Intra-molecular

Straub J E and Berne B J 1986 Energy diffusion in many dimensional Markovian systems the consequences of the competition between inter- and intra-molecular vibrational energy transfer J. Chem. Phys. 85 2999 Straub J E, Borkovec M and Berne B J 1987 Numerical simulation of rate constants for a two degree of freedom system in the weak collision limit J. Chem. Phys. 86 4296... 

The timescale is just one sub-classification of chemical exchange. It can be further divided into coupled versus uncoupled systems, mutual or non-mutual exchange, inter- or intra-molecular processes and solids versus liquids. However, all of these can be treated in a consistent and clear fashion. 

Figure B2.5.18 compares this inter molecular selectivity with intra molecular or mode selectivity. In an IR plus UV, two-photon process, it is possible to break either of the two bonds selectively in the same ITOD molecule. Depending on whether the OFI or the OD stretching vibration is excited, the products are either IT -t OD or FIO + D [24]- hr large molecules, mirmnolecular selectivity competes with fast miramolecular (i.e. unimolecular) vibrational energy redistribution (IVR) processes, which destroy the selectivity. In laser experiments with D-difluorobutane [82], it was estimated that, in spite of frequency selective excitation of the...

Quack M and Thdne H J 1987 Absolute and relative rate coefficients in the IR-laser chemistry of bichromophoric fluorobutanes tests for inter- and intra-molecular selectivity Chem. Rhys. Lett. 135 487-94... 

Conformational Adjustments The conformations of protein and ligand in the free state may differ from those in the complex. The conformation in the complex may be different from the most stable conformation in solution, and/or a broader range of conformations may be sampled in solution than in the complex. In the former case, the required adjustment raises the energy, in the latter it lowers the entropy in either case this effect favors the dissociated state (although exceptional instances in which the flexibility increases as a result of complex formation seem possible). With current models based on two-body potentials (but not with force fields based on polarizable atoms, currently under development), separate intra-molecular energies of protein and ligand in the complex are, in fact, definable. However, it is impossible to assign separate entropies to the two parts of the complex. 

In aprotic conditions acetic anhydride sodium acetate induces formation of a fused ring through an intra molecular condensation. It results in a pyrrolo[2,l-fc]thiazole (39), which constitutes an interesting intermediate for the synthesis of dyes (Scheme 18) (40). 

Dieckmann cyclization (Section 21 2) An intra molecular analog of the Claisen condensation Cy die p keto esters in which the ring is five to seven membered may be formed by using this reaction... 

The most common method of epoxidation is the reaction of olefins with per-acids. For over twenty years, perbenzoic acid and monoperphthalic acid have been the most frequently used reagents. Recently, m-chloroperbenzoic acid has proved to be an equally efficient reagent which is commercially available (Aldrich Chemicals). The general electrophilic addition mechanism of the peracid-olefin reaction is currently believed to involve either an intra-molecularly bonded spiro species (1) or a 1,3-dipolar adduct of a carbonyl oxide, cf. (2). The electrophilic addition reaction is sensitive to steric effects. 

A different mechanism operates in the wheat germ enzyme. 2,3-Bisphosphoglycerate is not a cofactor. Instead, the enzyme carries out intra-molecular phosphoryl group transfer (Figure 19.25). The C-3 phosphate is transferred to an active-site residue and then to the C-2 position of the original substrate molecule to form the product, 2-phosphoglycerate. 

The structure of malonyl-a-aminopyridine (cf. 121) has been discussed by Snyder and Robinson/ who interpreted the infrared and ultraviolet spectra and the fact that it could be converted into a monochloro derivative (122, R = Cl) to indicate that the intra-molecularly hydrogen-bonded hydroxy form 122 (R = OH) was predominant. However, comparison of the basicities of the methoxy compound 122 (R = OMe), the mesomeric betaine 123 (R = Me), and the parent compound indicates that in aqueous solution the last exists mainly in the zwitterion form 123 (R = H), ... 

Heck reaction, palladium-catalyzed cross-coupling reactions between organohalides or triflates with olefins (72JOC2320), can take place inter- or intra-molecularly. It is a powerful carbon-carbon bond forming reaction for the preparation of alkenyl- and aryl-substituted alkenes in which only a catalytic amount of a palladium(O) complex is required. 

Fig. 2 Schematic representation of cellulose structures in solution Part A shows the fringed micellar structure. Parts B and C show possible chain conformations of celluloses of different DP. For high molecular weight cellulose, C, intra-molecular hydrogen bonding is possible...

More recently, Curran and Keller found that the (TMSlsSiH-mediated addition of aryl iodides to arenes are facilitated by oxidative rearomatization with oxygen (Reaction 69). Here, AIBN is not necessary for good performance of the reaction. The reaction proceeds well in both inter- and intra-molecular (see above) versions. 

Both inter- and intra- molecular Diels-Alder reactions of 2-benzopyran-3-ones occur with high endo-selectivity and have been used to synthesise (-)-podophyllotoxin (14) and 4a-substituted cis-BC fused hexahydrophenenthrenes (15), respectively <96JCS(P1)151, 96JCS(P1)705>. 

The system used in the simulations usually consists of solid walls and lubricant molecules, but the specific arrangement of the system depends on the problem under investigation. In early studies, hard spherical molecules, interacting with each other through the Lennard-Jones (L-J) potential, were adopted to model the lubricant [27], but recently we tend to take more realistic models for describing the lubricant molecules. The alkane molecules with flexible linear chains [28,29] and bead-spring chains [7,30] are the examples for the most commonly used molecular architectures. The inter- and intra-molecular potentials, as well as the interactions between the lubricant molecule and solid wall, have to be properly defined in order to get reliable results. Readers who intend to learn more about the specific techniques of the simulations are referred to Refs. [27-29]. 

In the systems with polystyrene derivatives VIII, IX and multi-armed cyclotriphosphazenes XI, XII the conductivity seems to be dependent on the relative concentrations of inter- and intra-molecular complexes (Table 17). 

It can also be mentioned that polyphosphazenes substituted with aromatic groups, such as phenols or naphthols, can form inter- and intra- molecular excimers by coupling reaction of the planar aromatic rings of the substituents under illumination [467-471,473,725]. These species disappear as soon as the light is switched off. 

The reaction occurs with technical material only, and, once formulated, the nitrosamine content is not altered as a function of time at ambient formulation temperatures. This intra-molecular rearrangement requires careful attenticn to conditions in the formulation of dinitroaniline herbicides. 

An anthocyanin occurs in solution as a mixture of different secondary structures, a quinonoidal base, a carbinol pseudobase, and a chalcone pseudobase. ° hi addition, different mechanisms for the stabilization of anthocyanins lead to the formation of tertiary structures such as self-association, inter-, and intra-molecular co-pigmentation. ... 

Calculations of inter-residue oxygens distances were also made and, suprisingly, these indicated that none of the low-energy confomeres possessed strong intra-molecular hydogen bonds of the type commonly found in other oligosaccharide and polysaccharide systems (Table... 

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