Along helix

Figure 3.35 Optimized structures of (a) phenylcarbamate 23a and (b) 3,5-dimethylphenylcar-bamate 23x derivatives of cellulose. View along helix axis (top) and perpendicular to hebx axis (bottom).

Figure 3.44 Calculated structure of complex 23ao-(S)-41a. (a) View perpendicular to helix axis and (b) expanded region of same stmcture model as viewed along helix axis. (Reprinted with permission from Ref. 209. Copyright 1996 by the American Chemical Society.)...

The optical activities of quartz crystals are caused by structural arrangements of Si and O atoms situated along helix axes in the crystal lattice. A right helix structure corresponds to a (+)-optical rotating quartz and a left helix to a (-)-rotating quartz... 

Many factors may determine polymer semi-flexibility, such as internal rotation, solvation, stretching, spatial confinement, surface adsorption, charge interactions, hydrogen bonding along helix, and double helix of DNA, etc. The most common factor is the internal rotation. One can understand the internal rotation fi om the... 

Fig. 4.6 Schematic representation of the 311 helix found for isotactic vinyl polymers of the type (—CH2—CHX—) . (a) Side view of helix, (b) View along helix. The X groups are —CH3, —CH=CH2 etc.

This particular sequence of conformations-trans bonds that advance the helix along the axis, alternating with gauche bonds which provide the twist-takes the chain through a series of relatively low potential energy states and generates a structure with minimum steric hindrance between substituents. If the polymer series is extended to include bulkier substituents, for example. 

Fig. 14. Choleic acid inclusion chemistry (a) crystal stmcture of DCA inclusion compound with phenanthrene (b) view along a DCA inclusion helix accommodating DMSO and water guest molecules (oxygen and sulfur atoms and methyl groups are represented by open circles and large and small black...

Resonance Raman Spectroscopy. If the excitation wavelength is chosen to correspond to an absorption maximum of the species being studied, a 10 —10 enhancement of the Raman scatter of the chromophore is observed. This effect is called resonance enhancement or resonance Raman (RR) spectroscopy. There are several mechanisms to explain this phenomenon, the most common of which is Franck-Condon enhancement. In this case, a band intensity is enhanced if some component of the vibrational motion is along one of the directions in which the molecule expands in the electronic excited state. The intensity is roughly proportional to the distortion of the molecule along this axis. RR spectroscopy has been an important biochemical tool, and it may have industrial uses in some areas of pigment chemistry. Two biological appHcations include the deterrnination of helix transitions of deoxyribonucleic acid (DNA) (18), and the elucidation of several peptide stmctures (19). A review of topics in this area has been pubHshed (20). 

The presence of a static magnetic field within a plasma affects microscopic particle motions and microscopic wave motions. The charged particles execute cyclotron motion and their trajectories are altered into heUces along the field lines. The radius of the helix, or the T,arm or radius, is given by the following ... 

Fig. 2. Protein secondary stmcture (a) the right-handed a-helix, stabilized by intrasegmental hydrogen-bonding between the backbone CO of residue i and the NH of residue t + 4 along the polypeptide chain. Each turn of the helix requires 3.6 residues. Translation along the hehcal axis is 0.15 nm per residue, or 0.54 nm per turn and (b) the -pleated sheet where the polypeptide is in an extended conformation and backbone hydrogen-bonding occurs between residues on adjacent strands. Here, the backbone CO and NH atoms are in the plane of the page and the amino acid side chains extend from C ...

Fig. 1. The two principal elements of secondary stmcture in proteins, (a) The a-helix stabilized by hydrogen bonds between the backbone of residue i and i + 4. There are 3.6 residues per turn of helix and an axial translation of 150 pm per residue. represents the carbon connected to the amino acid side chain, R. (b) The P sheet showing the hydrogen bonding pattern between neighboring extended -strands. Successive residues along the chain point...

The most common location for an a helix in a protein structure is along the outside of the protein, with one side of the helix facing the solution and the other side facing the hydrophobic interior of the protein. Therefore, with 3.6 residues per turn, there is a tendency for side chains to change from hydrophobic to hydrophilic with a periodicity of three to four residues. Although this trend can sometimes be seen in the amino acid sequence, it is not strong enough for reliable stmctural prediction by itself, because residues that face the solution can be hydrophobic and, furthermore, a helices can be either completely buried within the protein or completely exposed. Table 2.1 shows examples of the amino acid sequences of a totally buried, a partially buried, and a completely exposed a helix. 

Figure 3.S Schematic diagram of packing side chains In the hydrophobic core of colled-coll structures according to the "knobs In holes" model. The positions of the side chains along the surface of the cylindrical a helix Is pro-jected onto a plane parallel with the heUcal axis for both a helices of the coiled-coil. (a) Projected positions of side chains in helix 1. (b) Projected positions of side chains in helix 2. (c) Superposition of (a) and (b) using the relative orientation of the helices In the coiled-coil structure. The side-chain positions of the first helix, the "knobs," superimpose between the side-chain positions In the second helix, the "holes." The green shading outlines a d-resldue (leucine) from helix 1 surrounded by four side chains from helix 2, and the brown shading outlines an a-resldue (usually hydrophobic) from helix 1 surrounded by four side chains from helix 2.

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