The ribosomal stalk binds to translation factors IF2, EF-Tu, EF-G and RF3 via a conserved region of the L12 C-terminal domain

J Mol Biol. 2007 Jan 12;365(2):468-79. doi: 10.1016/j.jmb.2006.10.025. Epub 2006 Oct 27.

Abstract

Efficient protein synthesis in bacteria requires initiation factor 2 (IF2), elongation factors Tu (EF-Tu) and G (EF-G), and release factor 3 (RF3), each of which catalyzes a major step of translation in a GTP-dependent fashion. Previous reports have suggested that recruitment of factors to the ribosome and subsequent GTP hydrolysis involve the dimeric protein L12, which forms a flexible "stalk" on the ribosome. Using heteronuclear NMR spectroscopy we demonstrate that L12 binds directly to the factors IF2, EF-Tu, EF-G, and RF3 from Escherichia coli, and map the region of L12 involved in these interactions. Factor-dependent chemical shift changes show that all four factors bind to the same region of the C-terminal domain of L12. This region includes three strictly conserved residues, K70, L80, and E82, and a set of highly conserved residues, including V66, A67, V68 and G79. Upon factor binding, all NMR signals from the C-terminal domain become broadened beyond detection, while those from the N-terminal domain are virtually unaffected, implying that the C-terminal domain binds to the factor, while the N-terminal domain dimer retains its rotational freedom mediated by the flexible hinge between the two domains. Factor-dependent variations in linewidths further reveal that L12 binds to each factor with a dissociation constant in the millimolar range in solution. These results indicate that the L12-factor complexes will be highly populated on the ribosome, because of the high local concentration of ribosome-bound factor with respect to L12.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Conserved Sequence
  • Escherichia coli Proteins / genetics*
  • Escherichia coli Proteins / metabolism
  • Peptide Elongation Factor G / chemistry
  • Peptide Elongation Factor G / metabolism
  • Peptide Elongation Factor Tu / chemistry
  • Peptide Elongation Factor Tu / metabolism
  • Peptide Elongation Factors / chemistry
  • Peptide Elongation Factors / metabolism*
  • Peptide Termination Factors / metabolism
  • Prokaryotic Initiation Factor-2 / chemistry
  • Prokaryotic Initiation Factor-2 / metabolism
  • Protein Binding
  • Protein Biosynthesis*
  • Protein Structure, Secondary
  • Protein Structure, Tertiary
  • Ribosomal Proteins / genetics*
  • Ribosomal Proteins / metabolism
  • Ribosomes / metabolism*
  • Serum Albumin / chemistry
  • Structure-Activity Relationship

Substances

  • Escherichia coli Proteins
  • Peptide Elongation Factor G
  • Peptide Elongation Factors
  • Peptide Termination Factors
  • Prokaryotic Initiation Factor-2
  • Ribosomal Proteins
  • Serum Albumin
  • prfC protein, E coli
  • rplL protein, E coli
  • Peptide Elongation Factor Tu