Predicting Knot and Catenane Type of Products of Site-Specific Recombination on Twist Knot Substrates

JOURNAL OF MOLECULAR BIOLOGY

卷:411

Article

Valencia, Karin¹  Buck, Dorothy² 

[1] Univ London Imperial Coll Sci Technol & Med, Dept Math, Off 640, London SW7 2AZ, England

[2] Univ London Imperial Coll Sci Technol & Med, Dept Math, Off 623, London SW7 2AZ, England

关键词: site-specific recombination;    DNA knots;    serine recombinase;    tyrosine recombinase;    DNA topology;   

DOI  :  10.1016/j.jmb.2011.05.048

来源: Elsevier

【 摘 要 】

Site-specific recombination on supercoiled circular DNA molecules can yield a variety of knots and catenanes. Twist knots are some of the most common conformations of these products, and they can act as substrates for further rounds of site-specific recombination. They are also one of the simplest families of knots and catenanes. Yet, our systematic understanding of their implication in DNA and important cellular processes such as site-specific recombination is very limited. Here, we present a topological model of site-specific recombination characterizing all possible products of this reaction on twist knot substrates, extending the previous work of Buck and Flapan. We illustrate how to use our model to examine previously uncharacterized experimental data. We also show how our model can help determine the sequence of products in multiple rounds of processive recombination and distinguish between products of processive and distributive recombinations. This model studies generic site-specific recombination on arbitrary twist knot substrates, a subject for which there is limited global understanding. We also provide a systematic method of applying our model to a variety of different recombination systems. (C) 2011 Elsevier Ltd. All rights reserved.

【 授权许可】

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