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Using molecular dynamics simulations, it was shown that differences in ligands' binding affinities could be correlated to different behaviors and interactions during proton-transfer assembly of these ligands.
In this way, binding affinities could be estimated for compounds as weak as 30 mM.
Similar binding affinities could be observed when polyC15 or U15 RNA was used, indicating that the interaction of this region of ctPan3 with RNA is not polyA specific (Fig 4A).
While in vitro binding studies of transcription factors with differential binding affinities could be pursued, it has been well established that computational predictions of binding affinity are highly correlated with experimental measurements [ 56].
While it is likely that subnanomolar binding affinities could be measured using this approach, we suspect that weaker interactions may not be possible due to long transit times through the membrane.
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This approach resulted in the successful binding of these new collagen silk chimeric proteins to silk films and porous scaffolds, and the binding affinity could be controlled by varying the number of repeats in the silk sequence.
In case of HIV-1 non B or highly divergent HIV infection, non-B antibodies binding affinity could be limited, particularly during the seroconversion phase [30].
Our goal was to examine the extent to which a de novo evolved protein, originally selected on the basis of ligand binding affinity, could be evolved to remain stably folded in the absence of exogenous ligand.
The binding affinity could be affected by chemical or structural modifications that alter the global mAb properties rather than those only located on the Fc region.
This variation was particularly pronounced for the low affinity receptor variant FcγRIIIa-F158, where binding affinity could be raised over 100 fold for GnGn and AA carrying mAbs as compared to commercial Rituxan.
In addition, a change in the binding affinity could be caused by, for example, the presence of another histone modification at the same nucleosome, which could influence the stability of the interaction of the transferase with the nucleosome.
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