title: Universal properties of mechanisms from two-state trajectories.
abstract: Finding the underlying mechanism from the statistical properties of an experimental two-state trajectory generated from dynamics in a complex on-off multisubstate kinetic scheme (KS) is the aim of many experiments. Since the data explicitly shows only transitions between substates of different states, information about the KS is lost, resulting in equivalence of KSs, i.e., the occurrence of different KSs that lead to the same data, in a statistical sense. In order to deal with this phenomenon, a canonical (unique) form of reduced dimensions (RD) is built from the data. RD forms are on-off networks with connections only between substates of different states, where the connections usually have nonexponential waiting time probability density functions. In this paper, we give a list of (about 50) relationships between properties of the data, the topology of reduced dimension forms, and features of KSs. Many of these relationships involve symmetries in RD forms, KSs, and the data and irreversible transitions in KSs. These relationships are useful both in theoretical analysis of on-off KSs and in the analysis of the data.
authors: Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. flomenbo@mit.edu
authors: O
authors: O
authors: Flomenbom
authors: R J
authors: RJ
authors: Silbey
mesh_terms: D003198:Computer Simulation; D007700:Kinetics; D008433:Mathematics; D008954:Models, Biological; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism
chemical_list: D011506:Proteins