Nucleic Acids Research, Vol 27, Issue 4 930-941, Copyright © 1999 by Oxford University Press
Y Voziyanov, S Pathania and M Jayaram
We present here a general model for integrase family site-specific
recombination using the geometric relationships of the cleavable
phosphodiester bonds and the disposition of the recombinase monomers
(defined by their binding planes) with respect to them. The 'oscillation
model' is based largely on the conformations of the recombinase-bound DNA
duplexes and their dynamics within Holliday junctions. The duplex substrate
or the Holliday junction intermediate is capable of 'oscillating' between
two cleavage-competent asymmetric states with respect to corres-ponding
chemically inert 'equilibrium positions'. The model accommodates several
features of the Flp system and predicts two modes of DNA cleavage during a
normal recombination event. It is equally applicable to other systems that
mediate recombination across 6, 7 or 8 bp long strand exchange regions (or
spacers). The model is consistent with approximately 0-1, 1-2 and 2-3 bp of
branch migration during recombination reactions involving 6, 7 and 8 bp
spacers, respectively.
ARTICLES
A general model for site-specific recombination by the integrase family recombinases
Department of Microbiology and The Institute for Cell and Molecular Biology, University of Texas at Austin, Austin, TX 78712, USA.
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