In vitro selection of ATP-binding receptors using a ribonucleopeptide complex

J Am Chem Soc. 2002 May 1;124(17):4617-22. doi: 10.1021/ja016569x.

Abstract

A recently described three-dimensional structure of the ribosome provides a sense of remarkable diversity of RNA-protein complexes. We have designed a new class of scaffold for artificial receptors, in which a short peptide and RNA with a randomized nucleotide region form a stable and specific complex. The randomized nucleotide region was placed next to the HIV-1 Rev response element to enable the formation of "ribonucleopeptide" pools in the presence of the Rev peptide. In vitro selection of RNA oligonucleotides from the randomized pool afforded a ribonucleopeptide receptor specific for ATP. The ATP-binding ribonucleopeptide did not share the known consensus nucleotide sequence for ATP aptamers and completely lost its ATP-binding ability in the absence of the Rev peptide. The ATP-binding activity of the ribonucleopeptide was increased by a substitution of the N-terminal amino acid of the Rev peptide. These results demonstrate directly that the peptide is incorporated in the functional structure of RNA and suggest that amino acids outside the RNA-binding region of the peptide modulate the ATP-binding of ribonucleopeptide. Our approach would provide an alternative strategy for the design of "tailor-made" ribonucleopeptide receptors and enzymes.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adenosine Triphosphate / chemistry
  • Adenosine Triphosphate / metabolism
  • Amino Acid Sequence
  • Base Sequence
  • Gene Products, rev / chemistry
  • Gene Products, rev / metabolism
  • Molecular Sequence Data
  • Peptide Fragments / chemistry
  • Peptide Fragments / metabolism
  • RNA / chemistry
  • RNA / metabolism
  • Receptors, Purinergic P2 / chemistry*
  • Receptors, Purinergic P2 / metabolism
  • Response Elements
  • Ribonucleoproteins / chemistry*
  • Ribonucleoproteins / metabolism

Substances

  • Gene Products, rev
  • Peptide Fragments
  • Receptors, Purinergic P2
  • Ribonucleoproteins
  • RNA
  • Adenosine Triphosphate