Fig. 5: Model and simulation results.
From: Reciprocating RNA Polymerase batters through roadblocks
A A proposed model of EC transit through a roadblock includes six states: State ①: Transcription prior to the encounter with roadblock; ②: An EC encounters the roadblock; ③: At a roadblock an EC backtracks with a backtracking rate k1 and recovery rate k2; ④: A roadblock dissociates from DNA spontaneously with a dissociation rate k3; ⑤: An actively transcribing EC, including a recently backtracked EC, has a probability P1 of dislodging the roadblock; ⑥: An EC transits through the roadblock either by actively dislodging the roadblock or after spontaneous dissociation of the roadblock. B–E Simulations (red) produced pause time distributions very similar to those observed (blue) in LacI-O1, LacI-O2, LacI-Os and EcoRI Q111 experiments under different conditions. OF and AF represent opposing force and assisting force, respectively. P values (>0.05 in all conditions) from two-sided two sample t-test are shown in figures.
