3D visualization software to analyze topological outcomes of topoisomerase reactions.

ABSTRACT: The action of various DNA topoisomerases frequently results in characteristic changes in DNA topology. Important information for understanding mechanistic details of action of these topoisomerases can be provided by investigating the knot types resulting from topoisomerase action on circular DNA forming a particular knot type. Depending on the topological bias of a given topoisomerase reaction, one observes different subsets of knotted products. To establish the character of topological bias, one needs to be aware of all possible topological outcomes of intersegmental passages occurring within a given knot type. However, it is not trivial to systematically enumerate topological outcomes of strand passage from a given knot type. We present here a 3D visualization software (TopoICE-X in Knot

SUBMITTER: Darcy IK 

PROVIDER: S-EPMC2441796 | biostudies-literature | 2008 Jun

REPOSITORIES: biostudies-literature