IVT reactor (mRNA transcription) simulation

reaction mix -> transcript

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Governing equations

The exact equations the solver works for a ivt reactor (mrna transcription) — the same math shown in the app's "Theory" panel, not a black box.

\frac{d[NTP]}{dt} = -\frac{V_{max}[NTP]}{K_m\left(1 + \frac{[PPi]}{K_i}\right) + [NTP]}

[PPi] = [NTP]_0 - [NTP]\quad(\text{one pyrophosphate per nucleotide})

$[NTP]$: nucleotide pool [mol/m^3]
$V_{max}$: polymerase activity [mol/m^3/s]
$K_m$: Michaelis constant [mol/m^3]
$[PPi]$: pyrophosphate released [mol/m^3]
$K_i$: competitive inhibition constant [mol/m^3]

Parameters

vmax [mol/m^3/s] + km [mol/m^3] (measured for your enzyme and template), transcript_length [nucleotides], batch_time [s]. Optional: turnaround_time [s], ntp [component id, default 'ntp'], product [default 'mrna'], inhibition_constant [mol/m^3 PPi, competitive], pyrophosphatase [bool — hydrolyses the PPi and removes the inhibition].

IVT reactor (mRNA transcription) simulation

Governing equations

Parameters

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