Local conformation

For crystal growth from the vapor phase, one better chooses the transition probability appropriate to the physical situation. The adsorption occurs ballistically with its rate dependent only on the chemical potential difference Aj.1, while the desorption rate contains all the information of local conformation on the surface [35,48]. As long as the system is close to equilibrium, the specific choice of the transition probability is not of crucial importance. 

This effect is particularly well documented for y - and -amino acid residues [217, 218] which in several natural products (bleomycin A2 [219], calyculins [220]) have been shown to play a substantial role in the pre-organization of the whole molecule into its bioactive conformation. For example, changes in the substitution pattern of the y-amino acid linker in bleomycin A2 result in reduced DNA cleavage efficiency [219]. In the case of y-peptides, changing the relative configuration like or unlike of y " -amino acids has been used as a strategy to generate different local conformations (Fig. 2.34) suitable either for the construction of helices [201] or turns ]202-204]. 

The local conformational preferences of a PE chain are described by more complicated torsion potential energy functions than those in a random walk. The simulation must not only establish the coordinates on the 2nnd lattice of every second carbon atom in the initial configurations of the PE chains, but must also describe the intramolecular short range interactions of these carbon atoms, as well as the contributions to the short-range interactions from that... 

Several lines of evidence indicate that oligomers of Ala in solution assume a predominantly Pn local conformation and that proteins unfolded by Gdm-HCl or urea also have a dominant conformation, Pn-Preliminary results on ubiqitin fragments and short sequences contain-ing QQQ, SSS, FFF, and VW in a series of 11-mers suggest that this is... 

The main advantage of NMR spectroscopy is its use with proteins in solution. In consequence, rather than obtaining a single three-dimensional structure of the protein, the final result for an NMR structure is a set of more or less overlying structures which fulfill the criteria and constraints given particularly by the NOEs. Typically, flexibly oriented protein loops appear as largely diverging structures in this part of the protein. Likewise, two distinct local conformations of the protein are represented by two differentiated populations of NMR structures. Conformational dynamics are observable on different time scales. The rates of equilibration of two (or more) substructures can be calculated from analysis of the line shape of the resonances and from spin relaxation times Tj and T2, respectively. 

An atactic polymer can crystallize, for instance the case of polyacrylonitrile, whose crystallizability has been explained on the basis of local conformations, which produce extended and straight chains.140... 

Control of Optical Properties and Global-Local Conformations... 

This knowledge and understanding may be helpful to characterize local conformations of other optically active polysilanes in solution. For example, poly(methyl-(-)-(3-pinanylsilane) [(+)-7 Mw = 10,200] prepared by Shinohara and co-workers.281 showed a bisignate CD band at 280 and 303 nm, associated with a broad UV absorption at 300 nm in chloroform at 15°C. Since the spectroscopic features are quite similar to those of i,28d-28e it is possible that the main chain in 7 may contain diastereomeric helical motifs with opposite screw senses and different screw pitches. 

In this part, two series of 44 copolymers with coiled main-chain structures and 45 copolymers with stiff main-chain conformations were described. It was concluded that both optically inactive 42 and 43 adopt helical conformations with an equal proportion of P and M screw senses by means of UV and CD spectra as well as molecular mechanics calculations. A marked positive cooperative induction effect of the preferential screw sense in 44 and 45 copolymers was found. However, there is a marked difference in the helical cooperativity between 44 and 45, probably because of the differences in their global and local conformations. This difference can be related to the persistence of the helical conformation against defects allowing change of... 

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