Tangle analysis of difference topology experiments: applications to a Mu protein-DNA complex (Q1035328): Difference between revisions
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Revision as of 22:50, 14 February 2024
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English | Tangle analysis of difference topology experiments: applications to a Mu protein-DNA complex |
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Tangle analysis of difference topology experiments: applications to a Mu protein-DNA complex (English)
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2 November 2009
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In difference topology experiments circular DNA is first incubated with the protein under study, in this paper Mu transposase (MuA), which binds the DNA. A second protein whose mechanism is well understood is added to the reaction. The effect of this is to change the topology of the DNA resulting in a knot or link. From this transformation and using the tangle calculus it is possible to deduce restrictions on the the topological structure of the protein of interest. This paper provides a formal topological framework for this analysis. The authors show that the results of a specific cited set of experiments allow one to deduce a unique biologically relevant solution for the topological structure of MuA. Specifically there is a unique rational tangle solution, which is also the unique solution with small crossing number.
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3-string tangle
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DNA topology
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tangle method
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difference topology
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Mu transposase
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graph planarity
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Dehn Surgery
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handle addition lemma
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wagon wheel graph
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tetrahedral graph
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