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Table 1 Biochemical reactions and their associated reaction rate constants in the computational model of the NF-κB signaling network

From: Statistical ensemble analysis for simulating extrinsic noise-driven response in NF-κB signaling networks

Reactions I II III IV V
IKKa + IкBα → IKKa:IкBα [a] 0.2 [1] 0.1813
IKKa + IкBβ → IKKa:IкBβ [a] 0.05 [3] 0.02997
IKKa + IкBϵ → IKKa:IкBϵ [a] 0.05 [3] 0.04244
IKKa + IkBα:NF-кB → IKKa:IкBα:NF-кB [a] 1 [1] 1.024
IKKa + IkBβ:NF-кB → IKKa:IкBβ:NF-кB [a] 0.25 [3] 0.3683
IKKa + IkBϵ:NF-кB → IKKa:IкBϵ:NF-кB [a] 0.25 [3] 0.42
NF-кBn → NF-кBn + A20t C1 [b] 0.0000005 [1] 0.000000506
0 → A20t C2 [c] 0 [1] 0
A20t → 0 C3 [b] 0.0004 [1] 0.0002438
A20t → A20t + A20 C4 [b] 0.5 [1] 0.5807
A20 → 0 C5 [b] 0.0003 [1] 0.0003769
IKKa:IкBα → IKKa + IкBα [b] 0.00125 [2] 0.002046
IKKa:IкBβ → IKKa + IкBβ [b] 0.00175 [2] 0.0005609
IKKa:IкBϵ → IKKa + IкBϵ [b] 0.00175 [2] 0.002142
IKKa:IкBα:NF-кB → IKKa + IккBα:NF-кB [b] 0.00125 [2] 0.002046
IKKa:IkBβ:NF-кB → IKKa + IкBβ:NF-кB [b] 0.00175 [2] 0.000561
IKKa:IкBϵ:NF-кB → IKKa + IкBϵ:NF-кB [b] 0.00175 [2] 0.002142
IKKa:IкBα:NF-кB → IKKa:IкBα + NF-кB [b] 0.000001 [2] 0.00000144
IKKa:IкBβ:NF-кB → IKKa:IкBβ + NF-кB [b] 0.000001 [2] 0.00000124
IKKa:IкBϵ:NF-кB → IKKa:IкBϵ + NF-кB [b] 0.000001 [2] 0.00000064
IKKa:IкBα + NF-кB → IKKa:IкBα:NF-кB [a] 0.5 [2] 0.3789
IKKa:IкBβ + NF-кB → IKKa:IкBβ:NF-кB [a] 0.5 [2] 0.2135
IKKa:IкBϵ + NF-кB → IKKa:IкBϵ:NF-кB [a] 0.5 [2] 0.3528
IкBα:NF-кB → NF-кB + IкBα [b] 0.000001 [2] 0.00000064
IкBβ:NF-кB → NF-кB + IкBβ [b] 0.000001 [2] 0.00000044
IкBϵ:NF-кB → NF-кB + IкBϵ [b] 0.000001 [2] 0.00000069
IкBαn:NF-кBn → NF-кBn + IкBαn [b] 0.000001 [2] 0.00000064
IкBβn:NF-кBn → NF-кBn + IкBβn [b] 0.000001 [2] 0.00000044
IкBϵn:NF-кBn → NF-кBn + IкBϵn [b] 0.000001 [2] 0.00000069
IкBα + NF-кB → IкBα:NF-кB [a] 0.5 [2] 0.4593
IкBβ + NF-кB → IкBβ:NF-кB [a] 0.5 [2] 0.7753
IкBϵ + NF-кB → IкBϵ:NF-кB [a] 0.5 [2] 0.2895
IкBαn + NF-кBn → IкBαn:NF-кBn [a] 0.5 [2] 0.4593
IкBβn + NF-кBn → IкBβn:NF-кBn [a] 0.5 [2] 0.7753
IкBϵn + NF-кBn → IкBϵn:NF-кBn [a] 0.5 [2] 0.2895
NF-кB → NF-кBn I1 [b] 0.0025 [1] 0.003037
NF-кBn → NF-кB K01 [b] 0.00005 [3] 0.00005537
IKKn → IKKa K1 [b] 0.0025 [1] 0.003273
A20 + IKKa → A20 + IKKi K2 [a] 0.1 [1] 0.07075
IKKa → IKKi K3 [b] 0.0015 [1] 0.00202
0 → IKKn Kprod [c] 0.000025 [1] 0.000009752
IKKn, IKKa, or IKKi → 0 Kdeg [b] 0.000125 [1] 0.0001561
Volume ratio of cytoplasm to nucleus Kv 1 5 [1] 5
IкBαn:NF-кBn → IкBα:NF-кB [b] 0.01 [1] 0.013979
IкBβn:NF-кBn → IкBβ:NF-кB [b] 0.005 [3] 0.001567
IкBϵn:NF-кBn → IкBϵ:NF-кB [b] 0.005 [3] 0.006583
IкBα:NF-кB → NF-кB [b] 0.000025 [1] 0.00002837
IкBβ:NF-кB → NF-кB [b] 0.000025 [3] 0.00003609
IкBϵ:NF-кB → NF-кB [b] 0.000025 [3] 0.00000866
Total NF-кB concentration NF-кB [d] 0.06 [1] 0.06
IKKa:IкBα:NF-кB → IKKa + NF-кB [b] 0.1 [1] 0.12928
IKKa:IкBβ:NF-кB → IKKa + NF-кB [b] 0.05 [3] 0.06454
IKKa:IкBϵ:NF-кB → IKKa + NF-кB [b] 0.05 [3] 0.08434
IкBαn → IкBα [b] 0.0005 [1] 0.0005123
IкBβn → IкBβ [b] 0.0005 [3] 0.0007398
IkBϵn → IkBϵ [b] 0.0005 [3] 0.0002184
IKKa:IкBα → IKKa [b] 0.1 [1] 0.123
IKKa:IкBβ → IKKa [b] 0.1 [3] 0.03837
IKKa:IкBϵ → IKKa [b] 0.1 [3] 0.1571
IкBαn:NF-кBn → NF-кBn [b] 0.000001 [2] 0.00000037
IкBβn:NF-кBn → NF-кBn [b] 0.000001 [2] 0.000001131
IкBϵn:NF-кBn → NF-кBn [b] 0.000001 [2] 0.000001037
NF-кBn → NF-кBn + IкBαt [b] 0.0000005 [1] 0.000000279
NF-кBn → NF-кBn + IкBβt [b] 0 [2] 0
NF-кBn → NF-кBn + IкBϵt [b] 0.00000005 [3] 0.000000059
IкBα → IкBαn [b] 0.001 [1] 0.0009786
IкBβ → IкBβn [b] 0.001 [3] 0.0004871
IkBϵ → IkBϵn [b] 0.001 [3] 0.00147
IкBα, IкBαn → 0 [b] 0.0001 [1] 0.000132
IкBβ, IкBβn → 0 [b] 0.0001 [3] 0.000133
IкBϵ, IкBϵn → 0 [b] 0.0001 [3] 0.000042
IкBαt → IkBαt + IkBα [b] 0.5 [1] 0.4552
IкBβt → IкBαt + IкBβ [b] 0.5 [3] 0.3828
IкBϵt → IкBαt + IкBϵ [b] 0.5 [3] 0.3304
0 → IкBαt [c] 0.00000005 [3] 0.000000084
0 → IкBβt [c] 0.000000005 [3] 0.00000000414
0 → IкBϵt [c] 0.000000005 [3] 0.00000000508
IкBαt → 0 [b] 0.0004 [1] 0.0003375
IкBβt → 0 [b] 0.0004 [3] 0.0002031
IкBϵt → 0 [b] 0.0004 [3] 0.0004742
  1. The far left column denotes biochemical reactions. The symbols for reaction rate constants are in the column I. Their units and their published nominal values are in columns II and III respectively. Column IV denotes the reference: [1] for Ref. [21], [2] for Ref. [20], and [3] for the average of values from Refs. [20, 21]. Column V lists values used in this paper. The units for [a] are μM-1 s-1, for [b] are s-1, for [c] are μM s-1, and for [d] are μM.