Effects of terminal mismatches on RNA stability: thermodynamics of duplex formation for ACCGGGp, ACCGGAp, and ACCGGCp

Biochemistry. 1985 Jul 16;24(15):3987-91. doi: 10.1021/bi00336a028.

Abstract

The thermodynamics of ACCGGCp, ACCGGAp, and ACCGGGp helix formation have been measured in 1 M NaCl. The terminal mispairs stabilize the CCGG core duplex at 10(-4) M in the order AC approximately equal to AA less than AG approximately equal to AU. The data reported provide thermodynamic parameters for RNA structure prediction and suggest useful approximations for including other mismatches in current algorithms.

Publication types

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

MeSH terms

  • Base Sequence
  • Nucleic Acid Conformation
  • Nucleic Acid Denaturation
  • Oligoribonucleotides* / chemical synthesis
  • RNA*
  • Structure-Activity Relationship
  • Temperature
  • Thermodynamics

Substances

  • Oligoribonucleotides
  • RNA