Kinetics
AtoB
2\(\cdot\)Actyl-CoA \(\rightarrow\) Acetoacetyl-CoA + CoA
\[ \frac{K_{cat}^{AtoB} \cdot [AtoB] \cdot [Acetyl\text{-}CoA]^2}{[Acetyl\text{-}CoA]^2+2\cdot K_{M}^{AtoB:Acetyl\text{-}CoA}\cdot [Acetyl\text{-}CoA]} \]
Constant |
Value |
Source |
To note |
\( K_{cat}^{AtoB} \) |
10653 1/min |
link |
Forward reaction |
\( K_{M}^{AtoB:Acetyl\text{-}CoA} \) |
0.00047 mol/l |
link |
Is there something special about this? |
FadB2
Acetoacetyl-CoA + NADPH + H\(^+\) \(\rightarrow\) 3-Hydroxybutyryl-CoA + NADP\(^+\)
\[ \frac{[Acetoacetyl\text{-}CoA]\cdot [NADPH]-\frac{[3\text{-}hydroxybutyryl\text{-}CoA]\cdot [NADP^+]}{K_{eq}}}
{\frac{K_{M}^{FadB2:Acetoacetyl\text{-}CoA}\cdot K_{M}^{FadB2:NADPH}}{K_{cat1}^{FadB2}\cdot [FadB2]}+\frac{K_{M}^{FadB2:NADPH}\cdot [Acetoacetyl\text{-}CoA]}{K_{cat1}^{FadB2}\cdot [FadB2]}+\frac{ K_{M}^{FadB2:Acetoacetyl\text{-}CoA}\cdot [NADPH]}{K_{cat1}^{FadB2}\cdot [FadB2]}+\frac{K_{M}^{FadB2:Acetoacetyl\text{-}CoA}\cdot [NADP^+]}{K_{eq}\cdot K_{cat2}^{FadB2}\cdot [FadB2]}+} \]
\[ \cdots \frac{}{+\frac{K_{M}^{FadB2:NADP^+}\cdot [3\text{-}hydroxybutyryl\text{-}CoA]}{K_{eq}\cdot K_{cat2}^{FadB2}\cdot [FadB2]}+\frac{[Acetoacetyl\text{-}CoA]\cdot [NADPH]}{K_{cat1}^{FadB2}\cdot [FadB2]}+\frac{[NADP^+]\cdot [3\text{-}hydroxybutyryl\text{-}CoA]}{K_{eq}\cdot K_{cat2}^{FadB2}\cdot [FadB2]}}\]
Constant |
Value |
Source |
To note |
\( K_{cat1}^{FadB2} \) |
0.677 1/min |
link |
Forward reaction |
\( K_{cat2}^{FadB2} \) |
0.723 1/min |
link |
Reverse reaction |
\( K_{M}^{FadB2:Acetoacetyl\text{-}CoA} \) |
65.6 mol/l |
link |
Forward reaction |
\( K_{M}^{FadB2:NADPH} \) |
50 mol/l |
link |
Forward reaction |
\( K_{M}^{FadB2:3\text{-}Hydroxybutyryl\text{-}CoA} \) |
43.5 mol/l |
link |
Reverse reaction |
\( K_{M}^{FadB2:NADP^+} \) |
29.5 mol/l |
link |
Reverse reaction |
Hdb
Acetoacetyl-CoA + NADPH + H\(^+\) \(\rightarrow\) 3-Hydroxybutyryl-CoA + NADP\(^+\)
\[ \frac{K_{cat}^{Hdb}\cdot [Hbd] \cdot [Acetoacetyl\text{-}CoA]\cdot [NADPH]}{[Acetoacetyl\text{-}CoA]\cdot [NADPH] + K_{M}^{Hdb:NADPH}\cdot [Acetoacetyl\text{-}CoA]+K_{M}^{Hdb:Acetoacetyl\text{-}CoA}\cdot [NADPH]} \]
Constant |
Value |
Source |
To note |
\( K_{cat}^{Hdb} \) |
336.4 1/min |
link |
Forward reaction |
\( K_{M}^{Hdb:Acetoacetyl\text{-}CoA} \) |
5e-5 mol/l |
link |
Is there something special about this? |
\( K_{M}^{Hdb:NADPH} \) |
7e-5 mol/l |
link |
Is there something special about this? |
Crt
3-hydroxybutyryl-CoA \(\rightarrow\) Crotonyl-CoA + H\( _2\)O
\[ \frac{K_{cat}^{Crt}\cdot [Crt]\cdot [3\text{-}hydroxybutyryl\text{-}CoA]}{K_{M}^{Crt:3\text{-}Hydroxybutyryl\text{-}CoA} +[3\text{-}hydroxybutyryl\text{-}CoA]} \]
Constant |
Value |
Source |
To note |
\( K_{cat}^{Crt} \) |
1310.8 1/min |
link |
Forward reaction |
\( K_{M}^{Crt:3\text{-}Hydroxybutyryl\text{-}CoA} \) |
3e-5 mol/l |
link |
Is there something special about this? |
Ter
Crotonyl-CoA + NADH + H\( ^+\) \(\rightarrow\) Butyryl-CoA + NAD\( ^+\)
\[ \frac{K_{cat}^{Ter}\cdot [Ter] \cdot [Crotonyl\text{-}CoA]\cdot [NADH]}{[Crotonyl\text{-}CoA]\cdot [NADH] + K_{M}^{Ter:NADH}\cdot [Crotonyl\text{-}CoA]+K_{M}^{Ter:Crotonyl\text{-}CoA}\cdot [NADH]} \]
Constant |
Value |
Source |
To note |
\( K_{cat}^{Ter} \) |
1881.6 1/min |
link |
Forward reaction |
\( K_{M}^{Ter:Crotonyl\text{-}CoA} \) |
2.7e-06 mol/l |
link |
Is there something special about this? |
\( K_{M}^{Ter:NADH} \) |
5.2e-06 mol/l |
link |
Is there something special about this? |
\( K_{I}^{Ter:Butyryl\text{-}CoA} \) |
1.98e-07 mol/l |
link |
Is there something special about this? |
YciA
Butyryl-CoA + H\( _2\)O \(\rightarrow\) Butyrate + CoA
\[ \frac{K_{cat}^{YciA}\cdot [YciA]\cdot [Butyryl\text{-}CoA]}{K_{M}^{YciA:Butyryl\text{-}CoA} +[Butyryl\text{-}CoA]} \]
Constant |
Value |
Source |
To note |
\( K_{cat}^{YciA} \) |
1320 1/min |
link |
Forward reaction |
\( K_{M}^{YciA:Butyryl\text{-}CoA} \) |
3.5e-06 mol/l |
link |
Is there something special about this? |
Car
Butyrate + NADPH + ATP \(\rightarrow\) Butyraldehyde + NADP\(^+\) + AMP + 2P\(_i\)
\[\frac{K_{cat}^{Car}\cdot [Car]\cdot [Butyrate]\cdot [NADPH]\cdot [ATP]}{K_{M}^{Car:Butyrate}\cdot K_{M}^{Car:NADPH}\cdot [ATP]+K_{M}^{Car:ATP}\cdot [Butyrate]\cdot [NADPH]+K_{M}^{Car:NADPH}\cdot [Butyrate]\cdot [ATP]}\]\[\cdots \frac{}{+K_{M}^{Car:Butyrate}\cdot [NADPH]\cdot [ATP]+ [Butyrate]\cdot [NADPH]\cdot [ATP]}\]
Constant |
Value |
Source |
To note |
\( K_{cat}^{Car} \) |
150 1/min |
link |
Forward reaction |
\( K_{M}^{Car:Butyrate} \) |
0.013 mol/l |
link |
Is there something special about this? |
\( K_{M}^{Car:NADPH} \) |
4.8e-05 mol/l |
link |
Is there something special about this? |
\( K_{M}^{Car:ATP} \) |
0.000115 mol/l |
link |
Is there something special about this? |
Sfp
Ado
\[ \frac{K_{cat}^{Ado}\cdot [Ado]\cdot [Butyrate]}{K_{M}^{Ado:Butyrate} +[Butyrate]} \]
Constant |
Value |
Source |
To note |
\( K_{cat}^{Ado} \) |
0.215 1/min |
link |
Forward reaction |
\( K_{M}^{Ado:Butyraldehyde} \) |
0.0101 mol/l |
link |
Is there something special about this? |
Other Constants
This is a table of already known typical concentrations in a cell that we use in our model.
Constant |
Value |
Source |
To note |
[Acetyl-CoA] |
0.00061 mol/l |
link |
Is there something special about this? |
[Acetoacetyl-CoA] |
2.2e-05 mol/l |
link |
Is there something special about this? |
[CoA] |
0.00014 mol/l |
link |
Is there something special about this? |
[NADPH] |
00012 mol/l |
link |
Is there something special about this? |
[NADP\( ^+\)] |
2.1e-06 mol/l |
link |
Is there something special about this? |
[NADH] |
8.3e-05 mol/l |
link |
Is there something special about this? |
[NAD\( ^+\)] |
0.0026 mol/l |
link |
Is there something special about this? |
[ATP] |
0.0096 mol/l |
link |
Is there something special about this? |
[AMP] |
0.00028 mol/l |
link |
Is there something special about this? |
[H\( _2\)O] |
38.85 mol/l |
link |
Is there something special about this? |
