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Indeed, gel shift assay experiments show that the environment of the GCC box greatly impacts the affinity of ERF proteins to the conserved cis-element.
Given the previously demonstrated relationship between the surface charge density and solution substrate interfacial energy, these results indicate that the variation in interfacial energy observed here is due to the differences in protein surface charge density, which impacts the affinity of the substrates for the aqueous solution (i.e., the hydrophilicity).
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In Noxa-deficient mice, these cells are allowed to survive and impact the affinity of T and B cell responses [ 14– 16, 34].
Further assessment of the effects of enhancer risk variants has shown that they can alter transcription-factor-binding sites (TFBSs) and impact the affinity of transcription factors for chromatin, and/or induce allele-specific effects on target gene expression [ 6, 27- 40].
Moreover, the introduction of a chlorine atom or atoms into the phenyl ring significantly impacted the affinity for 5-HT1A and 5-HT7Rs.
These differences would be expected to impact the affinity and specificity of ligand binding.
Despite it, both gefinitib and erlotinib cannot be used to treat all lung cancer patients harbouring EGFR mutations due to mutation site heterogeneity which negatively impacts on the affinity of EGFR inhibitors to the mutated EGFR and consequently of the efficacy of the treatment.
The E295K fingers domain variant serves as a viable model because the binary complex of the variant bound to DNA is isomorphous with that of the WT and the mutation does not negatively impact the binding affinity of the enzyme for DNA or the conformation of the templating base in the binary complex.
Hence, the hypothesis that the nucleotide environment of the GCC box may impact the binding affinity of the ERFs was tested.
The same study also postulated that variation in amino acid composition within the binding domain may also impact the binding affinity of ERFs to their target promoters [ 17].
Using a saturation binding protocol, we found that MTα suppressed the maximum binding without any greater impact on the affinity of the radioligand, indicating a non-competitive mode of inhibition.
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