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This lack of specific identification could be because the receptor binding site is comprised of residues that are not adjacent in the protein 3-D structure and several of the residues are not conserved [18].
In the dimeric conformation, each EGF binding site is comprised of only one EGFR subunit.
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The cGMP-binding site is comprised of three parts: the short P-helix together with conserved glutamate and arginine residues at the PBC which captures the sugar phosphate (Site 1); a key residue, Thr193 at the end of PBC that bridges the cyclic phosphate to the guanine ring (Site 2); and the β5-strand that provides a unique docking site for the guanine ring (Site 3).
The crystal structures of Rap1DBD DNA complexes show that the DNA-binding site is comprised of two half-sites of 5 bp that make contact with the two Myb-like domains, separated by a 3 bp linker.
CD4 receptor binding will expose the co-receptor binding site, which is comprised of various conserved regions including the fourth conserved region (C4).
However, ABCA1 also facililitates cholesterol transfer to artificial amphipathic helical peptides, even those comprised of D-amino acids [36]; if providing a binding site is the important function of ABCA1, there cannot be stereospecificity for the ligands bound.
Otherwise, this binding site is regarded as an incorrectly predicted binding site.
Since ten rare SNPs within the region between -4547 bp and -3489 bp, comprising a p53 binding site, were found at a higher frequency among the ten LLI relative to the Utah/CEPH population, we were interested to determine if the presence of these minor alleles affects the basal activity or p53 dependence of the p21 promoter.
Appearance of a negative charge among the residues comprising the secondary DNA-binding site is likely to inhibit dsDNA binding by the ionic repulsion between negatively charged phosphotyrosine (or pCMF) and DNA phosphodiester backbone, resulting in an unhindered path for ssDNA to bind in the primary ssDNA-binding site.
All binding site data for D. melanogaster and C. elegans contain only experimentally verified sites, E. coli K12 and S. cerevisiae contain both experimentally verified and predicted sites, and A. thaliana is comprised largely of predicted binding sites.
Since the antigen-binding site of the dromedary HCAb is comprised in one single domain, referred to as variable domain of heavy chain of HCAb (VHH) or nanobody (Nb), we designed a strategy to clone the Nb repertoire of an immunized dromedary and to select the Nbs with specificity for our target antigens.
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