Interface folding

Residues 50-64 of the GAL4 fragment fold into an amphipathic a helix and the dimer interface is formed by the packing of these helices into a coiled coil, like those found in fibrous proteins (Chapters 3 and 14) and also in the leucine zipper families of transcription factors to be described later. The fragment of GAL4 comprising only residues 1-65 does not dimerize in the absence of DNA, but the intact GAL4 molecule does, because in the complete molecule residues between 65 and iOO also contribute to dimer interactions. 

Viscoelastic polymers essentially dominate the multi-billion dollar adhesives market, therefore an understanding of their adhesion behavior is very important. Adhesion of these materials involves quite a few chemical and physical phenomena. As with elastic materials, the chemical interactions and affinities in the interface provide the fundamental link for transmission of stress between the contacting bodies. This intrinsic resistance to detachment is usually augmented several folds by dissipation processes available to the viscoelastic media. The dissipation processes can have either a thermodynamic origin such as recoiling of the stretched polymeric chains upon detachment, or a dynamic and rate-sensitive nature as in chain pull-out, chain disentanglement and deformation-related rheological losses in the bulk of materials and in the vicinity of interface. 

The model (23) is simple to study, but unfortunately not very widely applicable. In general, one is more interested in situations where the interfaces are free to fold around and to assume every possible conformation. A second possible approach is to switch over to a lattice formulation. This has been done by a number of groups [231-233]. The resulting models are very... 

It is not an easy task to develop computer codes which correctly treat the advancement of a folding interface as a boundary condition to a diffusion or flow field. In addition, the interface between a solid and a liquid, for example, is usually is not absolutely sharp on an atomic scale, but varies over a few lattice constants [32,33]. In these cases, it is sometimes convenient to treat the interface as having a finite non-zero thickness. An order parameter is then introduced, which for example varies from the value zero on one side of the interface to the value one on the other, representing a smooth transition from liquid to solid across the interface. This is called the phase-field... 

The subunits of an oligomeric protein typically fold into apparently independent globular conformations and then interact with other subunits. The particular surfaces at which protein subunits interact are similar in nature to the interiors of the individual subunits. These interfaces are closely packed and involve both polar and hydrophobic interactions. Interacting surfaces must therefore possess complementary arrangements of polar and hydrophobic groups. 

This closeness of 0 to zero explains the existence of a gas-oversaturated solution area in the polymer melt, when P < Pg, but the entire volume of gas remains in the solution. The degree of oversaturation, particularly upon free foaming (not in flow) can be 2- to 3-fold. In real polymer compositions, there are always solid admixtures, which have poor wetting areas. This reduces the degree of oversaturation at the interface melt-molding tool. Moreover, bubble nuclei can result from fragmentation of gas bubbles in the polymer [16]. Another factor that promotes the formation of bubble nuclei is the presence of localized hot points in the polymer melt they act as nuc-leation centres. Hot points appear either after a chemical reaction in the melt polymer [17], or in overheated areas on the surface of metal equipment [18]. Density of nucleation can be improved via introduction of various agents that reduce tension of the polymer [19]. 

Detailed protein structures have been reported for BPI and CETP. Given the aforementioned similarities within this gene family, these protein structures serve as a likely model for the protein structure of PLTP. CETP and BPI are elongated molecules, shaped like a boomerang. There are two domains with similar folds, and a central beta-sheet domain between these two domains. The molecules contain two lipid-binding sites, one in each domain near the interface of the barrels and the central beta-sheet. 

Figure 3 shows the three-dimensional structure of the MoFe protein from Klebsiella pneumoniae, Kpl, obtained at 1.65-A resolution (7). The overall structure of the polypeptides is frilly consistent with that reported earlier for Avl (3). The a and /8 subunits exhibit similar polypeptide folds with three domains of parallel /3 sheet/a helical type. At the interface between the three domains in the a subunit is a wide shallow cleft with the FeMoco at the bottom of the cleft about 10 A from the solvent. FeMoco is enclosed within the a subunit. The P cluster, however, is buried within the protein at the interface between the a and /8 subunits, being bound by cysteine residues from each subunit. A pseudo-twofold rotation axis passes between the two halves of the P cluster and relates the a and (3 subunits. Each af3 pair of subunits contains one FeMoco and one P cluster and thus appears... 

Folded membranes were generated out of two phospholipid monolayers at the air/subphase interface [158]. A thin Teflon septum separated the two half-cells of the setup which was also made of Teflon. This septum, with an orifice 50-200 jim in diameter, was... 

Fluorescent probes are divided in two categories, i.e., intrinsic and extrinsic probes. Tryptophan is the most widely used intrinsic probe. The absorption spectrum, centered at 280 nm, displays two overlapping absorbance transitions. In contrast, the fluorescence emission spectrum is broad and is characterized by a large Stokes shift, which varies with the polarity of the environment. The fluorescence emission peak is at about 350 nm in water but the peak shifts to about 315 nm in nonpolar media, such as within the hydrophobic core of folded proteins. Vitamin A, located in milk fat globules, may be used as an intrinsic probe to follow, for example, the changes of triglyceride physical state as a function of temperature [20]. Extrinsic probes are used to characterize molecular events when intrinsic fluorophores are absent or are so numerous that the interpretation of the data becomes ambiguous. Extrinsic probes may also be used to obtain additional or complementary information from a specific macromolecular domain or from an oil water interface. 

In 1958 Sarda and Desnuelle [79] discovered the lipase activation at the interfaces. They observed that porcine pancreatic lipase in aqueous solution was activated some 10-fold at hydrophobic interfaces which were created by poorly water-soluble substrates. An artificial interface created in the presence of organic solvent can also increase the activity of the lipase. This interfacial activation was hypothesized to be due to a dehydration of the ester substrate at the interface [80], or enzyme conformational change resulting from the adsorption of the lipase onto a hydrophobic interface [42,81,82]. 

NS3 is a 631 amino acid protein, and its first 180 amino acids encode a serine protease of the chymotrypsin family (Figure 2.2A). It has a typical chymotrypsin-family fold consisting of two jS-barrels, with catalytic triad residues at the interface. His-57 and Asp-81 are contributed by the N-terminal jS-barrel and Ser-139 from the C-terminal jS-barrel. NS3 and closely related viral proteases are significantly smaller than other members of the chymotrypsin family, and many of the loops normally found between adjacent jS-strands in trypsin proteases are truncated in NS3 [31]. Probably... 

Principles and Characteristics Although early published methods using SPE for sample preparation avoided use of GC because of the reported lack of cleanliness of the extraction device, SPE-GC is now a mature technique. Off-line SPE-GC is well documented [62,63] but less attractive, mainly in terms of analyte detectability (only an aliquot of the extract is injected into the chromatograph), precision, miniaturisation and automation, and solvent consumption. The interface of SPE with GC consists of a transfer capillary introduced into a retention gap via an on-column injector. Automated SPE may be interfaced to GC-MS using a PTV injector for large-volume injection [64]. LVI actually is the basic and critical step in any SPE-to-GC transfer of analytes. Suitable solvents for LVI-GC include pentane, hexane, methyl- and ethylacetate, and diethyl or methyl-f-butyl ether. Large-volume PTV permits injection of some 100 iL of sample extract, a 100-fold increase compared to conventional GC injection. Consequently, detection limits can be improved by a factor of 100, without... 

---