RNA binding and thiolytic stability of a quinoline-containing helix-threading peptide

Malathy Krishnamurthy, Barry D. Gooch, Peter A. Beal

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

Helix-threading peptides (HTPs) bind selectively to sites predisposed to intercalation in folded RNA molecules placing peptide functional groups into the dissimilar grooves of the duplex. Here we report the design and synthesis of new HTPs with quinoline as the intercalation domain. A quinoline-containing HTP is shown to bind selectively to duplex RNA binding sites. Furthermore, the affinity cleavage pattern generated using an EDTA·Fe modified derivative is consistent with minor groove localization of its N-terminus. This compound binds base-pair steps flanked by single nucleotide bulges on the 3′ side on both strands, whereas bulges on the 5′ side of the intercalation site do not support binding. Furthermore, unlike acridine HTPs, the quinoline compound is resistant to thiolytic degradation that leads to loss of RNA-binding activity. The RNA-binding selectivity and stability observed for quinoline-containing HTPs make them excellent candidates for further development as regulators of intracellular RNA function.

Original languageEnglish (US)
Pages (from-to)639-645
Number of pages7
JournalOrganic and Biomolecular Chemistry
Volume4
Issue number4
DOIs
StatePublished - 2006
Externally publishedYes

Fingerprint

quinoline
helices
peptides
RNA
Peptides
Intercalation
intercalation
grooves
Acridines
regulators
nucleotides
Base Pairing
strands
Functional groups
affinity
cleavage
Nucleotides
selectivity
Binding Sites
degradation

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Chemistry(all)

Cite this

RNA binding and thiolytic stability of a quinoline-containing helix-threading peptide. / Krishnamurthy, Malathy; Gooch, Barry D.; Beal, Peter A.

In: Organic and Biomolecular Chemistry, Vol. 4, No. 4, 2006, p. 639-645.

Research output: Contribution to journalArticle

Krishnamurthy, Malathy ; Gooch, Barry D. ; Beal, Peter A. / RNA binding and thiolytic stability of a quinoline-containing helix-threading peptide. In: Organic and Biomolecular Chemistry. 2006 ; Vol. 4, No. 4. pp. 639-645.
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