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Testing the binding specificity of individual clones from these populations would require large quantities of biological samples, which generally are available only in limited quantities, and would survey only a minor part of the population.
In this study, we have investigated the H3 tail binding specificity of individual subunits of NURD complex and present the evidence that the MTA family proteins are novel histone H3 binding proteins.
Eukaryotic TFs tolerate considerable sequence variation in their target sites and recent works in bioinformatics [ 17- 19] have developed reliable methods to model the DNA binding specificity of individual TFs [ 20].
Eukaryotic TFs tolerate considerable sequence variation in their target sites and recent bioinformatics works [ 11- 13] have developed methods to model the DNA binding specificity of individual TFs [ 10].
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Although information on the binding specificities of individual domains may be available, it does not necessary reflect the specificity of the domains in the context of the full-length proteins.
Such disparate effects are due to differences in stimuli, NF κB composition, cell type and distinct κB binding specificities of individual complexes resulting in diverse target gene specificity (Epinat and Gilmore, 1999).
We show that for both yeast and human bHLH TFs, our regression models can distinguish the binding specificities of individual family members, although their PWMs (Fig. 1) are highly similar.
A functional role for oligomerisation is easy to rationalize: it combines the DNA-binding specificity of individual monomeric domains, leading to a substantial increase in binding affinity.
To investigate DNA-binding specificities of individual FruM isoforms, we identified cis-regulatory motifs enriched in our DamID-FruM genomic occupancy data.
Lambert, N. et al. RNA Bind-n-Seq: quantitative assessment of the sequence and structural binding specificity of RNA binding proteins.
MOTIVATION: The DNA binding specificity of a transcription factor (TF) is typically represented using a position weight matrix model, which implicitly assumes that individual bases in a TF binding site contribute independently to the binding affinity, an assumption that does not always hold.
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