ArticleNucleic acids research2010
The protein-DNA contacts in RutR•carAB operator complexes.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Identification and characterization of the TetR family transcriptional regulator NffT inApplied and environmental microbiology · 2024Article
- Bacteria employ lysine acetylation of transcriptional regulators to adapt gene expression to cellular metabolism.Nature communications · 2024Article
- An archaeal histone-like protein regulates gene expression in response to salt stress.Nucleic acids research · 2021Article
- DNA-Binding and Transcription Activation by Unphosphorylated Response Regulator AgrR FromFrontiers in microbiology · 2020Article
- Isolation and identification of a TetR family protein that regulates the biodesulfurization operon.AMB Express · 2019Article
- Diversity, versatility and complexity of bacterial gene regulation mechanisms: opportunities and drawbacks for applications in synthetic biology.FEMS microbiology reviews · 2019Review
- Regulation of carbamoylphosphate synthesis in Escherichia coli: an amazing metabolite at the crossroad of arginine and pyrimidine biosynthesis.Amino acids · 2018Review
- Ligand binding specificity of RutR, a member of the TetR family of transcription regulators in Escherichia coli.FEBS open bio · 2015Article
- The TetR family of regulators.Microbiology and molecular biology reviews : MMBR · 2013Review
- Crystallization and preliminary X-ray diffraction analysis of the TetR-family transcriptional repressor YhgD from Bacillus halodurans.Acta crystallographica. Section F, Structural biology and crystallization communications · 2013Article
- A MarR-Type regulator directly activates transcription from the Brucella abortus virB promoter by sharing a redundant role with HutC.Journal of bacteriology · 2012Article
- The pyrimidine nucleotide biosynthetic pathway modulates production of biofilm determinants in Escherichia coli.PloS one · 2012Article
- Escherichia coli dihydropyrimidine dehydrogenase is a novel NAD-dependent heterotetramer essential for the production of 5,6-dihydrouracil.Journal of bacteriology · 2011Article
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Authors and funding
4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Pyrimidine-specific regulation of the upstream carP1 promoter of the carbamoylphosphate synthase operon of Escherichia coli requires numerous trans-acting factors: the allosteric transcription regulator RutR, the nucleoid-associated protein integration host factor, and the trigger enzymes aminopeptidase A and PyrH (UMP-kinase). RutR, a TetR family member, binds far upstream of carP1. Here, we establish a high-resolution contact map of RutR•carP1 complexes for backbone and base-specific contacts, analyze DNA bending, determine the DNA sequence specificity of RutR binding by saturation mutagenesis, demonstrate that uracil but not thymine is the physiologically relevant ligand that inhibits the DNA binding capacity of RutR and build a model of the RutR·operator DNA complex based on the crystal structures of RutR and of the DNA-bound family member QacR. Finally, we test the validity of this model with site-directed mutagenesis of the helix-turn-helix DNA binding motif and in vitro binding studies with the cognate purified mutant RutR proteins.
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