Importance of exocyclic base functional groups of central core guanosines for hammerhead ribozyme activity

Biochemistry. 1993 Nov 2;32(43):11658-68. doi: 10.1021/bi00094a023.

Abstract

The three guanosines of the central core of a hammerhead ribozyme were replaced by 2-aminopurine ribonucleoside, xanthosine, isoguanosine, inosine, and deoxyguanosine. These analogues were incorporated by automated solid-phase synthesis, with the exception of isoguanosine. This was introduced by ligating a donor, which carried the isoguanosine at its 5'-end, and an acceptor oligoribonucleotide by a T4 DNA ligase-catalyzed reaction. Most of these modifications lowered the rate constant of cleavage by the hammerhead ribozyme drastically. Inspection of the possible hydrogen-bonding interactions disturbed by these modifications suggests that there is no G12A9 or A13G8 mismatched base pair in the central region. Increasing the Mg2+ concentration from 10 to 50 mM did not enhance these rates appreciably. This makes it improbable that the guanosines, including their 2'-hydroxyl groups, are involved in the binding of the catalytically active Mg2+. Transition-state destabilizing energies of 0.6-4.7 kcal mol-1 suggest that essentially all guanosines are involved in a hydrogen-bonding network.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacteriophage T4 / enzymology
  • Base Sequence
  • DNA Ligases / metabolism
  • Guanosine / metabolism
  • Hydrogen Bonding
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Oligoribonucleotides / chemical synthesis
  • Oligoribonucleotides / metabolism
  • RNA, Catalytic / chemistry*
  • RNA, Catalytic / metabolism
  • Structure-Activity Relationship
  • Thermodynamics

Substances

  • Oligoribonucleotides
  • RNA, Catalytic
  • Guanosine
  • DNA Ligases