GONUTS has been updated to MW1.31 Most things seem to be working but be sure to report problems.
PMID:19111667
| Citation |
Badis, G, Chan, ET, van Bakel, H, Pena-Castillo, L, Tillo, D, Tsui, K, Carlson, CD, Gossett, AJ, Hasinoff, MJ, Warren, CL, Gebbia, M, Talukder, S, Yang, A, Mnaimneh, S, Terterov, D, Coburn, D, Li Yeo, A, Yeo, ZX, Clarke, ND, Lieb, JD, Ansari, AZ, Nislow, C and Hughes, TR (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol. Cell 32:878-87 |
|---|---|
| Abstract |
The sequence specificity of DNA-binding proteins is the primary mechanism by which the cell recognizes genomic features. Here, we describe systematic determination of yeast transcription factor DNA-binding specificities. We obtained binding specificities for 112 DNA-binding proteins representing 19 distinct structural classes. One-third of the binding specificities have not been previously reported. Several binding sequences have striking genomic distributions relative to transcription start sites, supporting their biological relevance and suggesting a role in promoter architecture. Among these are Rsc3 binding sequences, containing the core CGCG, which are found preferentially approximately 100 bp upstream of transcription start sites. Mutation of RSC3 results in a dramatic increase in nucleosome occupancy in hundreds of proximal promoters containing a Rsc3 binding element, but has little impact on promoters lacking Rsc3 binding sequences, indicating that Rsc3 plays a broad role in targeting nucleosome exclusion at yeast promoters. |
| Links |
PubMed PMC2743730 Online version:10.1016/j.molcel.2008.11.020 |
| Keywords |
Base Sequence; Binding Sites; DNA-Binding Proteins/metabolism; Genes, Fungal; Molecular Sequence Data; Mutation/genetics; Nucleosomes/metabolism; Phylogeny; Promoter Regions, Genetic; Reproducibility of Results; Saccharomyces cerevisiae/genetics; Saccharomyces cerevisiae Proteins/metabolism; Sequence Homology, Amino Acid; Transcription Factors/genetics; Transcription Factors/metabolism |
| edit table |
Significance
Annotations
| Gene product | Qualifier | GO ID | GO term name | Evidence Code | with/from | Aspect | Notes | Status |
|---|---|---|---|---|---|---|---|---|
| edit table |
See also
References
See Help:References for how to manage references in GONUTS.
