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The associated binding pocket is highly lipophilic allowing the HBP2 and HBP2' residues to interact favorably with the hydrophobic portions of inhibitors.
The vast majority of reported inhibitors target the ATP binding site but because the ATP binding pocket is highly conserved among the human protein kinase, there can be cross-reactivity with a number of other kinases.
Although we have identified a number of inhibitors, one challenge has been that the pterin binding pocket is highly selective for the pterin substrate and pterin analogues, and our traditional screening and medicinal chemistry approaches have tended to yield pterin-like molecules with limited solubility.
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Although several residues in the arginine binding pocket are highly conserved among ArgRS, or even among many aaRS's, our mutational study showed that some residues may in fact be non-essential for achieving high binding affinity.
The crucial parts of DTD that form the binding pocket are highly conserved that is, they are the same in a wide variety of organisms, from bacteria to mammals.
While the majority of amino acid residues in the binding pocket were highly conserved, a clear divergence existed at two amino acid positions corresponding to S. cerevisiae residues Gln324 and Thr340 (Table 2).
The substrate-binding pocket is highly constrained.
The ATP-binding pocket is highly conserved among members of the kinase family, and it is difficult to find selective agents [ 7, 8].
Off-target activity is a common feature among kinase inhibitors, as most inhibitors are ATP-competitive compounds and the ATP-binding pocket is highly conserved among the human kinome.
In contrast, the well-conserved sites in the ligand-binding pockets are highly variable, which may result in diversification and different ligand specification.
While the ATP-binding pockets are highly conserved throughout the kinome, the allosteric sites have greater structural diversity, and compounds targeting these sites may inhibit kinase activity with a high selectivity [ 80].
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