Y box-binding protein-1 binds preferentially to single-stranded nucleic acids and exhibits 3'-->5' exonuclease activity

Nucleic Acids Res. 2001 Mar 1;29(5):1200-7. doi: 10.1093/nar/29.5.1200.

Abstract

We have previously shown that Y box-binding protein-1 (YB-1) binds preferentially to cisplatin-modified Y box sequences. Based on structural and biochemical data, we predicted that this protein binds single-stranded nucleic acids. In the present study we confirmed the prediction and also discovered some unexpected functional features of YB-1. We found that the cold shock domain of the protein is necessary but not sufficient for double-stranded DNA binding while the C-tail domain interacts with both single-stranded DNA and RNA independently of the cold shock domain. In an in vitro translation system the C-tail domain of the protein inhibited translation but the cold shock domain did not. Both in vitro pull-down and in vivo co-immunoprecipitation assays revealed that YB-1 can form a homodimer. Deletion analysis mapped the C-tail domain of the protein as the region of homodimerization. We also characterized an intrinsic 3'-->5' DNA exonuclease activity of the protein. The region between residues 51 and 205 of its 324-amino acid extent is required for full exonuclease activity. Our findings suggest that YB-1 functions in regulating DNA/RNA transactions and that these actions involve different domains.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Binding Sites
  • Binding, Competitive
  • CCAAT-Enhancer-Binding Proteins / chemistry
  • CCAAT-Enhancer-Binding Proteins / genetics
  • CCAAT-Enhancer-Binding Proteins / metabolism*
  • Cisplatin / pharmacology
  • DNA / metabolism
  • DNA, Single-Stranded / metabolism*
  • DNA-Binding Proteins*
  • Dimerization
  • Exonucleases / metabolism*
  • Glutathione Transferase / genetics
  • Glutathione Transferase / metabolism
  • Humans
  • Mutation
  • NFI Transcription Factors
  • Nuclear Proteins
  • Oligonucleotides / metabolism
  • Protein Binding / drug effects
  • Protein Biosynthesis
  • RNA-Binding Proteins / genetics
  • RNA-Binding Proteins / metabolism
  • Recombinant Fusion Proteins / genetics
  • Recombinant Fusion Proteins / metabolism
  • Transcription Factors*
  • Tumor Cells, Cultured
  • Y-Box-Binding Protein 1

Substances

  • CCAAT-Enhancer-Binding Proteins
  • DNA, Single-Stranded
  • DNA-Binding Proteins
  • NFI Transcription Factors
  • Nuclear Proteins
  • Oligonucleotides
  • RNA-Binding Proteins
  • Recombinant Fusion Proteins
  • Transcription Factors
  • Y-Box-Binding Protein 1
  • YBX1 protein, human
  • DNA
  • Glutathione Transferase
  • Exonucleases
  • Cisplatin