Internal equilibrium of the hammerhead ribozyme is altered by the length of certain covalent cross-links

Kenneth F. Blount, Olke C. Uhlenbeck*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

24 Scopus citations

Abstract

A method was developed that permits covalent cross-links of different linker lengths to be introduced into RNA at defined positions. The previous observation that a cross-link between stems I and II of the hammerhead ribozyme was confirmed and further explored. By examining the catalytic consequences of varying the position and length of this cross-link, we conclude that the previously proposed conformational dampening model cannot sufficiently explain the increase in ligation rate induced by the cross-link. Rather, the cross-link constrains the cleaved hammerhead into a structure that more closely resembles the transition state, thereby increasing the reverse ligation rate relative to a non-cross-linked control.

Original languageEnglish (US)
Pages (from-to)6834-6841
Number of pages8
JournalBiochemistry
Volume41
Issue number21
DOIs
StatePublished - May 28 2002

ASJC Scopus subject areas

  • Biochemistry

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