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Acknowledging that similar binding sites should recognize similar ligands, a structure-based alternative to docking, is the 3-D comparison of protein-ligand binding sites [37].
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Sterical demand close to the phosphate binding sites should inhibit coordination to the nucleobases.
Adenine, with its two metal binding sites, should show the best affinity, whereas thymine, with no strong metal binding sites, should show little or no affinity.
Intuitively, constitutive binding sites should be biologically functional.
These binding sites should not be dismissed, but rather should be the focus of additional studies.
Its binding site should be well characterized.
Second, a potential functional site on a protein of interest is compared with known binding sites, to recognize similar features.
This family of DNA-binding proteins is characterized by the presence of one or two (Cys)4 metal binding sites which recognize the protein's eponymous binding site, GATA.
Thus it is possible that μ1 could have multiple cargo binding sites that recognize specific tyrosine sorting motifs.
The 110 different putative c-Myc binding sites were recognized partly by different matrices.
Ancestral binding sites as well as novel binding sites are recognized by the heterozygous population, which therefore experience no deleterious effects from mismatch binding, and at the same time benefit from improved binding with the novel variant.
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