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We suggest that the D1 agonists bind deeper in the binding site, which may be a consequence of interactions with Ser1073.36.
Molecular modeling study was used to predict the optimal conformation in the NNRTI binding site, which may play a guiding role in further rational optimization.
Simulations also revealed different unbinding pathways between the two receptor subtypes, enabling identification of a number of interactions at locations far from the orthosteric binding site which may explain the difference in [ϒ4E]GID potency.
This suggests that regions that are distinct in the two crystal structures of MVt and Vt harbor the PIP2 binding site, which may explain the impaired binding of PIP2 to MVt [22].
Some transcription factors, however, can modify the chromatin landscape around their binding site, which may recruit new transcription factors and chromatin-modifying factors to the region [ 1, 4].
This suggests that two different transport mechanisms operate from the same binding site, which may account for the wide variety of molecules that can be transported.
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Overall, we provide a deep comprehension of protein-GQDs interaction through identification and characterization of the key binding sites, which may pave the way for a better guidance on safe design and development of potential applications using graphene nanomaterials.
However, contrary to the case of pRA2, we were unable to identify, close to this ORF, or elsewhere in the plasmid, iterons or DnaA binding sites, which may have indicated the presence of an origin of replication.
They offer more binding sites, which may result to greater DF values.
Furthermore, no existing model incorporates information about the co-localization of TF binding sites, which may help reduce the number of non-relevant TF predictors in the model.
Genotypic variations at SNP positions bring new possible binding sites, which may introduce novel modes of gene regulation, altering gene expression and thereby impacting disease progression.
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