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However, the reason why a particular mutation, or combination of mutations, stabilizes the receptor is not always evident from a static crystal structure.
However, the unexpected selectivity of this probe toward Lck suggests that subtle factors, which are difficult to predict based on static crystal structures, play important roles in probe recognition.
In this study, two complementary structural mass spectrometry methods, hydroxyl radical-mediated footprinting and hydrogen/deuterium (H/D) exchange, were employed to highlight differences between the static crystal structure and the dynamic conformation of human serpin protein, α1-antitrypsin (α1AT).
The results presented provide a plausible explanation for the molecular basis of agonicity and antagonicity in the androgen receptor, and complement previous studies using static crystal structures, incorporating for the first time protein dynamics into the analysis.
These data suggest that, contrary to the conclusions derived from analysis of the static crystal structures, the transition state for farnesylation is stabilized by interactions between the alpha-phosphate of the isoprenoid substrate and the side chains of Y300beta and H248beta.
A static crystal cannot unveil the dynamic biology of protein as complex as bacterioferritin, that has evolved under strong structural constraints to accomplish functional needs which vary with the complexity of the organism.
Similar(38)
This variation in ΔSASA is likely partly due to the crude method used in converting Δ C p to ΔSASA but may also indicate a conformational change in ASB9 EloBC and/or Cul5NTD that is not accounted for by the static crystal-structure-based model.
Small-angle X-ray scattering profiles calculated from computed ensemble averages agree better with experimental results than profiles calculated from static X-ray crystal structures.
Previous work has revealed much about the conformations of purine riboswitches in addition to their static X-ray crystal structures (10, 11).
The other limitation of this approach is that proteins can undergo dramatic conformational changes during their interactions with other proteins, which is not reflected in the crystal (static) structure of proteins.
One is that the main claim is that Spy becomes more active when it is more flexible/unfolded yet the modeling is done with static WT Spy crystal structures.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com