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Using a binding site selection screen we identify a high-affinity consensus CaRF response element (cCaRE) that shares significant homology with the CaRE1 element of Bdnf.
We specified the ligand placement in the active site using a binding site sphere of radius 10 Å in the conformer simulation for each ligand.
To investigate this further we analyzed the expression of E-proteins by EMSA using a binding site from the mouse Immunoglobulin heavy chain intron enhancer as probe.
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Our structural analysis suggests that TCL1A uses a binding site roughly opposite to its dimerisation site to interact with the first one or two ankyrin repeats of IκB_ank.
The same procedure was used for IT4var20 reactive sera using a binding-site peptide from IT4var20 (IgG pool B).
The long axes of the helices and the β-hairpin are perpendicular, which forms a pocket that is used as a binding site.
Therefore, we integrated the heat measurements using a single binding site model, confirming that P. pastoris-produced Ecp6 binds chitin with 1 1 stoichiometry and a dissociation constant (kd) of 4.5 µM.
Cntn4, -5, and -6 interact with protein tyrosine phosphatase receptor gamma (Ptptg) using a shared binding site that spans their second and third Ig repeats.
Data were analyzed using a single binding site model with the ORIGIN software package supplied by MicroCal.
For example, another method of regulation in S. cerevisiae includes α-IPMS inactivation by CoA using a second binding site whose availability depends on the concentration of zinc and other divalent metal ions [13].
Theoretical fits to the experimental data were again obtained using a single binding site model.
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