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. 2020 Feb 29;118(9):2193–2208. doi: 10.1016/j.bpj.2020.02.017

Table 2.

Interaction Strengths εμν and Contact Probabilities pμν for Selected Bead Pairs (μ, ν) in a Bead-Spring Chain with 45 Beads

Initial State: SAW Polymer
Bead Pair
Interaction Strength, εμν
Contact Probability, pμν
Reference Recovered % Error Initial Reference Recovered % Error
3-13 7.00 6.70 4.29 0.0033 0.44 0.46 4.55
13-23 7.00 7.28 4.00 0.0036 0.51 0.49 3.92
23-33 7.00 7.08 1.14 0.0057 0.39 0.37 5.13
33-43 7.00 7.35 5.00 0.0041 0.62 0.59 4.84
8-18 7.00 6.94 0.86 0.0056 0.47 0.47 0.00
18-28 7.00 6.89 1.57 0.0052 0.31 0.32 3.23
28-38 7.00 7.16 2.29 0.0071 0.55 0.53 3.64
3-43 7.00 7.18 2.57 0.0002 0.22 0.22 0.00
Initial State: Collapsed Polymer
Bead Pair
Interaction Strength, εμν
Contact Probability, pμν
Reference Recovered % Error Initial Reference Recovered % Error
3-13 7.00 6.67 4.71 0.139 0.44 0.44 0.00
13-23 7.00 6.99 0.14 0.141 0.51 0.52 1.96
23-33 7.00 6.75 3.57 0.133 0.39 0.38 2.56
33-43 7.00 7.19 2.71 0.136 0.62 0.59 4.84
8-18 7.00 7.22 3.14 0.132 0.47 0.45 4.26
18-28 7.00 6.77 3.29 0.135 0.31 0.3 3.23
28-38 7.00 6.89 1.57 0.133 0.55 0.55 0.00
3-43 7.00 7.11 1.57 0.067 0.22 0.22 0.00

Values of these variables recovered using IBD are compared with those of the reference polymer chain, along with the percentage error between the reference and recovered values. Initial εμν-values for all bead pairs were chosen to be 0 for the SAW polymer, whereas εμν = 1 for all bead pairs in the collapsed polymer.