-conjugated polymers with ideally developed -conjugation system the -conjugated polymer chains contain many conformational defects because the jc-conjugated chains are caused to develop from disordered precursor polymer, which form random coil conformation, in solid state. For the preparation of polymers with well-developed jc-conjugation system by the via precursor method, accordingly, it is necessary to introduce orientational and conformational orderliness of the precursor polymers in the films. 

A concomitant shift in the UV absorption wavelength to 310 nm characteristic of a random coil conformation is apparent.333 The report is not explicit concerning the screw sense of the PTrMA block, and thus the screw sense of the silicon helix is not certain. 

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