Hydrophobic regions

TT-stacking and charge-transfer interaction between aromatic residues in the receptor and delocalized regions of the substrate van der Waals attraction between hydrophobic regions on the two components... 

Fig. 2. Schematic of the G-proteia coupled receptor (GPCR). The seven a-heUcal hydrophobic regions spanning the membrane are joined by extraceUular and iatraceUular loops. The amino terminal is located extraceUulady and the carboxy terminal iatraceUulady.

Detailed structure determinations of GCN4 and other coiled-coil proteins have shown that the a helices pack against each other according to the "knobs in holes" model first suggested by Francis Crick (Figure 3.5). Each side chain in the hydrophobic region of one of the a helices can contact four side chains from the second a helix. The side chain of a residue in position "d"... 

The horseshoe structure is formed by homologous repeats of leucine-rich motifs, each of which forms a p-loop-a unit. The units are linked together such that the p strands form an open curved p sheet, like a horseshoe, with the a helices on the outside of the p sheet and the inside exposed to solvent. The invariant leucine residues of these motifs form the major part of the hydrophobic region between the a helices and the p sheet. 

The way in which molecular chaperones interact with polypeptides during the folding process is not completely understood. What is clear is that chaperones bind effectively to the exposed hydrophobic regions of partially folded structures. These folding intermediates are less compact than the native folded proteins. They contain large amounts of secondary and even some tertiary... 

The mechanism of the lysozyme reaction is shown in Figures 16.36 and 16.37. Studies using O-enriched water showed that the Ci—O bond is cleaved on the substrate between the D and E sites. Hydrolysis under these conditions incorporates into the Ci position of the sugar at the D site, not into the oxygen at C4 at the E site (Figure 16.36). Model building studies place the cleaved bond approximately between protein residues Glu and Asp. Glu is in a nonpolar or hydrophobic region of the protein, whereas Asp is located in a much more polar environment. Glu is protonated, but Asp is ionized... 

These four types of forces are responsible for the adaptive behavior of smart gels. The different forces come into play when the network of polymer chains composing a gel is disturbed, (a) Charged ionic regions can attract or repel each other, (b) Nonpolar hydrophobic regions exclude water, (c) Hydrogen bonds may form from one chain to another, (d) Dipole-dipole interactions can attract or repel chains. 

The C-6 carboxamide analogues of zanamivir, represented by the general structure 24, provided an avenue to introduce more hydrophobic side-chains onto the dihydropyran scaffold to interact with the hydrophobic regions of subsites S4 and S5 (reviewed in Islam and von Itzstein 2007). The most active tertiary amides (24 = alkyl) showed comparable inhibitory activity to their glycerol side-... 

As we consider an even larger hydrophobic region, solubility decreases. For example, 1-octanol has a very low solubility in water at room temperature ... 

ANSWER This compound has eight carbon atoms, and only one OH group. The hydrophobic region of the molecule is too large, and we expect the molecule to exhibit very low water solubility. 

The characteristic coiled-coil motifs found in proteins share an (abcdefg) heptad repeat of polar and nonpolar amino acid residues (Fig. 1). In this motif, positions a, d, e, and g are responsible for directing the dimer interface, whereas positions b, c, and f are exposed on the surfaces of coiled-coil assemblies. Positions a and d are usually occupied by hydrophobic residues responsible for interhelical hydrophobic interactions. Tailoring positions a, d, e, and g facilitates responsiveness to environmental conditions. Two or more a-helix peptides can self-assemble with one another and exclude hydrophobic regions from the aqueous environment [74]. Seven-helix coiled-coil geometries have also been demonstrated [75]. 

No interpenetrating of S-layer protein in the membrane hydrophobic region occurs [138,139, 141,142]... 

The amphipathic character of phospholipids suggests that the two regions of the molecule have incompatible solubihties however, in a solvent such as water, phos-phohpids organize themselves into a form that thermodynamically serves the solubihty requirements of both regions. A micelle (Figure 41 ) is such a structure the hydrophobic regions are shielded from water, while the hydrophilic polar groups are immersed in the aqueous environment. However, micelles are usually relatively small in size (eg, approximately 200 nm) and thus are hmited in their potential to form membranes. 

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