Skip to main content

Table 2 Model parameters

From: Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification

Enzyme Kinetic parameter values Original source
Cell growth μ m = 0.6, K s = 0.1, μ mA = 0.9, K sA = 0.01, X m = 2.3 estimated
Glk v G l k max = 4.503 m m o l / g D C W . h , K m G L C = 0.12 m M , K m A A T P = 0.5 m M [49]
PTS v P T S max = 25.739 m m o l / g D C W . h , K a 1 = 1.0 m M , K a 2 = 0.01 m M K a 3 = 1.0 , n G 6 P = 4 ,
KG 6p= 0.5mM
[8, 33]
Pgi v P G I max = 26.3711 m m o l / g D C W . h , K G 6 P = 2.46 m M , K F 6 P = 0.2 m M , K e q = 0.43 m M ,
K 6 p g i n h G 6 P = 0.2 m M , K 6 p g i n h F 6 P = 0.2 m M
[8]
Pfk v P f k max = 24.613 m m o l / g D C W . h , K ( A T P ) = 4.27 m M , K ( A T P , A D P ) = 4.6944 m M ,
K a ( A D P , A M P ) = 1.1118 m M , K b ( A D P , A M P ) = 98.88 m M , n P f k = 4 , L P f k = 1000 , K s F 6 P = 0.14 m M ,
K PEP = 3.26mM
[8]
Aldo v A l d o max = 2.8337 m m o l / g D C W . h , K F D P = 0.133 m M , K G A P = 0.088 m M , K D H A P = 0.088 m M ,
K i n h G A P = 0.6 m M , K e q = 0.14 m M , V b l f = 2
[8]
GAPDH v G A P D H max = 121.29 m m o l / g D C W . h , K G A P = 0.15 m M , K P G P = 0.1 m M , K N A D = 0.45 m M ,
K NADH = 0.02mM, K eq = 0.63
[8]
Pyk v P y k max = 1.0849 m m o l / g D C W . h , K P E P = 0.31 m M , K F D P = 0.19 m M , K A M P = 0.2 m M , n P y k = 4
K ATP = 22.5mM, K ADP = 0.26mM, L Pyk = 1000,
[8]
PDH v P D H max = 27171 m m o l / g D C W . h , K m P Y R = 1 m M , K m N A D = 0.4 m M , K m A c C o A = 0.008 m M ,
K m N A D H = 0.1 m M , K m C O A = 0.014 m M , K i P D H = 46.4 m M
[40]
CS v C S max = 17.36 m m o l / g D C W . h , K d 1 H = 0.00001 m M , K d 2 H = 0.0002 m M , K m A c C o A = 0.18 m M ,
K m O A A = 0.04 m M , K d A c C o A = 0.1 m M , K i A T P = 0.58 m M , K ι 1 2 K G = 0.015 m M , K i 2 2 K G = 0.256 m M ,
K i 1 N A D H = 0.00033 m M , K i 2 N A D H = 0.0084 m M , K c a t 0 = 1
[43]
ICDH v I C D H max = 24.42 m m o l / g D C W . h , K e q = 1000 m M , k f = 4830 1 / min , K m 2 k G = 0.038 m M ,
K m i C i T = 0.0059 m M , K d N A D P = 0.0013 m M , K m N A D P = 0.0227 m M , K d N A D H = 0.12 m M ,
K d i C i T = 0.03 m M , K e i n h N A D P H = 0.007 m M , K e k n h 2K G = 5.5 m M , K d c o 2 = 1.6 m M , K e k e c o 2 = 1.6 m M ,
K e k n N A D P = 0.00016 m M , K m N A D P H = 0.0036 m M , K e n h e N A D P H = 0.028 m M
[44]
Icl V I c l f max = 3.8315 m m o l / g D C W . h , v I c l _ r max = 2.585 / 100 m m o l / g D C W . h , K m i C i T = 0.604 m M ,
K m S U C = 0.59 m M , K m G O X = 0.13 m M , K I I C L = 0.003 m M
[46]
MS K M S _ f max = 3.6968 m m o l / g D C W . h , K M S _ r max = 13.742 / 100 m m o l / g D C W . h , K m G O X = 2 m M ,
K m A c C o A = 0.01 m M , K m M A L = 1 m M , K m C o A = 0.1 m M
[46]
2KGDH v 2 K G D H max = 137.435 m m o l / g D C W . h , K m 2 K G = 1.0 m M , K I 2 K G = 0.75 m M , K m C o A = 0.002 m M ,
K m N A D = 0.07 m M , K m S U C = 1.0 m M , K m N A D H = 0.018 m M , K Z = 1.5
[45]
SDH K m S U C = 0.1 , v S D H 1 = 1.1334 m m o l / g D C W . h , v S D H 2 = 1.1334 m m o l / g D C W . h , K e q = 10 [45]
MDH v M D H 1 = 25.874 m m o l / g D C W . h , v M D H 2 = 25.874 m m o l / g D C W . h , K e q = 1.0 , K I N A D = 0.31 m M ,
K I N A D H = 0.04 m M , K I M A L = 3.30 m M , K I O A A = 0.27 m M , K m N A D = 0.1 m M , K m N A D H = 0.04 m M ,
K m M A L = 1.33 m M , K m O A A = 0.27 m M , K I I N A D = 0.31 m M , K I I O A A = 0.17 m M
[45]
FUM v F U M 1 = 1.1334 m m o l / g D C W . h , V F U M 2 = 1.1334 m m o l / g D C W . h , K e q = 10 , K m F U M = 0.1 m M [45]
Ppc v P p c max = 0.1885 m m o l / g D C W . h , K m P E P = 0.323 l m M , k 1 = 0.03176 , k 2 = 1.2878 m M ,
k3 = 0.0542mM, k4 = 0.8139mM, k5 = 0.0939mM, k6 = 0.2693mM
[38]
Pck v P c k max = 4.5116 m m o l / g D C W . h , K m A T P = 0.06 m M , K I A T P = 0.04 m M , K i A T P = 0.04 m M ,
K m O A A = 0.67 m M , K i P E P = 0.06 m M , K I O A A = 0.67 m M , K m P E P = 0.07 m M , K i A D P = 0.04 m M
[15]
Mez v M e z max = 0.069945 m m o l / g D C W . h , K m M A L = 0.37 m M , K e q = 0.10 [45]
Pta v P t a max = 12.585 m m o l / g D C W . h , K i A c C o A = 0.2 m M , K m P = 2.6 m M , K i P = 2.6 m M ,
K m A C P = 0.7 m M , K i A C P = 0.2 m M , K i c o A = 0.029 m M , K e q = 0.0281 m M
[40]
Ack v A c k max = 2865.3 m m o l / g D C W . h , K m A C P = 0.16 m M , K m A D P = 0.5 m M , K m A C E = 7 m M ,
K m A T P = 0.07 m M , K e q = 174.217 m M
[40]
Acs v A c s max = 17.9068 m m o l / g D C W . h K = 0.089971 m m o l / g D C W . h , K m = 0.07 m M [42]
G6PDH v G 6 P D H max = 0.97922 m m o l / g D C W . h , K G 6 P = 14.4 m M K N A D P = 0.015 m M , K N A D P H N A D P = 0.01 m M ,
K N A D P H G 6 P = 0.18 m M
[8]
6PGDH v 6 G P D H max = 1.81 m m o l / g D C W . h , K G 6 P = 0.1 m M , K N A D P = 0.028 m M , K N A D P i n h = 0.01 m M ,
K ATPinh = 3.0mM
[8]
Rpe v R p e max = 18.485 m m o l / g D C W . h , K e q R p e = 1.4 m M [8]
Rpi v R p i max = 13.318 m m o l / g D C W . h K e q R p i = 4.0 m M [8]
TktA v T k t A max = 29.348 m m o l / g D C W . h , K e q T k t A = 1.2 m M [8]
TktB v T K t B max = 316.22 m m o l / g D C W . h , K e q T k t B = 10.0 m M [8]
Tal v T a l max = 24.499 m m o l / g D C W . h , K e q T a l = 1.05 m M [8]