Probing the interactions of poly(U) and tRNA(Phe) with nucleotides 1530-1542 and 1390-1417 of 16 S rRNA of Escherichia coli

J Biol Chem. 1994 Jul 29;269(30):19369-74.

Abstract

The decoding region of 16 S rRNA (nucleotides 1396-1403) is not available to complementary DNA oligomer binding in 70 S ribosomes, despite high levels of binding of these oligomers to active 30 S ribosomal subunits. While addition of poly(U) or tRNA(Phe) alone did not affect the binding of either cDNA to 30 or 70 S ribosomes, poly(U)-directed tRNA(Phe) decreased the binding of cDNA (1396-1403) oligomers by 80% to the active 30 S ribosomal subunits. But the poly(U)-directed tRNA(Phe) cannot displace a prebound cDNA in this region, nor can the cDNA displace a prebound poly(U)-directed tRNA(Phe). A cDNA to the anti-Shine-Dalgarno region (nucleotides 1534-1541) binds equally well to 30 and 70 S ribosomal particles, but the simultaneous addition of poly(U)/tRNA(Phe) and cDNA results in a 50% decrease in binding of the cDNA. In this case the poly(U)-directed tRNA(Phe) does displace the prebound cDNA, but the cDNA cannot displace a prebound poly(U)-directed tRNA(Phe). Neither cDNA oligomer inhibits the reassociation of the ribosomal subunits into 70 S particles.

Publication types

  • Comparative Study
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Base Sequence
  • Centrifugation, Density Gradient
  • DNA, Complementary / metabolism
  • Escherichia coli / genetics*
  • Ligands
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Nucleic Acid Hybridization
  • Oligodeoxyribonucleotides / chemical synthesis
  • Oligodeoxyribonucleotides / metabolism
  • Poly U / metabolism*
  • RNA, Ribosomal, 16S / genetics*
  • RNA, Ribosomal, 16S / metabolism*
  • RNA, Transfer, Phe / metabolism*
  • Ribosomes / metabolism

Substances

  • DNA, Complementary
  • Ligands
  • Oligodeoxyribonucleotides
  • RNA, Ribosomal, 16S
  • RNA, Transfer, Phe
  • Poly U