Small angle X-ray scattering reveals a compact intermediate in RNA folding

Nat Struct Biol. 2000 May;7(5):367-70. doi: 10.1038/75132.

Abstract

We have used small angle X-ray scattering (SAXS) to monitor changes in the overall size and shape of the Tetrahymena ribozyme as it folds. The native ribozyme, formed in the presence of Mg2+, is much more compact and globular than the ensemble of unfolded conformations. Time-resolved measurements show that most of the compaction occurs at least 20-fold faster than the overall folding to the native state, suggesting that a compact intermediate or family of intermediates is formed early and then rearranges in the slow steps that limit the overall folding rate. These results lead to a kinetic folding model in which an initial 'electrostatic collapse' of the RNA is followed by slower rearrangements of elements that are initially mispositioned.

Publication types

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

MeSH terms

  • Animals
  • Base Sequence
  • Calcium / pharmacology
  • Crystallography, X-Ray
  • Hydroxyl Radical / metabolism
  • Kinetics
  • Magnesium / pharmacology
  • Models, Molecular
  • Nucleic Acid Conformation* / drug effects
  • RNA Stability / drug effects
  • RNA, Catalytic / chemistry*
  • RNA, Catalytic / genetics
  • RNA, Catalytic / metabolism*
  • Sodium / pharmacology
  • Static Electricity
  • Tetrahymena / enzymology
  • Tetrahymena / genetics*

Substances

  • RNA, Catalytic
  • Hydroxyl Radical
  • Sodium
  • Magnesium
  • Calcium