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In-gel probing may therefore be a more accurate way to structurally examine RNAs that form only one native, physiologically relevant structure, as well as to examine structural switches.
Coupling small, local structural switches to large conformational changes is reminiscent of certain steps in virus assembly.
In some virus capsids, subtle changes in the contacts are supplemented by structural switches that mediate the change from hexameric to pentameric assembly (Johnson and Speir, 1997).
These experiments highlight not only the use of SHAPE in detecting the presence of structural switches, but also the usefulness of probing with other conventional enzymes and chemicals, alongside SHAPE reagents.
Co-transcriptional folding has been shown to dynamically induce structural rearrangements in the mRNA being transcribed and is particularly important for structural switches such as riboswitches, ribozymes, and leader peptide attenuators [ 125].
In addition, the differing side-chain orientations of Y91 (loop A) and W53 (loop D) are consistent with their role as structural switches in other pLGIC family members [ 19]. 5-HT3R are critical for fast synaptic excitation in the mammalian brain and are the target for clinically important anti-emetics such as granisetron.
Similar(53)
Evidence for a structural switch comes from the structure of the E256Q +Put), which shows conformational changes in Glu11, Lys80, Ser229, and His243.
Intermediate reactivity can also result from the presence of a structural switch: in some cases, two or more stable structures can be present, with the differences in base pairing between them leading to differences in reactivity of certain nucleotides [ 16].
We employ structural switch of molecular beacons (MB) in combination with base stacking hybridization (BSH) phenomenon.
The development of novel models involving mechanistically based structural switching methods is proposed in the paper.
Recent studies indicate that such allostery reflects a structural switch between distinct folding‐competent and active conformations.
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