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It is also suggested that TPI in the channel adopts a conformation which is similar to bulk TPI with β crystal modification.
The compound class features a core template that utilizes an intramolecular hydrogen bond to position the key structural elements of the pharmacophore in a conformation, which promotes a high binding affinity.
Very interestingly the active site of the enzyme adopts a conformation which is not completely open or closed and likely represents an intermediate stage in the catalytic cycle unlike its structural homologs, which all exist either in the open or closed conformation.
Only the N-terminal part of the β4β5-loop, i.e. residues Gly82 to Phe85 exhibits a conformation which is neither present in the NMR ensemble nor the BMP-2 bound form (Fig. 4C).
The bend in the plot occurs around 2.5 3.0 ns which is probably the location of the TS since it involves a conformation which is near native except for the breaking of the β1 β5 interaction as mentioned above.
In the full-length structure of REP-1, the elements of structure corresponding to the unresolved fragments of Rep-1 were generated in a conformation which has not been justified experimentally in order to show the possible location and structural role of these fragments in REP-1.
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The RNA·RNA duplexes occur in the A-form conformation, which is also the structure of LNA·DNA base pairs.
This accessibility was further increased upon activation of CD4+CD25− cells, an observation which suggested that CD4+CD25− cells harbour a chromatin conformation which allows acquisition of a regulatory phenotype upon activation.
Hence, a specific (i.e., gene-specific) binding event does not induce formation of a single conformation, which corresponds to a given functional outcome.
Taken together, these data revealed that the proapoptotic activity of WT BAK correlated with the conversion of an IASD-protected to a labeled conformation, which was promoted by interaction with BIM.
Amphipols may restrict large-scale movements of transmembrane helices, for example in the membrane arm of complex I, and lock the assembly in a unique conformation, which would be an advantage for single-particle cryo-EM studies.
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