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Although carbohydrate-binding specificities were previously characterized for four HTCS systems, the DNA binding motifs recognized by HTCSs were not known before this work.
The leader sequence of post-translationally modified peptides typically contains specific binding motifs recognized by the modifying enzymes [ 11, 17, 18].
We also assessed the representation of binding motifs recognized by regulatory factor Sp1 in CGIs located in 5', 3' and internal gene regions, as well as out of any known genes.
Two optimal binding motifs recognized by 14 3 3 proteins have been identified: Arg Ser Xaa [pSer/pThr] Xaa Pro or Arg Xaa Xaa Xaa [pSer/pThr] Xaa Pro where Xaa denotes any amino acid.
In keeping with cell type-specificity of both enhancer signatures and expression of gene clusters, strong enhancers are particularly enriched for transcription factor (TF) binding motifs recognized by cell type-specific TFs.
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The DNA binding motif recognized by CSL was preserved in these complexes, and the site preferences were not detectably affected by Notch1 or MAML-1 loading.
With those nodes/genes coding TFs, we also associate a second sequence, uncorrelated with the first, representing the binding motif recognized by the TF.
The binding motif recognized by Ino4p was also identified in the promoter analysis.
Using the Popdc2 gene as an example, we also show that a significant proportion of target genes for NKX2-5 contain a binding motif recognized by NKX2-5, which overlaps with a binding site for MEIS1.
In contrast to other transcriptional networks, like the arg regulon [ 42], the SOS response has undergone extensive evolutionary changes in the binding motif recognized by the repressor protein LexA.
In addition to known validated OCT4 motifs we obtained binding sites similar to motifs recognized by further regulators of pluripotency and development; e.g. the heterodimer of the transcription factors C-MYC and MAX, a prerequisite for C-MYC transcriptional activity that leads to cell growth and proliferation.
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