Sentence examples for binding pocket is not from inspiring English sources
The positively charged binding pocket is not big enough for ANP binding.
The negatively charged binding pocket is not big enough for ATP (Fig. 2B).
If the compounds of a data set are structurally too similar, the finding of entirely different scaffolds for the same binding pocket is not to be expected.
The discovery of imidazole in the binding pocket is not surprising as imidazole, which is used in QacR affinity purification and aids in its solubility, is an aromatic cation mimic and thus similar to most of the known QacR ligands.
This fourth site can be classified as a cryptic site because the binding pocket is not apparent in the apo structure at either room- or cryogenic temperature.
The binding pocket is not in very close contact with the dimerization interface and only a few side chains project into the joint neighborhood.
Although the native ligand binding pocket was not or not fully open in the unbound crystal structure, PocketScanner and PocketBuilder successfully generated conformations with pockets into which the known inhibitors could be docked in orientations similar to those seen in the inhibitor bound crystal structures.
The similarity between the drug affinities of the mutant and wt QacR proteins for all of the drugs tested here points towards the conclusion that at least for QacR, individual electrostatic interactions between a drug and a proximal "neutralizing" glutamate in the binding pocket are not major contributors to binding affinity.
The latter descriptor characterizes hydrophobic properties of amino acid and its emergence in the context of the hydrophobic dNTP-binding pocket is not surprising.
In such an open conformation, the switch loops of the nucleotide-binding pocket are not close enough to form a salt bridge, thought to be required for nucleotide cleavage (Furch et al, 1999).
