Blog
About

8
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: not found

      Using sequence logos and information analysis of Lrp DNA binding sites to investigate discrepancies between natural selection and SELEX.

      Nucleic Acids Research

      Transcription Factors, Sequence Alignment, Selection, Genetic, Molecular Sequence Data, methods, Molecular Biology, Models, Theoretical, Ligands, Leucine-Responsive Regulatory Protein, Leucine, Information Systems, Dimerization, metabolism, DNA-Binding Proteins, DNA Probes, DNA Footprinting, chemistry, DNA, Binding Sites, Base Sequence

      Read this article at

      ScienceOpenPMC
      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          In vitro experiments that characterize DNA-protein interactions by artificial selection, such as SELEX,are often performed with the assumption that the experimental conditions are equivalent to natural ones. To test whether SELEX gives natural results, we compared sequence logos composed from naturally occurring leucine-responsive regulatory protein (Lrp) binding sites with those composed from SELEX-generated binding sites. The sequence logos were significantly different, indicating that the binding conditions are disparate. A likely explanation is that the SELEX experiment selected for a dimeric or trimeric Lrp complex bound to DNA. In contrast, natural sites appear to be bound by a monomer. This discrepancy suggests that in vitro selections do not necessarily give binding site sets comparable with the natural binding sites.

          Related collections

          Author and article information

          Journal
          148261
          9889287

          Comments

          Comment on this article