Nonenzymatic, template-directed ligation of oligoribonucleotides is highly regioselective for the formation of 3'-5' phosphodiester bonds

J Am Chem Soc. 1996 Apr 10;118(14):3340-4. doi: 10.1021/ja9537134.

Abstract

We have found that nonenzymatic, template-directed ligation reactions of oligoribonucleotides display high selectivity for the formation of 3'-5' rather than 2'-5' phosphodiester bonds. Formation of the 3'-5'-linked product is favored regardless of the metal ion catalyst or the leaving group, and for several different ligation junction sequences. The degree of selectivity depends on the leaving group: the ratio of 3'-5'- to 2'-5'-linked products was 10-15:1 when the 5'-phosphate was activated as the imidazolide, and 60-80:1 when the 5'-phosphate was activated by the formation of a 5'-triphosphate. Comparison of oligonucleotide ligation reactions with previously characterized single nucleotide primer extension reactions suggests that the strong preference for 3'-5'-linkages in oligonucleotide ligation is primarily due to occurence of ligation within the context of an extended Watston-Crick duplex. The ability of RNA to correctly self-assemble by template-directed ligation is an intrinsic consequence of its chemical structure and need not be imposed by an external catalyst (i.e., an enzyme polymerase); RNA therefore provides a reasonable structural basis for a self-replicating system in a prebiological world.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Base Sequence
  • Evolution, Molecular*
  • Hydrolysis
  • Imidazoles / chemistry*
  • Kinetics
  • Molecular Sequence Data
  • Nucleotides / chemistry
  • Oligonucleotides / chemistry*
  • Oligoribonucleotides / chemical synthesis
  • Oligoribonucleotides / chemistry*
  • RNA / chemical synthesis*
  • RNA / chemistry
  • RNA, Catalytic / chemical synthesis*
  • RNA, Catalytic / chemistry
  • Structure-Activity Relationship
  • Templates, Genetic
  • Time Factors

Substances

  • Imidazoles
  • Nucleotides
  • Oligonucleotides
  • Oligoribonucleotides
  • RNA, Catalytic
  • RNA