Wholecell Toy Model

Model version: 9

FBA submodel

DFBA fba submodel. Unbalanced metabolites are encoded via exchange fluxes.

Description

This is a toy model for coupling models with different modeling frameworks via comp.

This file has been produced by Matthias Koenig.

Terms of use

Copyright © 2017 Matthias Koenig

Redistribution and use of any part of this model, with or without modification, are permitted provided that the following conditions are met:

  1. Redistributions of this SBML file must retain the above copyright notice, this list of conditions and the following disclaimer.
  2. Redistributions in a different form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
This model is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.


Model : toy_fba

Creator
Matthias, Koenig, Humboldt University Berlin, konigmatt@googlemail.com
Created: 2017-04-28 12:24
Modified: 2017-04-28 12:24

SBML model


idtoy_fba
nametoy (FBA)
versionL3V1
times
substanceitem
extentitem
volumem3
aream2
lengthm
UnitDefinitions [9] name units sbo cvterm
s s
kg kg
m m
m2 m 2
m3 m 3
mM mole m 3
per_s 1 s
item_per_s item s
item_per_m3 item m 3

Compartments [3] name size constant spatial dimensions unit derived unit sbo cvterm
extern external compartment 1.0 3 m3 m 3
cell cell 1.0 3 m3 m 3
membrane membrane 1.0 2 m2 m 2

Species [4] name compartment boundary condition constant initial amount initial concentration substance units derived units sbo cvterm
A A
extern 0.0 item item
C C
extern 0.0 item item
B1 B1
cell 0.0 item item
B2 B2
cell 0.0 item item

Parameters [7] name value unit derived unit constant sbo cvterm
ub_R1 1.0 item_per_s item s
zero 0.0 item_per_s item s
ub_default 1000.0 item_per_s item s
lb_EX_A -1000.0 item_per_s item s
ub_EX_A 1000.0 item_per_s item s
lb_EX_C -1000.0 item_per_s item s
ub_EX_C 1000.0 item_per_s item s

Reactions [5] name equation modifiers formula derived units sbo cvterm
R1 A import (R1) A ⇆ B1
R2 B1 <-> B2 (R2) B1 ⇆ B2
R3 B2 export (R3) B2 ⇆ C
EX_A A ⇆
EX_C C ⇆