ArticleBiochemistry2012
Single-molecule fluorescence resonance energy transfer shows uniformity in TATA binding protein-induced DNA bending and heterogeneity in bending kinetics.
Article in Biochemistry, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 34 citations in OpenAlex.
- Genomic and structural insights into TATA-Binding protein from cestodes.Transcription · 2026Article
- On the Role of TATA Boxes and TATA-Binding Protein inPlants (Basel, Switzerland) · 2023Review
- Regulatory Mechanisms for Transcriptional Bursting Revealed by an Event-Based Model.Research (Washington, D.C.) · 2023Article
- DNA origami-based single-molecule force spectroscopy elucidates RNA Polymerase III pre-initiation complex stability.Nature communications · 2020Article
- Fluorescence-Detected Conformational Changes in Duplex DNA in Open Complex Formation byBiochemistry · 2020Article
- Two-step interrogation then recognition of DNA binding site by Integration Host Factor: an architectural DNA-bending protein.Nucleic acids research · 2018Article
- Same same but different: The evolution of TBP in archaea and their eukaryotic offspring.Transcription · 2017Article
- The HMGB1 C-Terminal Tail Regulates DNA Bending.Journal of molecular biology · 2016Article
- Rapid dynamics of general transcription factor TFIIB binding during preinitiation complex assembly revealed by single-molecule analysis.Genes & development · 2016Article
- Single molecule microscopy reveals mechanistic insight into RNA polymerase II preinitiation complex assembly and transcriptional activity.Nucleic acids research · 2016Article
- Affinity and competition for TBP are molecular determinants of gene expression noise.Nature communications · 2016Article
- Structural basis of transcription initiation by RNA polymerase II.Nature reviews. Molecular cell biology · 2015Review
- Analysis of structural flexibility of damaged DNA using thiol-tethered oligonucleotide duplexes.PloS one · 2015Article
- Mutations on the DNA binding surface of TBP discriminate between yeast TATA and TATA-less gene transcription.Molecular and cellular biology · 2014Article
- The conformational state of the nucleosome entry-exit site modulates TATA box-specific TBP binding.Nucleic acids research · 2014Article
- Eukaryotic and archaeal TBP and TFB/TF(II)B follow different promoter DNA bending pathways.Nucleic acids research · 2014Article
- The RNA polymerase II preinitiation complex. Through what pathway is the complex assembled?Transcription · 2014Review
- Single molecule studies of RNA polymerase II transcription in vitro.Transcription · 2014Review
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
TATA binding protein (TBP) is a key component of the eukaryotic RNA polymerase II transcription machinery that binds to TATA boxes located in the core promoter regions of many genes. Structural and biochemical studies have shown that when TBP binds DNA, it sharply bends the DNA. We used single-molecule fluorescence resonance energy transfer (smFRET) to study DNA bending by human TBP on consensus and mutant TATA boxes in the absence and presence of TFIIA. We found that the state of the bent DNA within populations of TBP-DNA complexes is homogeneous; partially bent intermediates were not observed. In contrast to the results of previous ensemble studies, TBP was found to bend a mutant TATA box to the same extent as the consensus TATA box. Moreover, in the presence of TFIIA, the extent of DNA bending was not significantly changed, although TFIIA did increase the fraction of DNA molecules bound by TBP. Analysis of the kinetics of DNA bending and unbending revealed that on the consensus TATA box two kinetically distinct populations of TBP-DNA complexes exist; however, the bent state of the DNA is the same in the two populations. Our smFRET studies reveal that human TBP bends DNA in a largely uniform manner under a variety of different conditions, which was unexpected given previous ensemble biochemical studies. Our new observations led to us to revise the model for the mechanism of DNA binding by TBP and for how DNA bending is affected by TATA sequence and TFIIA.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.