Sm-like proteins in Eubacteria: the crystal structure of the Hfq protein from Escherichia coli

Nucleic Acids Res. 2003 Jul 15;31(14):4091-8. doi: 10.1093/nar/gkg480.

Abstract

The Hfq protein was discovered in Escherichia coli in the early seventies as a host factor for the Qbeta phage RNA replication. During the last decade, it was shown to be involved in many RNA processing events and remote sequence homology indicated a link to spliceosomal Sm proteins. We report the crystal structure of the E.coli Hfq protein showing that its monomer displays a characteristic Sm-fold and forms a homo-hexamer, in agreement with former biochemical data. Overall, the structure of the E.coli Hfq ring is similar to the one recently described for Staphylococcus aureus. This confirms that bacteria contain a hexameric Sm-like protein which is likely to be an ancient and less specialized form characterized by a relaxed RNA binding specificity. In addition, we identified an Hfq ortholog in the archaeon Methanococcus jannaschii which lacks a classical Sm/Lsm gene. Finally, a detailed structural comparison shows that the Sm-fold is remarkably well conserved in bacteria, Archaea and Eukarya, and represents a universal and modular building unit for oligomeric RNA binding proteins.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Autoantigens
  • Bacteria / genetics*
  • Crystallography, X-Ray
  • Dimerization
  • Escherichia coli Proteins / chemistry
  • Escherichia coli Proteins / genetics*
  • Evolution, Molecular
  • Host Factor 1 Protein / chemistry
  • Host Factor 1 Protein / genetics*
  • Molecular Sequence Data
  • Protein Conformation
  • Protein Structure, Secondary
  • Ribonucleoproteins, Small Nuclear / chemistry
  • Ribonucleoproteins, Small Nuclear / genetics*
  • Sequence Alignment
  • Sequence Homology, Amino Acid
  • snRNP Core Proteins

Substances

  • Autoantigens
  • Escherichia coli Proteins
  • Hfq protein, E coli
  • Host Factor 1 Protein
  • Ribonucleoproteins, Small Nuclear
  • snRNP Core Proteins