ArticleProceedings of the National Academy of Sciences of the United States of America2011
Structural basis for recognition of AT-rich DNA by unrelated xenogeneic silencing proteins.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 140 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
140 citing papers in PubMed, 248 citations in OpenAlex.
- Perturbing H-NS function reveals roles in restricting virulence heterogeneity and pathogen adaptation.PLoS pathogens · 2026Article
- Selective targeting of a histone-like silencer Sfx to the R6K conjugal transfer operon.Nucleic acids research · 2026Article
- From Environmental Persistence to Host Adaptation: Differential Curli Regulation inMicroorganisms · 2026Review
- Temperature-dependent dynamics of DNA methylation and plasmid copy number in Yersinia pestis.BMC genomics · 2026Article
- Structural characterization of the native oligomerization mode of MvaT proteins inMicrobiology spectrum · 2026Article
- Selective targeting of a histone-like silencer Sfx to the R6K conjugal transfer operon.bioRxiv : the preprint server for biology · 2026Article
- Molecular Kaleidoscope of Nucleoid-Associated Proteins Regulatory Network and Chromosome Architecture in Mycobacterium Tuberculosis.Current microbiology · 2026Review
- Sequence-dependent co-condensation of Lsr2 with DNA elucidates the mechanism of genome compaction in Mycobacterium tuberculosis.Nucleic acids research · 2026Article
- Perturbing H-NS function reveals roles in restricting virulence heterogeneity and pathogen adaptation.bioRxiv : the preprint server for biology · 2026Article
- Genome-wide DNA bridging by H-NS reshapes the stationary phase nucleoid and transcriptional landscape.bioRxiv : the preprint server for biology · 2025Article
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- Adaptation of DNA to Protein Binding Revealed by Spectroscopy and Molecular Simulation.The journal of physical chemistry. B · 2025Article
- c-di-GMP does not bind H-NS, nor inhibits H-NS binding DNA.Nature communications · 2025Article
- Reply to: "c-di-GMP does not bind H-NS, nor inhibits H-NS binding DNA".Nature communications · 2025Article
- Artificial Intelligence-Enhanced Analysis of Genomic DNA Visualized with Nanoparticle-Tagged Peptides under Electron Microscopy.Small (Weinheim an der Bergstrasse, Germany) · 2025Article
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- Rok from B. subtilis: Bridging genome structure and transcription regulation.Molecular microbiology · 2025Review
- SMC translocation is unaffected by an excess of nucleoid associated proteins in vivo.Scientific reports · 2025Article
80 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 2 institutions in 2 countries.
Funding
Abstract
H-NS and Lsr2 are nucleoid-associated proteins from Gram-negative bacteria and Mycobacteria, respectively, that play an important role in the silencing of horizontally acquired foreign DNA that is more AT-rich than the resident genome. Despite the fact that Lsr2 and H-NS proteins are dissimilar in sequence and structure, they serve apparently similar functions and can functionally complement one another. The mechanism by which these xenogeneic silencers selectively target AT-rich DNA has been enigmatic. We performed high-resolution protein binding microarray analysis to simultaneously assess the binding preference of H-NS and Lsr2 for all possible 8-base sequences. Concurrently, we performed a detailed structure-function relationship analysis of their C-terminal DNA binding domains by NMR. Unexpectedly, we found that H-NS and Lsr2 use a common DNA binding mechanism where a short loop containing a "Q/RGR" motif selectively interacts with the DNA minor groove, where the highest affinity is for AT-rich sequences that lack A-tracts. Mutations of the Q/RGR motif abolished DNA binding activity. Netropsin, a DNA minor groove-binding molecule effectively outcompeted H-NS and Lsr2 for binding to AT-rich sequences. These results provide a unified molecular mechanism to explain findings related to xenogeneic silencing proteins, including their lack of apparent sequence specificity but preference for AT-rich sequences. Our findings also suggest that structural information contained within the DNA minor groove is deciphered by xenogeneic silencing proteins to distinguish genetic material that is self from nonself.
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Registered trials
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.