| Citation |
|---|
| Elowitz MB, Leibler S (2000) A synthetic oscillatory network of transcriptional regulators.Nature.403 : 335 - 338. http:// www.nature.com/cgi-taf/DynaPage.taf?file=/nature/journal/v403/n6767/full/ 403335a0_fs.html |
| Description |
|---|
| This file describes the repressilator system. The authors of this model ( see reference) use three transcriptional repressor systems that are not part of any natural biological clock to build an oscillating network that they called the repressilator. The model system was induced in Escherichia coli.In this system, LacI (variable X is the mRNA, variable PX is the protein) inhibits the tetracycline- resistance transposon tetR (Y, PY describe mRNA and protein) . Protein tetR inhibits the gene Cl from phage Lambda ( Z, PZ: mRNA, protein), and protein Cl inhibits lacI expression. With appropriate parameter values this system oscillates. |
| Rate constant | Reaction |
|---|---|
| k1 = 1 | X -> EmptySet |
| k1 = 1 | Y -> EmptySet |
| k1 = 1 | Z -> EmptySet |
| K = 1 (hill khalf) | PX |-> Y |
| K = 1 (hill khalf) | PY |-> Z |
| K = 1 (hill khalf) | PZ |-> X |
| n = 2.1 (hill nhill) | PX |-> Y |
| n = 2.1 (hill nhill) | PY |-> Z |
| n = 2.1 (hill nhill) | PZ |-> X |
| {alpha0, alpha} = {0, 250} (hill basalRate) | PX |-> Y |
| {alpha0, alpha} = {0, 250} (hill basalRate) | PY |-> Z |
| {alpha0, alpha} = {0, 250} (hill basalRate) | PZ |-> X |
| alpha1 = 0 (hill vmax) | PX |-> Y |
| alpha1 = 0 (hill vmax) | PY |-> Z |
| alpha1 = 0 (hill vmax) | PZ |-> X |
| beta = 5 | PX -> EmptySet |
| beta = 5 | PY -> EmptySet |
| beta = 5 | PZ -> EmptySet |
| beta = 5 | X + EmptySet -> PX + X |
| beta = 5 | Y + EmptySet -> PY + Y |
| beta = 5 | Z + EmptySet -> PZ + Z |
| Variable | IC | ODE |
|---|---|---|
| PX | 5 | PX'[t] == -(beta*PX[t]) + beta*X[t] |
| PY | 0 | PY'[t] == -(beta*PY[t]) + beta*Y[t] |
| PZ | 15 | PZ'[t] == -(beta*PZ[t]) + beta*Z[t] |
| X | 0 | X'[t] == alpha0 + (alpha + alpha1*PZ[t]^n)/(K^n + PZ[t]^n) - k1*X[t] |
| Y | 0 | Y'[t] == alpha0 + (alpha + alpha1*PX[t]^n)/(K^n + PX[t]^n) - k1*Y[t] |
| Z | 0 | Z'[t] == alpha0 + (alpha + alpha1*PY[t]^n)/(K^n + PY[t]^n) - k1*Z[t] |