Mitochondrion Model using ExpressionFluxProcess

File Name : Mitochondrion.eml

Summary

Stepper List (1)
- DES_01
System List (9)
Variable List (121)
Process List (59)
Stepper

Stepper Class/ID Properties
FixedODE1Stepper
DES_01 # No Property -----

Detail Information

System:/

System Information
StepperID	DES_01
Name	the culture medium
Variable List
ID	Name	Value
SIZE	-----	1e-18
Process List
Process Class/ID	Properties
# No Property

System:/CELL

System Information
StepperID	DES_01
Name	the cell
Variable List
ID	Name	Value
# No Property
Process List
Process Class/ID	Properties
# No Property

System:/CELL/CYTOPLASM

System Information
StepperID	DES_01
Name	the cytoplasm
Variable List
ID	Name	Value
SIZE	-----	10e-13
Process List
Process Class/ID	Properties
# No Property

System:/CELL/MEMBRANE

System Information
StepperID	DES_01
Name	the membrane
Variable List
ID	Name	Value
# No Property
Process List
Process Class/ID	Properties
# No Property

System:/CELL/CYTOPLASM/MITOCHONDRION

System Information
StepperID	DES_01
Name	the mitochondrion
Variable List
ID	Name	Value
# No Property
Process List
Process Class/ID	Properties
# No Property

System:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX

System Information
StepperID	DES_01
Name	matrix
Variable List
ID	Name		Value
SIZE	-----		0.43e-15
CS	Citrate synthase		100
ACO	Aconitase		100
IDHa	Isocitrate dehydrogenase NAD_p		100
IDHb	Isocitrate dehydrogenase NADP_p		100
OGDC	Oxoglutarate dehydrogenase complex		100
SCS	Succinyl-CoA synthetase		100
FM	Fumarase		100
MDH	Malate dehydrogenase		100
AlaTA	Alanine transaminase		100
AspTA	Aspartate transaminase		100
NDK	Nucleoside Diphosphate Kinase		100
PDC	Pyruvate dehydrogenase complex		100
PC	Pyruvate carboxylase		100
ATP	ATP		179.708411703224
ADP	ADP		121948
GTP	GTP		2579.20277507972
GDP	GDP		1338851.79722492
Pi	Pi		2507394.57819516
Cit	Citrate		583454.667302838
IsoCit	Isocitrate		74758.078233458
OG	Oxoglutarate		424.208338797423
SCoA	Succinyl-CoA		32.4504402506517
Suc	Succinate		1132.50269451216
Fum	Fumarate		231566.703717434
Mal	Malate		1028383.06170441
OXA	Oxaloacetate		301.821669042799
Asp	Aspartate		244090.279722199
Glu	Glutamate		801482.170624405
Ala	Alanine		1016708.5496534
Pyr	Pyruvate		27777
CoA	CoA		285.731270996556
Acetyl_CoA	Acetyl-CoA		104498.130355066
NADH	NADH		3671.57931748813
NAD_p	NADH		61909.4206825119
NADP_p	NADP+		58072.7464491537
NADPH	NADPH		7508.25355084638
CO2	CO2		42631670.6915103
Car	Carnitine		47417.8343327729
PalCar	L-Palmitoylcarnitine		213280.165667227
ETFred	ETFred		82.3098404642309
ETFox	ETFox		88.6901595357691
c16Acyl_CoA	Hexadecanoyl-CoA		330.827026222392
c16Enoyl_CoA	trans-Hexadec-2-enoyl-CoA		698.259337411322
c16Hydroxyacyl_CoA	S-3-Hydroxyhexadecanoyl-CoA		2.6986210319787
c16Oxoacyl_CoA	3-Oxohexadecanoyl-CoA		769.422298088143
c14Acyl_CoA	Tetradecanoyl-CoA		330.617485647672
c14Enoyl_CoA	trans-Tetradec-2-enoyl-CoA		698.509729746527
c14Hydroxyacyl_CoA	S-3-Hydroxytetradecanoyl-CoA		2.58048651753345
c14Oxoacyl_CoA	3-Oxotetradecanoyl-CoA		770.643049235415
c12Acyl_CoA	Dodecanoyl-CoA		330.206115962825
c12Enoyl_CoA	trans-Dodec-2-enoyl-CoA		699.861060725284
c12Hydroxyacyl_CoA	S-3-Hydroxydodecanoyl-CoA		2.07477407638552
c12Oxoacyl_CoA	3-Oxododecanoyl-CoA		763.336129328169
c10Acyl_CoA	Decanoyl-CoA		330.576253941254
c10Enoyl_CoA	trans-Dec-2-enoyl-CoA		700.435268610825
c10Hydroxyacyl_CoA	S-3-Hydroxydecanoyl-CoA		2.47334811965372
c10Oxoacyl_CoA	3-Oxodecanoyl-CoA		762.161407615672
c8Acyl_CoA	Octanoyl-CoA		331.678904096009
c8Enoyl_CoA	trans-Oct-2-enoyl-CoA		700.66830851517
c8Hydroxyacyl_CoA	S-3-Hydroxyoctanoyl-CoA		2.27437977305555
c8Oxoacyl_CoA	3-Oxooctanoyl-CoA		762.939438852062
c6Acyl_CoA	Hexanoyl-CoA		331.857436122862
c6Enoyl_CoA	trans-Hex-2-enoyl-CoA		700.684311272332
c6Hydroxyacyl_CoA	S-3-Hydroxyhexanoyl-CoA		2.59281375270886
c6Oxoacyl_CoA	3-Oxohexanoyl-CoA		763.92453277689
c4Acyl_CoA	Butanoyl-CoA		331.206626429918
c4Enoyl_CoA	trans-But-2-enoyl-CoA		701.958315797018
c4Hydroxyacyl_CoA	S-3-Hydroxybutanoyl-CoA		2.02452499607275
Acetoacetyl_CoA	Acetoacetyl-CoA		239686.195949022
H_p	H+:MATRIX		3
Process List
Process Class/ID	Properties
ExpressionFluxProcess CS
	ID	CS
	Name	Citrate synthase
	k1	6.8E10
	k_1	8.1E8
	k2	3.0E10
	k_2	7.2E8
	k3	6.2E10
	k_3	5.1E8
	k4	1.2E10
	k_4	4.0E8
	k5	1.4E9
	k_5	2.4E8
	k6	4.1E10
	k_6	1.1E8
	k7	5E10
	k_7	9.8E8
	k8	5.3E10
	k_8	7.7E8
	Expression	( C0.Value ( k7k8(k1k_2k3k6+k_1k2k4k6+k1k_2k3k5+k_1k2k4k5)S0.MolarConcS1.MolarConc+k_1k_2(k_3k_6k7k_8-k_4k_6k7k_8-k_3k_5k_7k8-k_4k_5k_7k8)P0.MolarConcP1.MolarConc+k_5k6k8(k1k_2k3+k_1k2k4)S0.MolarConcS1.MolarConcP1.MolarConc+k1k3k4k7k8(k6+k5)pow(S0.MolarConc,2)S1.MolarConc+k2k3k4k7k8(k6+k5)S0.MolarConcpow(S1.MolarConc,2)+k_1k_2k_5k_6k_8(k_3-k_4)P0.MolarConcpow(P1.MolarConc,2)+k_1k_3k4(k_6k7k_8-k_5k_7k8)S0.MolarConcP0.MolarConcP1.MolarConc+k_2k3k_4(k_6k7k_8-k_5k_7k8)S1.MolarConcP0.MolarConcP1.MolarConc+k5k_6k7(k1k_2k3+k_1k2k4)S0.MolarConcS1.MolarConcP0.MolarConc+k_1k_2k_5k_6k_7(k_3-k_4)pow(P0.MolarConc,2)P1.MolarConc+k1k3k4k_5k6k8pow(S0.MolarConc,2)S1.MolarConcP1.MolarConc+k2k3k4k_5k6k8S0.MolarConcpow(S1.MolarConc,2)P1.MolarConc-k_1k_3k4k_5k_6k_8S0.MolarConcP0.MolarConcpow(P1.MolarConc,2)-k_2k3k_4k_5k_6k_8S1.MolarConcP0.MolarConcpow(P1.MolarConc,2)+k1k3k4k5k_6k7pow(S0.MolarConc,2)S1.MolarConcP0.MolarConc+k2k3k4k5k_6k7S0.MolarConcpow(S1.MolarConc,2)P0.MolarConc-k_1k_3k4k_5k_6k_7S0.MolarConcpow(P0.MolarConc,2)P1.MolarConc-k_2k3k_4k_5k_6k_7S1.MolarConcpow(P0.MolarConc,2)P1.MolarConc ) ) / ( k_1k_2k7k8(k_3+k_4+k5+k6)+k7k8(k1k_2k_3+k1k_2k_4+k1k_2k5+k1k_2k6+k_1k_3k4+k_1k4k5+k_1k4k6)S0.MolarConc+k_1k_2(k_3k_5k8+k_4k_5k8+k_5k6k8+k_3k7k_8+k_4k7k_8+k5k7k_8+k6k7k_8)P1.MolarConc+k_1k_2(k_3k_6k7+k_4k_6k7+k5k_6k7+k_3k_7k8+k_4k_7k8+k5k_7k8+k6k_7k8)P0.MolarConc+k7k8(k_1k2k_3+k_1k2k_4+k_1k2k5+k_1k2k6+k_2k3k_4+k_2k3k5+k_2k3k6)S1.MolarConc+(k1k_2k_3k_5k8+k1k_2k_4k_5k8+k1k_2k_5k6k8+k_1k_3k4k_5k8+k_1k4k_5k6k8+k_1k_3k4k7k_8+k_1k4k5k7k_8+k_1k4k6k7k_8)S0.MolarConcP1.MolarConc+(k1k_2k_3k_6k7+k1k_2k_4k_6k7+k1k_2k5k_6k7+k_1k_3k4k_6k7+k_1k4k5k_6k7+k_1k_3k4k_7k8+k_1k4k5k_7k8+k_1k4k6k_7k8)S0.MolarConcP0.MolarConc+(k1k_2k3k5k8+k1k_2k3k6k7+k1k_2k3k7k8+k1k3k_4k7k8+k_1k2k4k5k8+k_1k2k4k6k7+k_1k2k4k7k8+k2k_3k4k7k8+k3k4k5k7k8+k3k4k6k7k8)S0.MolarConcS1.MolarConc+k1k4k7k8(k_3+k5+k6)pow(S0.MolarConc,2)+(k_1k_2k_3k_5k_6+k_1k_2k_4k_5k_6+k_1k_2k_5k_7k8+k_1k_2k_5k6k_7+k_1k_4k_5k_7k8+k_2k_3k_5k_7k8+k_1k_2k5k_6k_8+k_1k_2k_6k7k_8+k_1k_4k_6k7k_8+k_2k_3k_6k7k_8)P0.MolarConcP1.MolarConc+(k_1k2k_3k_5k8+k_1k2k_4k_5k8+k_1k2k_5k6k8+k_2k3k_4k_5k8+k_2k3k_5k6k8+k_2k3k_4k7k_8+k_2k3k5k7k_8+k_2k3k6k7k_8)S1.MolarConcP1.MolarConc+(k_1k2k_3k_6k7+k_1k2k_4k_6k7+k_1k2k5k_6k7+k_2k3k_4k_6k7+k_2k3k5k_6k7+k_2k3k_4k_7k8+k_2k3k5k_7k8+k_2k3k6k_7k8)S1.MolarConcP0.MolarConc+k2k3k7k8(k_4+k5+k6)pow(S1.MolarConc,2)+k_1k_2k_6k_7(k_3+k_4+k5)pow(P0.MolarConc,2)+k_1k_2k_5k_8(k_3+k_4+k6)pow(P1.MolarConc,2)+(k1k_2k_3k_5k_6+k1k_2k_4k_5k_6+k_1k_3k4k_5k_6+k_1k4k_5k_7k8+k_1k4k_5k6k_7+k_3k4k_5k_7k8+k_1k4k5k_6k_8+k_1k4k_6k7k_8+k_3k4k_6k7k_8)S0.MolarConcP0.MolarConcP1.MolarConc+(k1k_2k3k5k_6+k1k_2k3k_6k7+k1k3k_4k_6k7+k_1k2k4k5k_6+k_1k2k4k_6k7+k2k_3k4k_6k7+k3k4k5k_6k7+k3k4k5k_7k8+k3k4k6k_7k8)S0.MolarConcS1.MolarConcP0.MolarConc+(k1k_2k3k_5k8+k1k_2k3k_5k6+k1k3k_4k_5k8+k_1k2k4k_5k8+k_1k2k4k_5k6+k2k_3k4k_5k8+k3k4k_5k6k8+k3k4k5k7k_8+k3k4k6k7k_8)S0.MolarConcS1.MolarConcP1.MolarConc+k1k3k4(k5k8+k6k7+k7k8)pow(S0.MolarConc,2)S1.MolarConc+k1k4k_5k8(k_3+k6)pow(S0.MolarConc,2)P1.MolarConc+k1k4k_6k7(k_3+k5)pow(S0.MolarConc,2)P0.MolarConc+(k_1k2k_3k_5k_6+k_1k2k_4k_5k_6+k_2k3k_4k_5k_6+k_2k3k_5k_7k8+k_2k3k_5k6k_7+k3k_4k_5k_7k8+k_2k3k5k_6k_8+k_2k3k_6k7k_8+k3k_4k_6k7k_8)S1.MolarConcP0.MolarConcP1.MolarConc+k2k3k4(k5k8+k6k7+k7k8)S0.MolarConcpow(S1.MolarConc,2)+k2k3k_5k8(k_4+k6)pow(S1.MolarConc,2)P1.MolarConc+k2k3k_6k7(k_4+k5)pow(S1.MolarConc,2)P0.MolarConc+k_5k_6k_7(k_1k_2+k_1k_4+k_2k_3)pow(P0.MolarConc,2)P1.MolarConc+k_1k4k_6k_7(k_3+k5)S0.MolarConcpow(P0.MolarConc,2)+k_2k3k_6k_7(k_4+k5)S1.MolarConcpow(P0.MolarConc,2)+k_5k_6k_8(k_1k_2+k_1k_4+k_2k_3)P0.MolarConcpow(P1.MolarConc,2)+k_1k4k_5k_8(k_3+k6)S0.MolarConcpow(P1.MolarConc,2)+k_2k3k_5k_8(k_4+k6)S1.MolarConcpow(P1.MolarConc,2)+(k1k_2k3k_5k_6+k1k3k_4k_5k_6+k_1k2k4k_5k_6+k2k_3k4k_5k_6+k3k4k_5k_7k8+k3k4k_5k6k_7+k3k4k5k_6k_8+k3k4k_6k7k_8)S0.MolarConcS1.MolarConcP0.MolarConcP1.MolarConc+k1k3k4k_6(k5+k7)pow(S0.MolarConc,2)S1.MolarConcP0.MolarConc+k1k3k4k_5(k8+k6)pow(S0.MolarConc,2)S1.MolarConcP1.MolarConc+k1k_3k4k_5k_6pow(S0.MolarConc,2)P0.MolarConcP1.MolarConc+k2k3k4k_6(k5+k7)S0.MolarConcpow(S1.MolarConc,2)P0.MolarConc+k2k3k4k_5(k8+k6)S0.MolarConcpow(S1.MolarConc,2)P1.MolarConc+k2k3k_4k_5k_6pow(S1.MolarConc,2)P0.MolarConcP1.MolarConc+k4k_5k_6k_7(k_1+k_3)S0.MolarConcpow(P0.MolarConc,2)P1.MolarConc+k3k_5k_6k_7(k_2+k_4)S1.MolarConcpow(P0.MolarConc,2)P1.MolarConc+k3k4k5k_6k_7S0.MolarConcS1.MolarConcpow(P0.MolarConc,2)+k4k_5k_6k_8(k_1+k_3)S0.MolarConcP0.MolarConcpow(P1.MolarConc,2)+k3k_5k_6k_8(k_2+k_4)S1.MolarConcP0.MolarConcpow(P1.MolarConc,2)+k3k4k_5k6k_8S0.MolarConcS1.MolarConcpow(P1.MolarConc,2)+k1k3k4k_5k_6pow(S0.MolarConc,2)S1.MolarConcP0.MolarConcP1.MolarConc+k2k3k4k_5k_6S0.MolarConcpow(S1.MolarConc,2)P0.MolarConcP1.MolarConc+k3k4k_5k_6k_7S0.MolarConcS1.MolarConcpow(P0.MolarConc,2)P1.MolarConc+k3k4k_5k_6k_8S0.MolarConcS1.MolarConcP0.MolarConc*pow(P1.MolarConc,2) )
	VariableReferenceList
		S0	Variable:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX:OXA	-1
		S1	Variable:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX:Acetyl_CoA	-1
		P0	Variable:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX:Cit	1
		P1	Variable:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX:CoA	1
		C0	Variable:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX:CS	0
ExpressionFluxProcess ACO
	ID	ACO
	Name	Aconitase
	Ks	0.50E-3
	Kp	0.11E-3
	KcF	20.47
	KcR	31.44
	Expression

Sections

Personal tools

Mitochondrion Model using ExpressionFluxProcess

File Name : Mitochondrion.eml

Summary

Stepper List (1)

System List (9)

Variable List (121)

Process List (59)

Stepper

Detail Information

System:/

System:/CELL

System:/CELL/CYTOPLASM

System:/CELL/MEMBRANE

System:/CELL/CYTOPLASM/MITOCHONDRION

System:/CELL/CYTOPLASM/MITOCHONDRION/MATRIX