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The K30A point mutation within the TPR domain of CHIP that blocks CHIP binding to Hsp90 [37] also blocks binding of the isolated TPR domain to the N-terminus of LRRK2 (Supplemental Figure S2C, D).
The F32E mutation blocked the binding of the isolated PRH N-terminal domain to TLE in pulldown experiments.
No binding of the isolated Ubl domain to L266K R0RBR could be observed by ITC or NMR (Fig 2A and B).
To determine whether 53BP1 shared this property, we measured the binding of the isolated 53BP1-BRCT2 segmentoto a fluorescently labeled phosphopeptide (fluorescein-SGGKKATQApSQEY) corresponding to the last 13 residues of human γH2AX, by fluorescence polarization (see Experimental Procedures).
We thank the reviewers for pointing out the potential contradiction between the results presented Figures 7C and 8G. Figure 8G is a ligand affinity chromatography assay demonstrating that cyclopamine can indeed inhibit binding of the isolated Smo CRD-Fc to 20(S -OHC beadS -OHC
A speculative but intriguing insight into the interaction between the CRD and 7TM domains comes from our unexpected finding that the Hh inhibitor cyclopamine, an established 7TM ligand, also inhibits the binding of the isolated CRD to 20(S -OHC beadS -OHC
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Observation of [H]Ry binding to the isolated sarcoplasmic reticulum preparation was performed in the presence of 1 nM [H]Ry and 10 μM Ca2+.
The fluorescence of these tryptophan residues could change upon ligand binding to the isolated C-terminal region of EAG1 channel, as observed in HCN2 channels with cyclic nucleotides.
In addition, the structural context of a binding epitope (e.g. embedded in globular domain or flexible region) can affect the binding characteristics of the isolated peptide.
Since the approach of binding studies of the isolated, epitope-labelled domains to suspended cells is very artificial we further characterized and compared binding of the full length and truncated TcdA to cell surfaces of intact cells.
This docking study helps us in understanding the binding mode of the isolated compounds with the target proteins.
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