Interaction of IF2 with the ribosomal GTPase-associated center during 70S initiation complex formation

Biochemistry. 2009 Jun 9;48(22):4699-706. doi: 10.1021/bi900222e.

Abstract

Addition of an Escherichia coli 50S subunit (50S(Cy5)) containing a Cy5-labeled L11 N-terminal domain (L11-NTD) within the GTPase-associated center (GAC) to an E. coli 30S initiation complex (30SIC(Cy3)) containing Cy3-labeled initiation factor 2 complexed with GTP leads to rapid development of a FRET signal during formation of the 70S initiation complex (70SIC). Initiation factor 2 (IF2) and elongation factor G (EF-G) induce similar changes in ribosome structure. Here we show that such similarities are maintained on a dynamic level as well. Thus, movement of IF2 toward L11-NTD after initial 70S ribosome formation follows GTP hydrolysis and precedes P(i) release, paralleling movement of EF-G following its binding to the ribosome [Seo, H., et al. (2006) Biochemistry 45, 2504-2514], and in both cases, the rate of such movement is slowed if GTP hydrolysis is prevented. The 30SIC(Cy3):50S(Cy5) FRET signal also provides a sensitive probe of the ability of initiation factor 3 to discriminate between a canonical and a noncanonical initiation codon during 70SIC formation. We employ Bacillus stearothermophilus IF2 as a substitute for E. coli IF2 to take advantage of the higher stability of the complexes it forms with E. coli ribosomes. While Bst-IF2 is fully functional in formation of E. coli 70SIC, relative reactivities toward dipeptide formation of 70SICs formed with the two IF2s suggest that the Bst-IF2.GDP complex is more difficult to displace from the GAC than the E. coli IF2.GDP complex.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Bacterial Proteins / chemistry
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Escherichia coli Proteins / chemistry
  • Escherichia coli Proteins / genetics
  • Escherichia coli Proteins / metabolism
  • Fluorescence Resonance Energy Transfer
  • GTP Phosphohydrolases / chemistry
  • GTP Phosphohydrolases / metabolism*
  • Geobacillus stearothermophilus
  • Hydrolysis
  • Light
  • Peptide Chain Initiation, Translational*
  • Prokaryotic Initiation Factor-2 / chemistry
  • Prokaryotic Initiation Factor-2 / genetics
  • Prokaryotic Initiation Factor-2 / metabolism*
  • Prokaryotic Initiation Factor-3 / chemistry
  • Prokaryotic Initiation Factor-3 / genetics
  • Prokaryotic Initiation Factor-3 / metabolism
  • Protein Subunits / chemistry
  • Protein Subunits / genetics
  • Protein Subunits / metabolism
  • Ribosomal Proteins / biosynthesis
  • Ribosomal Proteins / metabolism*
  • Ribosomes / enzymology
  • Ribosomes / metabolism*
  • Scattering, Radiation

Substances

  • Bacterial Proteins
  • Escherichia coli Proteins
  • Prokaryotic Initiation Factor-2
  • Prokaryotic Initiation Factor-3
  • Protein Subunits
  • Ribosomal Proteins
  • GTP Phosphohydrolases