Stopped-flow fluorescence kinetic study of protein sliding and intersegment transfer in the target DNA search process.

ABSTRACT: Kinetic characterizations of protein translocation on DNA are nontrivial because the simultaneous presence of multiple different mechanisms makes it difficult to extract the information specific to a particular translocation mechanism. In this study, we have developed new approaches for the kinetic investigations of proteins' sliding and intersegment transfer (also known as "direct transfer") in the target DNA search process. Based on the analytical expression of the mean search time for the discrete-state stochastic model, we derived analytical forms of the apparent rate constant kapp for protein-target association in systems involving competitor DNA and the intersegment transfer mechanism. Our analytical forms of kapp facilitate the experimental determination of the kinetic rate constant

SUBMITTER: Esadze A 

PROVIDER: S-EPMC8254140 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature