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. 2021 Jan 28;49(7):e39. doi: 10.1093/nar/gkaa1284

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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 (http://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 5. — Estimating looping strength relative to LacI/Oid-O2. (A) Our statistical–mechanical model for two nested DNA loops applied to the case of the loopometer reporter (see text). (B) Derivation of Equation (2), which relates I_L/I_X (the looping strength of the candidate protein and sites relative to LacI:Oid-O2) to loopometer measurements of F_L and F_L(X) and the statistical weights p, q and r for looping of particular DNA segments by LacI alone (see text). F_L.abc is the mean of the eight F_L values in Figure 4 (n = 8), but values for individual reporters could also be used. F_L.b_’ and F_L.ac values (n = 32 and 28) were obtained from strains ID1290 and ID1291 or ID1292 and ID1293, respectively. Values are ± 95% confidence limits (Student's t). (C) The plot of Equation (2), using the p, q and r values of (B), showing the measured F_L(X) values and derived I_L/I_X values of the proteins/sites tested.