A structural model for sequence-specific proflavin-dna interactions during in vitro frameshift mutagenesis

Helen M. Berman, Joel L. Sussman, Leemor Joshua-Tor, Galena G. Revich, Lynn S. Ripley

Research output: Contribution to journalArticlepeer-review

5 Scopus citations

Abstract

Molecular models describing intermediates that may lead to proflavin-induced 1 bp deletions during in vitro polymerization by E. coli DNA polymerase I Klenow fragment are proposed. The models provide structural explanations for the fact that the induced frameshifts always occur opposite template bases that are adjacent to 5’ pyrimidines and are based on the underlying hypothesis that the deletions arise because the polymerase passes by a template base without copying it. Because the most frequent mutations are opposite Pu in the template sequence 5’ Py Pu 3’, a single-strand loop-out model was constructed for this sequence and proflavin was added, using structures found in crystalline oligonucleotides and their complexes with proflavin. The model seeks to rationalize the roles of the 5’ pyrimidine and proflavin in facilitating the bypass. Four potential roles for proflavin in mutagenesis are described: 1) stacking on the looped-out base; 2) stacking on the base pair immediately preceding the site of mutation; 3) hydrogen bonding with the 5’ pyrimidine; 4) hydrogen bonding with the phosphate backbone. These models point to the possibility that a number of proflavin-DNA interactions may be involved. In contrast, modeling does not suggest a role for classically intercalated proflavin in frameshift mutagenesis arising during in vitro DNA polymerization.

Original languageAmerican English
Pages (from-to)317-331
Number of pages15
JournalJournal of Biomolecular Structure and Dynamics
Volume10
Issue number2
DOIs
StatePublished - Oct 1992

ASJC Scopus subject areas

  • Structural Biology
  • Molecular Biology

Fingerprint

Dive into the research topics of 'A structural model for sequence-specific proflavin-dna interactions during in vitro frameshift mutagenesis'. Together they form a unique fingerprint.

Cite this