Specificity in Formation of Triple-Stranded Nucleic Acid Helical Complexes: Studies with Agarose-Linked Polyribonucleotide Affinity Columns

Anthony G. Letai, Michael A. Palladino, Ethel Fromm, Victor Rizzo, Jacques R. Fresco

Research output: Contribution to journalArticle

137 Citations (Scopus)

Abstract

The binding of a variety of deoxyribo and ribo homo- and copolynucleotide complementary duplexes to agarose-linked homopolynucleotide affinity columns has been studied. The results provide information concerning the specificity of recognition of complementary base pairs of nucleic acids through a mechanism that involves triple-helix formation under physiological conditions of ionic strength, pH, and temperature. The method employed made it possible, for the first time, to survey the full range of base triplets conceivable from the canonical nucleic acid bases and, in addition, hypoxanthine and thereby to differentiate between those triplets which can and cannot form. Certain previously observed features of the stereochemistry of double-helical targets for third-strand binding are confirmed, and some unrecognized features are elaborated. These include a general requirement for clusters of purine residues in one strand, protonation of third-strand C residues, the ability of natural third-strand residues to distinguish between A.T/U and G-C base pairs, and a capacity of third-strand (unnatural) I residues to recognize all base pairs within such clusters. Thus, the basis for a third-strand binding code is demonstrated.

Original languageEnglish (US)
Pages (from-to)9108-9112
Number of pages5
JournalBiochemistry
Volume27
Issue number26
DOIs
StatePublished - Dec 1 1988

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Polyribonucleotides
Base Pairing
Sepharose
Nucleic Acids
Stereochemistry
Hypoxanthine
Protonation
Ionic strength
Osmolar Concentration
Temperature

ASJC Scopus subject areas

  • Biochemistry

Cite this

Specificity in Formation of Triple-Stranded Nucleic Acid Helical Complexes : Studies with Agarose-Linked Polyribonucleotide Affinity Columns. / Letai, Anthony G.; Palladino, Michael A.; Fromm, Ethel; Rizzo, Victor; Fresco, Jacques R.

In: Biochemistry, Vol. 27, No. 26, 01.12.1988, p. 9108-9112.

Research output: Contribution to journalArticle

Letai, Anthony G. ; Palladino, Michael A. ; Fromm, Ethel ; Rizzo, Victor ; Fresco, Jacques R. / Specificity in Formation of Triple-Stranded Nucleic Acid Helical Complexes : Studies with Agarose-Linked Polyribonucleotide Affinity Columns. In: Biochemistry. 1988 ; Vol. 27, No. 26. pp. 9108-9112.
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