ArticleNucleic acids research2007
Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 22 citations in OpenAlex.
- Article
- Fluorine NMR Spectroscopy Enables to Quantify the Affinity Between DNA and Proteins in Cell Lysate.Chembiochem : a European journal of chemical biology · 2021Article
- Review
- PredPSD: A Gradient Tree Boosting Approach for Single-Stranded and Double-Stranded DNA Binding Protein Prediction.Molecules (Basel, Switzerland) · 2019Article
- Analysis and prediction of single-stranded and double-stranded DNA binding proteins based on protein sequences.BMC bioinformatics · 2017Article
- Evidence for a cytoplasmic pool of ribosome-free mRNAs encoding inner membrane proteins in Escherichia coli.PloS one · 2017Article
- EDGAR 2.0: an enhanced software platform for comparative gene content analyses.Nucleic acids research · 2016Article
- Abundant Intergenic TAACTGA Direct Repeats and Putative Alternate RNA Polymerase β' Subunits in Marine Beggiatoaceae Genomes: Possible Regulatory Roles and Origins.Frontiers in microbiology · 2015Article
- Analysis and classification of DNA-binding sites in single-stranded and double-stranded DNA-binding proteins using protein information.IET systems biology · 2014Article
- Identification of single-stranded and double-stranded DNA binding proteins based on protein structure.BMC bioinformatics · 2014Article
- Mechanisms of Lin28-mediated miRNA and mRNA regulation--a structural and functional perspective.International journal of molecular sciences · 2013Review
- RNA single strands bind to a conserved surface of the major cold shock protein in crystals and solution.RNA (New York, N.Y.) · 2012Article
- Crystallization and X-ray structure of cold-shock protein E from Salmonella typhimurium.Acta crystallographica. Section F, Structural biology and crystallization communications · 2009Article
- Gel-based oligonucleotide microarray approach to analyze protein-ssDNA binding specificity.Nucleic acids research · 2008Article
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have developed a novel DNA microarray-based approach for identification of the sequence-specificity of single-stranded nucleic-acid-binding proteins (SNABPs). For verification, we have shown that the major cold shock protein (CspB) from Bacillus subtilis binds with high affinity to pyrimidine-rich sequences, with a binding preference for the consensus sequence, 5'-GTCTTTG/T-3'. The sequence was modelled onto the known structure of CspB and a cytosine-binding pocket was identified, which explains the strong preference for a cytosine base at position 3. This microarray method offers a rapid high-throughput approach for determining the specificity and strength of ss DNA-protein interactions. Further screening of this newly emerging family of transcription factors will help provide an insight into their cellular function.
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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.