The architecture of binding cooperativity between densely bound transcription factors
The binding of transcription factors (TFs) along genomes is restricted to a subset of sites
containing their preferred motifs. TF-binding specificity is often attributed to the co-binding of …
containing their preferred motifs. TF-binding specificity is often attributed to the co-binding of …
Mechanistic insights into transcription factor cooperativity and its impact on protein-phenotype interactions
Recent high-throughput transcription factor (TF) binding assays revealed that TF
cooperativity is a widespread phenomenon. However, a global mechanistic and functional …
cooperativity is a widespread phenomenon. However, a global mechanistic and functional …
Competition for DNA binding between paralogous transcription factors determines their genomic occupancy and regulatory functions
Most eukaryotic transcription factors (TFs) are part of large protein families, with members of
the same family (ie, paralogous TFs) recognizing similar DNA-binding motifs but performing …
the same family (ie, paralogous TFs) recognizing similar DNA-binding motifs but performing …
Low-affinity binding sites and the transcription factor specificity paradox in eukaryotes
JF Kribelbauer, C Rastogi… - Annual review of cell …, 2019 - annualreviews.org
Eukaryotic transcription factors (TFs) from the same structural family tend to bind similar DNA
sequences, despite the ability of these TFs to execute distinct functions in vivo. The cell …
sequences, despite the ability of these TFs to execute distinct functions in vivo. The cell …
Unraveling determinants of transcription factor binding outside the core binding site
Binding of transcription factors (TFs) to regulatory sequences is a pivotal step in the control
of gene expression. Despite many advances in the characterization of sequence motifs …
of gene expression. Despite many advances in the characterization of sequence motifs …
Evolution of transcription factor binding through sequence variations and turnover of binding sites
Variations in noncoding regulatory sequences play a central role in evolution. Interpreting
such variations, however, remains difficult even in the context of defined attributes such as …
such variations, however, remains difficult even in the context of defined attributes such as …
[HTML][HTML] Structural perspective of cooperative transcription factor binding
E Morgunova, J Taipale - Current opinion in structural biology, 2017 - Elsevier
Highlights•Transcription factors can cooperate with each other via multiple mechanisms that
have different specificities and ranges.•Cooperativity can result from direct protein–protein …
have different specificities and ranges.•Cooperativity can result from direct protein–protein …
Complementary strategies for directing in vivo transcription factor binding through DNA binding domains and intrinsically disordered regions
DNA binding domains (DBDs) of transcription factors (TFs) recognize DNA sequence motifs
that are highly abundant in genomes. Within cells, TFs bind a subset of motif-containing sites …
that are highly abundant in genomes. Within cells, TFs bind a subset of motif-containing sites …
Paired yeast one-hybrid assays to detect DNA-binding cooperativity and antagonism across transcription factors
Cooperativity and antagonism between transcription factors (TFs) can drastically modify their
binding to regulatory DNA elements. While mapping these relationships between TFs is …
binding to regulatory DNA elements. While mapping these relationships between TFs is …
Functional redundancy of transcription factors explains why most binding targets of a transcription factor are not affected when the transcription factor is knocked out
WS Wu, FJ Lai - BMC systems biology, 2015 - Springer
Background Biologists are puzzled by the extremely low percentage (3%) of the binding
targets of a yeast transcription factor (TF) affected when the TF is knocked out, a …
targets of a yeast transcription factor (TF) affected when the TF is knocked out, a …