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Nucleic Acids Res. 1999 Feb 15;27(4):930-41.

A general model for site-specific recombination by the integrase family recombinases.

Author information

1
Department of Microbiology and The Institute for Cell and Molecular Biology, University of Texas at Austin, Austin, TX 78712, USA.

Abstract

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.

PMID:
9927723
PMCID:
PMC148270
DOI:
10.1093/nar/27.4.930
[Indexed for MEDLINE]
Free PMC Article

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