Different modes of interaction by TIAR and HuR with target RNA and DNA

Nucleic Acids Res. 2011 Feb;39(3):1117-30. doi: 10.1093/nar/gkq837. Epub 2011 Jan 13.

Abstract

TIAR and HuR are mRNA-binding proteins that play important roles in the regulation of translation. They both possess three RNA recognition motifs (RRMs) and bind to AU-rich elements (AREs), with seemingly overlapping specificity. Here we show using SPR that TIAR and HuR bind to both U-rich and AU-rich RNA in the nanomolar range, with higher overall affinity for U-rich RNA. However, the higher affinity for U-rich sequences is mainly due to faster association with U-rich RNA, which we propose is a reflection of the higher probability of association. Differences between TIAR and HuR are observed in their modes of binding to RNA. TIAR is able to bind deoxy-oligonucleotides with nanomolar affinity, whereas HuR affinity is reduced to a micromolar level. Studies with U-rich DNA reveal that TIAR binding depends less on the 2'-hydroxyl group of RNA than HuR binding. Finally we show that SAXS data, recorded for the first two domains of TIAR in complex with RNA, are more consistent with a flexible, elongated shape and not the compact shape that the first two domains of Hu proteins adopt upon binding to RNA. We thus propose that these triple-RRM proteins, which compete for the same binding sites in cells, interact with their targets in fundamentally different ways.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adenine / analysis
  • Antigens, Surface / chemistry*
  • Antigens, Surface / metabolism
  • DNA / chemistry*
  • DNA / metabolism
  • ELAV Proteins
  • ELAV-Like Protein 1
  • Kinetics
  • Models, Molecular
  • Protein Binding
  • Protein Conformation
  • RNA / chemistry*
  • RNA / metabolism
  • RNA-Binding Proteins / chemistry*
  • RNA-Binding Proteins / metabolism
  • Scattering, Small Angle
  • Uracil / analysis
  • X-Ray Diffraction

Substances

  • Antigens, Surface
  • ELAV Proteins
  • ELAV-Like Protein 1
  • ELAVL1 protein, human
  • RNA-Binding Proteins
  • Uracil
  • RNA
  • DNA
  • Adenine