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Although the exact mechanistic details of how distant binding is transmitted through the protein are not revealed by these data, the ability of GNF-5 to inhibit kinase activity on its own in both wild-type and T315I Abl (Fig. 1) must be related to these changes in protein dynamics and point to an allosteric mechanism by which GNF-5 binding is communicated to the ATP site.
Changes in protein dynamics were evaluated by the crystallographic B-factor of Cα atoms.
Changes in protein dynamics, as reflected by HDX, reflect changes to the protein induced by reduction.
Our results also indicate that the allostery of CBS is not associated with extensive conformational conversion but rather with changes in protein dynamics.
Attention has recently focused on allosteric effects that are mediated by changes in protein dynamics, as well as changes in protein structure.
To analyze how changes in protein dynamics are coupled to and correlated with structural changes upon ligand binding, we compared the internal dynamics of wild-type (WT) HbI with those of the F97Y HbI mutant.
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In some cases, rather than a direct steric effect, mutual modulation of ligand binding at spatially separated sites may be achieved through a change in protein dynamics.
This study was followed by thermodynamic experiments indicating that TCRs recognize a ligand with unfavourable entropy and large negative heat-capacity changes [ 20, 21], both consistent with a reduction in protein dynamics or conformational changes occurring upon binding [ 22].
In the present study, we attempted to elucidate localized changes in GGCX protein dynamics of potential catalytic domains over a continuous deuterium-labeling experiment as a means to study structural changes that occur in GGCX upon the binding of propeptide.
Here, more substantial sequence changes are observed which trigger some changes in protein disorder (dynamics) profiles.
Recent studies are revealing how elaborate ER structures arise in response to subtle changes in protein levels, dynamics, and interactions as well as in response to alterations in cytosolic ion concentrations.
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