ArticleNucleic acids research1997
Identification of preferred hTBP DNA binding sites by the combinatorial method REPSA.
Article in Nucleic acids research, 1997. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Identification and characterization of preferred DNA-binding sites for the Thermus thermophilus transcriptional regulator FadR.PloS one · 2017Article
- Article
- Secondary binding sites for heavily modified triplex forming oligonucleotides.Nucleic acids research · 2012Article
- Embryonic neural inducing factor churchill is not a DNA-binding zinc finger protein: solution structure reveals a solvent-exposed beta-sheet and zinc binuclear cluster.Journal of molecular biology · 2007Article
- Immediate-early and delayed primary response genes are distinct in function and genomic architecture.The Journal of biological chemistry · 2007Article
- Glycogen synthase kinase-3 represses cyclic AMP response element-binding protein (CREB)-targeted immediate early genes in quiescent cells.The Journal of biological chemistry · 2007Article
- A novel assay to determine the sequence preference and affinity of DNA minor groove binding compounds.Nucleic acids research · 2004Article
- SELEX_DB: a database on in vitro selected oligomers adapted for recognizing natural sites and for analyzing both SNPs and site-directed mutagenesis data.Nucleic acids research · 2002Article
- SELEX_DB: an activated database on selected randomized DNA/RNA sequences addressed to genomic sequence annotation.Nucleic acids research · 2000Article
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3 authors.
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Abstract
Here we describe the application of a novel combinatorial method, restriction endonuclease protection selection and amplification (REPSA), to identification of a consensus DNA binding site for the TATA binding subunit (hTBP) of the human general transcription factor TFIID. Unlike most combinatorial methods, REPSA is based on inhibition of an enzymatic template inactivation process by specific ligand-DNA complexes. The mild conditions of this method allow examination of proteins with atypical binding characteristics (e.g. limited discrimination between specific and non-specific binding sites), such as those found with hTBP. Analysis of 57 emergent sequences identified 47 sequences containing consensus 6 bp TATA elements as previously defined. However, further examination of these sequences indicated that a larger consensus, 5'-TATAAATA-3', could be supported by the data. Studies of the binding affinities and transcriptional activities of these four consensus TATA sequences demonstrated that hTBP binding affinity correlated directly with transcriptional activity in vitro and that the TATAAATA sequence was the best among the TATA sequences investigated.
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