ArticleJournal of molecular biology2015
Acidic Residues in the Hfq Chaperone Increase the Selectivity of sRNA Binding and Annealing.
Article in Journal of molecular biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Dual Role of Small Noncoding RNA and Hfq in Bacterial DNA Compaction: A New Perspective on Nucleoid Architecture.ACS omega · 2026Article
- RNA-RNA interactome approaches provide in vivo evidence for a critical role of the Hfq rim face in sRNA-mRNA pairing.Nucleic acids research · 2025Article
- An RNA sponge directs the transition from feast to famine in Caulobacter crescentus.Nature communications · 2025Article
- Competition between Nucleic Acids and Intrinsically Disordered Regions within Proteins.Accounts of chemical research · 2025Article
- What makes a small RNA work?Nucleic acids research · 2025Review
- Bacterial Regulatory Circuits are Linked and Extended by Small RNAs.Journal of molecular biology · 2025Review
- The role of ribosomal protein networks in ribosome dynamics.Nucleic acids research · 2025Article
- An internal loop region is responsible for inherent target specificity of bacterial cold-shock proteins.RNA (New York, N.Y.) · 2024Article
- Multiple in vivo roles for the C-terminal domain of the RNA chaperone Hfq.Nucleic acids research · 2022Article
- Scanning mutagenesis of RNA-binding protein ProQ reveals a quality control role for the Lon protease.RNA (New York, N.Y.) · 2021Article
- The RNA-binding protein Hfq assembles into foci-like structures in nitrogen starvedThe Journal of biological chemistry · 2020Article
- Trans-Acting Small RNAs and Their Effects on Gene Expression inEcoSal Plus · 2020Review
- Quantitative Analysis of RNA Chaperone Activity by Native Gel Electrophoresis and Fluorescence Spectroscopy.Methods in molecular biology (Clifton, N.J.) · 2020Article
- Mechanisms for Hfq-Independent Activation ofMolecules and cells · 2019Article
- Hfq chaperone brings speed dating to bacterial sRNA.Wiley interdisciplinary reviews. RNA · 2018Review
- In vivo characterization of an Hfq protein encoded by the Bacillus anthracis virulence plasmid pXO1.BMC microbiology · 2017Article
- C-terminal domain of the RNA chaperone Hfq drives sRNA competition and release of target RNA.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Hfq assists small RNAs in binding to the coding sequence of ompD mRNA and in rearranging its structure.RNA (New York, N.Y.) · 2016Article
- Arginine Patch Predicts the RNA Annealing Activity of Hfq from Gram-Negative and Gram-Positive Bacteria.Journal of molecular biology · 2016Article
- Hfq: the flexible RNA matchmaker.Current opinion in microbiology · 2016Review
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Hfq facilitates gene regulation by small non-coding RNAs (sRNAs), thereby affecting bacterial attributes such as biofilm formation and virulence. Escherichia coli Hfq recognizes specific U-rich and AAN motifs in sRNAs and target mRNAs, after which an arginine patch on the rim promotes base pairing between their complementary sequences. In the cell, Hfq must discriminate between many similar RNAs. Here, we report that acidic amino acids lining the sRNA binding channel between the inner pore and rim of the Hfq hexamer contribute to the selectivity of Hfq's chaperone activity. RNase footprinting, in vitro binding and stopped-flow fluorescence annealing assays showed that alanine substitution of D9, E18 or E37 strengthened RNA interactions with the rim of Hfq and increased annealing of non-specific or U-tailed RNA oligomers. Although the mutants were less able than wild-type Hfq to anneal sRNAs with wild-type rpoS mRNA, the D9A mutation bypassed recruitment of Hfq to an (AAN)4 motif in rpoS, both in vitro and in vivo. These results suggest that acidic residues normally modulate access of RNAs to the arginine patch. We propose that this selectivity limits indiscriminate target selection by E. coli Hfq and enforces binding modes that favor genuine sRNA and mRNA pairs.
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