Table 3

Rates used in the model, and corresponding values from the literature

ReactionRate constantValueLiterature valueRef.
T2RT3 + R k 1c 0.17 s−10.17 s−1 12
T3RT4 + R k 2c 0.1k1c>0.02k1c* 13
LT2RLT3 + R k 3c 30k1c15k1c − 30k1c 13
LT3RLT4 + R k 4c 30k2c15k2c − 30k2c 13
Tn + RTnRk1b/k1a, … , k4b/k4a1.7 μM1.7 μM 12
T3 + BpT2 + Bp k −1 4 × 105 M−1⋅s−13 × 104 M−1⋅s−1 11
T4 + BpT3 + Bp k −2 3 × 104 M−1⋅s−1>3.0k−1 13
LT3 + BpLT2 + Bp k −3 k −1 k −1 § 13
LT4 + BpLT3 + Bp k −4 k −2 k −2 § 13
L + TLTk5, k6, k77 × 107 M−1⋅s−17 × 107 M−1⋅s−1 3
LTL + Tk−5, k−6, k−770 s−170 s−1 3
T2T2p k 8 15 s−117 s−1 14
T3T3p k 9 3k8
T4T4p k 10 3.2k8
LT2LT2p k 11 0
LT3LT3p k 12 1.1k8
LT4LT4p k 13 0.72k10 k 10 15
B + TnpBp + Tn k b 8 × 105 M−1⋅s−18 × 105 M−1⋅s−1 11
Y + TnpYp + Tn k y 3 × 107 M−1⋅s−13 × 107 M−1⋅s−1 14
BpB k b 0.35 s−10.35 s−1 14
Yp + ZY + Z k y 5 × 105 M−1⋅s−15 × 105 M−1⋅s−1 14
  • * Methylation rates of different methylation sites vary by a factor of up to 50. 

  • Ligand binding increases methylation rates of different methylation sites by a factor of 15–30. 

  • Demethylation rates of different methylation sites vary by a factor of up to 3. 

  • § Ligand binding has little effect on demethylation rate. 

  • Estimated from figure 10 in ref. 3

  • Estimated from figure 3 in ref. 11