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. 2021 Nov 1;49(20):11550–11559. doi: 10.1093/nar/gkab946

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© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 1. — The looping probabilities of different DNA tethers vary widely. (A) The calculated looping probabilities of individual tethers exposed to a range of LacI concentrations are summarized in a box–whisker plot. The whiskers span the entire range of probabilities of the ensemble of DNA tethers monitored in each condition. As the LacI concentration was titrated from 0 to 20 nM, the looping probability increased from 0 to ∼45 and then fell again to 0 when repressor molecules saturated the binding sites. Note, however, that at each concentration of LacI, the looping probabilities based on 30-min observations varied from 0% to 100%. The upper and lower borders of the boxes indicate the upper and lower quartiles, respectively. The midline and cross of each box indicate the median and average of the distribution of looping probabilities, respectively. Schematic diagrams of prevalent DNA/LacI configurations are depicted below their corresponding LacI concentrations. (B) Representative temporal records of the TPM excursion parameter with 0.5 nM LacI are ranked by looping probability from 0 (top) to 1 (bottom). Unlooped states have larger excursions (tall/red signal) and looped states have narrower excursions (short/blue and green signal). The actual values are encoded using the color scale at right.

Inline graphic — The looping probabilities of different DNA tethers vary widely. (A) The calculated looping probabilities of individual tethers exposed to a range of LacI concentrations are summarized in a box–whisker plot. The whiskers span the entire range of probabilities of the ensemble of DNA tethers monitored in each condition. As the LacI concentration was titrated from 0 to 20 nM, the looping probability increased from 0 to ∼45 and then fell again to 0 when repressor molecules saturated the binding sites. Note, however, that at each concentration of LacI, the looping probabilities based on 30-min observations varied from 0% to 100%. The upper and lower borders of the boxes indicate the upper and lower quartiles, respectively. The midline and cross of each box indicate the median and average of the distribution of looping probabilities, respectively. Schematic diagrams of prevalent DNA/LacI configurations are depicted below their corresponding LacI concentrations. (B) Representative temporal records of the TPM excursion parameter with 0.5 nM LacI are ranked by looping probability from 0 (top) to 1 (bottom). Unlooped states have larger excursions (tall/red signal) and looped states have narrower excursions (short/blue and green signal). The actual values are encoded using the color scale at right.