Software Available from the Iwahara Lab

4. TDSK: Programs for kinetic analyses of protein translocation on DNA

This is a package of the MATLAB scripts for simulations and data fitting to study kinetics of target search processes of protein in the presence of specific and nonspecific DNA. One-dimensional diffusion coefficient for sliding, effective sliding length, second-order rate constant for intersegment transfer, dissociation from nonspecific sites can be determined from stopped-flow fluorescence kinetic data.
translocation

References:
[4a] Esadze A, and Iwahara J (2014) J Mol Biol 426, 230-40.
[4b] Esadze A, Kemme CA, Kolomeisky AB, Iwahara J (2014) Nucleic Acids Res 42, 7039-46.