Molecular recognition of Waston-Crick base-pair reversals in triple-helix formation

use of nonnatural oligonucleotide bases

V. Mohan, Y. K. Cheng, Gail E. Marlow, Bernard Pettitt

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

We report the calculated characteristics of nonnatural triplex-forming oligonucleotide (TFO) bases recognizing base-pair reversals (TA→AT) in a double-helical DNA sequence. Ab initio and molecular mechanics calculations have been carried out to characterize the geometric and energetic consequences at the base-pair reversal sites. We have estimated the free energies of solvation of the natural and proposed bases by solving the linearized Poisson-Boltzmann equation. The calculations indicate that the proposed TFO bases should bind with some specificity to the duplex. Implications of the strategy used in the context of molecular biology is discussed.

Original languageEnglish (US)
Pages (from-to)1317-1325
Number of pages9
JournalBiopolymers - Peptide Science Section
Volume33
Issue number9
StatePublished - Sep 1993
Externally publishedYes

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Molecular recognition
Oligonucleotides
Base Pairing
Molecular mechanics
Molecular biology
Boltzmann equation
DNA sequences
Solvation
Mechanics
Free energy
Molecular Biology

ASJC Scopus subject areas

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

Cite this

Molecular recognition of Waston-Crick base-pair reversals in triple-helix formation : use of nonnatural oligonucleotide bases. / Mohan, V.; Cheng, Y. K.; Marlow, Gail E.; Pettitt, Bernard.

In: Biopolymers - Peptide Science Section, Vol. 33, No. 9, 09.1993, p. 1317-1325.

Research output: Contribution to journalArticle

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