PMID:19111667

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 Online version:10.1016/j.molcel.2008.11.020

Significance

Annotations

Gene product	Qualifier	GO ID	GO term name	Evidence Code	with/from	Aspect	Notes	Status
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References

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