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In general, if motors may unbind in a conformation different from the one they had immediately after binding, one step per run corresponds to an incomplete chemical cycle. This incomplete cycle leads to a correction of the probabilities Pi compared to the case where the chemical cycle is completed in each step. This correction is thus of order 1/(number of steps per run) and has a very small effect for processive motors.
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In general, if motors may unbind in a conformation different from the one they had immediately after binding, one step per run corresponds to an incomplete chemical cycle. This incomplete cycle leads to a correction of the probabilities Pi compared to the case where the chemical cycle is completed in each step. This correction is thus of order 1/(number of steps per run) and has a very small effect for processive motors.
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The small nonzero value of 2 in has been introduced to avoid an artificial absorbing state, given by a filament fully occupied by motors in state 2, from which the system cannot escape within the simplest models if 2 =0. An alternative would be to introduce a reverse transition from state 2 to state 1 at the same position.
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The small nonzero value of 2 in has been introduced to avoid an artificial absorbing state, given by a filament fully occupied by motors in state 2, from which the system cannot escape within the simplest models if 2 =0. An alternative would be to introduce a reverse transition from state 2 to state 1 at the same position.
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The peculiar shape of the curve reflects the change in the dominant unbinding pathway towards unbinding from state 2 at high unbound motor concentrations.
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