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This analysis revealed that TF binding specificities are highly conserved between Drosophila and mammals, and that for orthologous TFs, the similarity extends even to the level of very subtle dinucleotide binding preferences.
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This fact suggests that DNA binding specificity is highly constrained by protein structure and is difficult to alter even over long evolutionary time scales.
The location and the primary sequence were conserved in almost all class D CID members (Fig. 8), which suggested that binding specificity is highly related in all members of the class.
Consistent with the importance of guanine nucleotide binding for septin function, our analysis showed that the G1 GTPase motif, which forms the loop that interacts with the phosphate group of the nucleotide, and the G4 motif, which is important for GTP-binding specificity, were highly conserved, with 154 of 162 (95%) septins matching the respective consensus sequences (see additional file 1).
First results regarding sensitivity and specificity are highly promising.
In spite of these promising potential applications, experimental information on peptide-MHC binding specificities is limited in coverage since class II MHC is highly polymorphic and the space of peptide sequences is enormous.
Details of binding specificity are provided in SI Figures S5 S7.
The presence of the highly conserved motif "EPN" and "WND" in the CTLD of PdC-Lectin argues in favour of the specificity for mannose binding in a Ca2+-dependent manner [ 53] and the molecular model obtained using the MODWEB server reveals that all residues involved in this binding specificity are located in similar predicted structures by comparison with the human DC-SIGNR CRD.
To address this issue, we designed variants of the Grb2 SH2 domain ("pY-clamps") whose specificity is highly biased toward a single phosphotyrosine (pY) motif among many potential pYXNX Grb2-binding sites.
Actin binding specificity was demonstrated by competitive binding experiments and comparative staining of well-known structures.
Similar binding specificity was shown for the parent antibody V5B2 [13].
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