e_coli_core - [organism]
E.coli core DFBA model
Model version: 5
DFBA FBA submodel.
Description
This is a metabolism model of Escherichia coli str. K-12 substr. MG1655 in SBML format.
Terms of use
Redistribution and use of any part of this model from BiGG Models knowledge-base, with or without modification, are permitted provided that the following conditions are met:
- Redistributions of this SBML file must retain the above copyright notice, this list of conditions and the following disclaimer.
- 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.
For specific licensing terms about this particular model and regulations of commercial use, see this model in BiGG Models knowledge-base.
References
When using content from BiGG Models knowledge-base in your research works, please cite- King ZA, Lu JS, Dräger A, Miller PC, Federowicz S, Lerman JA, Ebrahim A, Palsson BO, and Lewis NE. (2015).
- BiGG Models: A platform for integrating, standardizing, and sharing genome-scale models. Nucl Acids Res. doi:10.1093/nar/gkv1049
Model : ecoli_fba
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type | UnitDefinitions [13] | name | units | sbo | cvterm |
---|---|---|---|---|---|
UnitDefinition | mmol_per_gDW_per_hr | ||||
UnitDefinition | h | ||||
UnitDefinition | g | ||||
UnitDefinition | m | ||||
UnitDefinition | m2 | ||||
UnitDefinition | l | ||||
UnitDefinition | mmol | ||||
UnitDefinition | per_h | ||||
UnitDefinition | mmol_per_h | ||||
UnitDefinition | mmol_per_l | ||||
UnitDefinition | l_per_mmol | ||||
UnitDefinition | g_per_l | ||||
UnitDefinition | g_per_mmol |
type | Compartments [2] | name | size | constant | spatial dimensions | unit | derived unit | sbo | cvterm |
---|---|---|---|---|---|---|---|---|---|
Compartment | c | cytosol | T | 0 | l | BQB_IS
c |
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Compartment | e | extracellular space | T | 0 | l | BQB_IS
e |
type | Species [72] | name | compartment | boundary condition | constant | initial amount | initial concentration | substance units | derived units | sbo | cvterm |
---|---|---|---|---|---|---|---|---|---|---|---|
Species | M_13dpg_c | 3-Phospho-D-glyceroyl phosphate C3H4O10P2 |
c | F | F | 0.0 | mmol | ||||
Species | M_2pg_c | D-Glycerate 2-phosphate C3H4O7P |
c | F | F | 0.0 | mmol | ||||
Species | M_3pg_c | 3-Phospho-D-glycerate C3H4O7P |
c | F | F | 0.0 | mmol | ||||
Species | M_6pgc_c | 6-Phospho-D-gluconate C6H10O10P |
c | F | F | 0.0 | mmol | ||||
Species | M_6pgl_c | 6-phospho-D-glucono-1,5-lactone C6H9O9P |
c | F | F | 0.0 | mmol | ||||
Species | ac_c | Acetate C2H3O2 |
c | F | F | 0.0 | mmol | ||||
Species | ac_e | Acetate C2H3O2 |
e | F | F | 0.0 | mmol | ||||
Species | acald_c | Acetaldehyde C2H4O |
c | F | F | 0.0 | mmol | ||||
Species | acald_e | Acetaldehyde C2H4O |
e | F | F | 0.0 | mmol | ||||
Species | accoa_c | Acetyl-CoA C23H34N7O17P3S |
c | F | F | 0.0 | mmol | ||||
Species | acon_C_c | Cis-Aconitate C6H3O6 |
c | F | F | 0.0 | mmol | ||||
Species | actp_c | Acetyl phosphate C2H3O5P |
c | F | F | 0.0 | mmol | ||||
Species | adp_c | ADP C10H12N5O10P2 |
c | F | F | 0.0 | mmol | ||||
Species | akg_c | 2-Oxoglutarate C5H4O5 |
c | F | F | 0.0 | mmol | ||||
Species | akg_e | 2-Oxoglutarate C5H4O5 |
e | F | F | 0.0 | mmol | ||||
Species | amp_c | AMP C10H12N5O7P |
c | F | F | 0.0 | mmol | ||||
Species | atp_c | ATP C10H12N5O13P3 |
c | F | F | 0.0 | mmol | ||||
Species | cit_c | Citrate C6H5O7 |
c | F | F | 0.0 | mmol | ||||
Species | co2_c | CO2 CO2 |
c | F | F | 0.0 | mmol | ||||
Species | co2_e | CO2 CO2 |
e | F | F | 0.0 | mmol | ||||
Species | coa_c | Coenzyme A C21H32N7O16P3S |
c | F | F | 0.0 | mmol | ||||
Species | dhap_c | Dihydroxyacetone phosphate C3H5O6P |
c | F | F | 0.0 | mmol | ||||
Species | e4p_c | D-Erythrose 4-phosphate C4H7O7P |
c | F | F | 0.0 | mmol | ||||
Species | etoh_c | Ethanol C2H6O |
c | F | F | 0.0 | mmol | ||||
Species | etoh_e | Ethanol C2H6O |
e | F | F | 0.0 | mmol | ||||
Species | f6p_c | D-Fructose 6-phosphate C6H11O9P |
c | F | F | 0.0 | mmol | ||||
Species | fdp_c | D-Fructose 1,6-bisphosphate C6H10O12P2 |
c | F | F | 0.0 | mmol | ||||
Species | for_c | Formate CH1O2 |
c | F | F | 0.0 | mmol | ||||
Species | for_e | Formate CH1O2 |
e | F | F | 0.0 | mmol | ||||
Species | fru_e | D-Fructose C6H12O6 |
e | F | F | 0.0 | mmol | ||||
Species | fum_c | Fumarate C4H2O4 |
c | F | F | 0.0 | mmol | ||||
Species | fum_e | Fumarate C4H2O4 |
e | F | F | 0.0 | mmol | ||||
Species | g3p_c | Glyceraldehyde 3-phosphate C3H5O6P |
c | F | F | 0.0 | mmol | ||||
Species | g6p_c | D-Glucose 6-phosphate C6H11O9P |
c | F | F | 0.0 | mmol | ||||
Species | glc__D_e | D-Glucose C6H12O6 |
e | F | F | 0.0 | mmol | ||||
Species | gln__L_c | L-Glutamine C5H10N2O3 |
c | F | F | 0.0 | mmol | ||||
Species | gln__L_e | L-Glutamine C5H10N2O3 |
e | F | F | 0.0 | mmol | ||||
Species | glu__L_c | L-Glutamate C5H8NO4 |
c | F | F | 0.0 | mmol | ||||
Species | glu__L_e | L-Glutamate C5H8NO4 |
e | F | F | 0.0 | mmol | ||||
Species | glx_c | Glyoxylate C2H1O3 |
c | F | F | 0.0 | mmol | ||||
Species | h2o_c | H2O H2O |
c | F | F | 0.0 | mmol | BQB_IS
h2o 312945185 cpd00001 cpd15275 MNXM2 C00001 C01328 D00001 D03703 D06322 HMDB01039 HMDB02111 CHEBI:10743 CHEBI:13352 CHEBI:13365 CHEBI:13419 CHEBI:15377 CHEBI:16234 CHEBI:27313 CHEBI:29356 CHEBI:29375 CHEBI:29412 CHEBI:30490 CHEBI:33813 CHEBI:42043 CHEBI:42857 CHEBI:43228 CHEBI:44292 CHEBI:44641 CHEBI:44701 CHEBI:44819 CHEBI:5585 CHEBI:5594 UPC00001 UPC01328 META:CPD-15815 META:HYDROXYL-GROUP META:OH META:OXONIUM META:WATER MNXR68303 |
|||
Species | h2o_e | H2O H2O |
e | F | F | 0.0 | mmol | BQB_IS
h2o 312945185 cpd00001 cpd15275 MNXM2 C00001 C01328 D00001 D03703 D06322 HMDB01039 HMDB02111 CHEBI:10743 CHEBI:13352 CHEBI:13365 CHEBI:13419 CHEBI:15377 CHEBI:16234 CHEBI:27313 CHEBI:29356 CHEBI:29375 CHEBI:29412 CHEBI:30490 CHEBI:33813 CHEBI:42043 CHEBI:42857 CHEBI:43228 CHEBI:44292 CHEBI:44641 CHEBI:44701 CHEBI:44819 CHEBI:5585 CHEBI:5594 UPC00001 UPC01328 META:CPD-15815 META:HYDROXYL-GROUP META:OH META:OXONIUM META:WATER MNXR68303 |
|||
Species | h_c | H+ H |
c | F | F | 0.0 | mmol | ||||
Species | h_e | H+ H |
e | F | F | 0.0 | mmol | ||||
Species | icit_c | Isocitrate C6H5O7 |
c | F | F | 0.0 | mmol | ||||
Species | lac__D_c | D-Lactate C3H5O3 |
c | F | F | 0.0 | mmol | ||||
Species | lac__D_e | D-Lactate C3H5O3 |
e | F | F | 0.0 | mmol | ||||
Species | mal__L_c | L-Malate C4H4O5 |
c | F | F | 0.0 | mmol | ||||
Species | mal__L_e | L-Malate C4H4O5 |
e | F | F | 0.0 | mmol | ||||
Species | nad_c | Nicotinamide adenine dinucleotide C21H26N7O14P2 |
c | F | F | 0.0 | mmol | ||||
Species | nadh_c | Nicotinamide adenine dinucleotide - reduced C21H27N7O14P2 |
c | F | F | 0.0 | mmol | ||||
Species | nadp_c | Nicotinamide adenine dinucleotide phosphate C21H25N7O17P3 |
c | F | F | 0.0 | mmol | ||||
Species | nadph_c | Nicotinamide adenine dinucleotide phosphate - reduced C21H26N7O17P3 |
c | F | F | 0.0 | mmol | ||||
Species | nh4_c | Ammonium H4N |
c | F | F | 0.0 | mmol | ||||
Species | nh4_e | Ammonium H4N |
e | F | F | 0.0 | mmol | ||||
Species | o2_c | O2 O2 |
c | F | F | 0.0 | mmol | ||||
Species | o2_e | O2 O2 |
e | F | F | 0.0 | mmol | ||||
Species | oaa_c | Oxaloacetate C4H2O5 |
c | F | F | 0.0 | mmol | BQB_IS
oaa 312945340 cpd00032 cpd02469 MNXM46 C00036 C03981 HMDB00223 LMFA01170061 LMFA01170120 CHEBI:10547 CHEBI:1158 CHEBI:12810 CHEBI:12820 CHEBI:14703 CHEBI:16452 CHEBI:17479 CHEBI:19638 CHEBI:23910 CHEBI:23911 CHEBI:24958 CHEBI:24959 CHEBI:25731 CHEBI:25734 CHEBI:28394 CHEBI:29049 CHEBI:30744 CHEBI:30798 CHEBI:7812 UPC00036 META:ASPARTATE--TRNA-LIGASE-RXN META:ENOL-OXALOACETATE META:OXALACETIC_ACID c1475 MNXR81772 6.1.1.23 R05577 |
|||
Species | pep_c | Phosphoenolpyruvate C3H2O6P |
c | F | F | 0.0 | mmol | ||||
Species | pi_c | Phosphate HO4P |
c | F | F | 0.0 | mmol | BQB_IS
pi 312945413 cpd00009 MNXM9 C00009 D05467 HMDB00973 HMDB01429 HMDB02105 HMDB02142 HMDB05947 CHEBI:14791 CHEBI:18367 CHEBI:26020 CHEBI:26078 CHEBI:29137 CHEBI:29139 CHEBI:32958 CHEBI:39739 CHEBI:39745 CHEBI:43470 CHEBI:43474 CHEBI:45024 CHEBI:68546 CHEBI:68835 CHEBI:74873 CHEBI:7793 UPC00009 META:CHORISMATEMUT-RXN META:CPD-16459 META:PHOSPHATE-GROUP META:Pi c0693 MNXR1159 5.4.99.5 R01715 13897 13898 13899 13900 UCR01715 UER00203 |
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Species | pi_e | Phosphate HO4P |
e | F | F | 0.0 | mmol | BQB_IS
pi 312945413 cpd00009 MNXM9 C00009 D05467 HMDB00973 HMDB01429 HMDB02105 HMDB02142 HMDB05947 CHEBI:14791 CHEBI:18367 CHEBI:26020 CHEBI:26078 CHEBI:29137 CHEBI:29139 CHEBI:32958 CHEBI:39739 CHEBI:39745 CHEBI:43470 CHEBI:43474 CHEBI:45024 CHEBI:68546 CHEBI:68835 CHEBI:74873 CHEBI:7793 UPC00009 META:CHORISMATEMUT-RXN META:CPD-16459 META:PHOSPHATE-GROUP META:Pi c0693 MNXR1159 5.4.99.5 R01715 13897 13898 13899 13900 UCR01715 UER00203 |
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Species | pyr_c | Pyruvate C3H3O3 |
c | F | F | 0.0 | mmol | ||||
Species | pyr_e | Pyruvate C3H3O3 |
e | F | F | 0.0 | mmol | ||||
Species | q8_c | Ubiquinone-8 C49H74O4 |
c | F | F | 0.0 | mmol | ||||
Species | q8h2_c | Ubiquinol-8 C49H76O4 |
c | F | F | 0.0 | mmol | ||||
Species | r5p_c | Alpha-D-Ribose 5-phosphate C5H9O8P |
c | F | F | 0.0 | mmol | ||||
Species | ru5p__D_c | D-Ribulose 5-phosphate C5H9O8P |
c | F | F | 0.0 | mmol | ||||
Species | s7p_c | Sedoheptulose 7-phosphate C7H13O10P |
c | F | F | 0.0 | mmol | ||||
Species | succ_c | Succinate C4H4O4 |
c | F | F | 0.0 | mmol | ||||
Species | succ_e | Succinate C4H4O4 |
e | F | F | 0.0 | mmol | ||||
Species | succoa_c | Succinyl-CoA C25H35N7O19P3S |
c | F | F | 0.0 | mmol | ||||
Species | xu5p__D_c | D-Xylulose 5-phosphate C5H9O8P |
c | F | F | 0.0 | mmol |
type | Parameters [45] | name | value | unit | derived unit | constant | sbo | cvterm |
---|---|---|---|---|---|---|---|---|
Parameter | cobra_default_lb | cobra default - lb | -1000.0 | mmol_per_gDW_per_hr | T | |||
Parameter | cobra_default_ub | cobra default - ub | 1000.0 | mmol_per_gDW_per_hr | T | |||
Parameter | cobra_0_bound | cobra 0 - bound | 0.0 | mmol_per_gDW_per_hr | T | |||
Parameter | R_ATPM_lower_bound | R ATPM lower - bound | 0.0 | mmol_per_gDW_per_hr | T | |||
Parameter | R_EX_glc__D_e_lower_bound | R EX glc-D e lower - bound | -10.0 | mmol_per_gDW_per_hr | T | |||
Parameter | lb_EX_pi_e | -1000.0 | mmol_per_h | T | ||||
Parameter | ub_EX_pi_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_for_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_for_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_h_e | -1000.0 | mmol_per_h | T | ||||
Parameter | ub_EX_h_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_o2_e | -1000.0 | mmol_per_h | T | ||||
Parameter | ub_EX_o2_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_lac__D_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_lac__D_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_pyr_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_pyr_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_etoh_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_etoh_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_gln__L_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_gln__L_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_akg_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_akg_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_co2_e | -1000.0 | mmol_per_h | T | ||||
Parameter | ub_EX_co2_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_acald_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_acald_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_glu__L_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_glu__L_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_mal__L_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_mal__L_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_fum_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_fum_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_fru_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_fru_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_succ_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_succ_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_h2o_e | -1000.0 | mmol_per_h | T | ||||
Parameter | ub_EX_h2o_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_nh4_e | -1000.0 | mmol_per_h | T | ||||
Parameter | ub_EX_nh4_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_ac_e | 0.0 | mmol_per_h | T | ||||
Parameter | ub_EX_ac_e | 1000.0 | mmol_per_h | T | ||||
Parameter | lb_EX_glc__D_e | -10.0 | mmol_per_h | T | ||||
Parameter | ub_EX_glc__D_e | 1000.0 | mmol_per_h | T |
type | Reactions [95] | name | equation | modifiers | formula | derived units | sbo | cvterm | |
---|---|---|---|---|---|---|---|---|---|
Reaction | ACALD | Acetaldehyde dehydrogenase (acetylating) | ⇆ | acald_c + coa_c + nad_c ⇆ accoa_c + h_c + nadh_c | BQB_IS
ACALD |
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Reaction | ACALDt | Acetaldehyde reversible transport | ⇆ | acald_e ⇆ acald_c | BQB_IS
ACALDt |
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Reaction | ACKr | Acetate kinase | ⇆ | ac_c + atp_c ⇆ actp_c + adp_c | BQB_IS
ACKr |
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Reaction | ACONTa | Aconitase (half-reaction A, Citrate hydro-lyase) | ⇆ | cit_c ⇆ acon_C_c + h2o_c | BQB_IS
ACONTa |
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Reaction | ACONTb | Aconitase (half-reaction B, Isocitrate hydro-lyase) | ⇆ | acon_C_c + h2o_c ⇆ icit_c | BQB_IS
ACONTb |
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Reaction | ACt2r | Acetate reversible transport via proton symport | ⇆ | ac_e + h_e ⇆ ac_c + h_c | BQB_IS
ACt2r |
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Reaction | ADK1 | Adenylate kinase | ⇆ | amp_c + atp_c ⇆ 2.0 adp_c | BQB_IS
ADK1 |
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Reaction | AKGDH | 2-Oxogluterate dehydrogenase | ➞ | akg_c + coa_c + nad_c ➞ co2_c + nadh_c + succoa_c | BQB_IS
AKGDH |
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Reaction | AKGt2r | 2 oxoglutarate reversible transport via symport | ⇆ | akg_e + h_e ⇆ akg_c + h_c | BQB_IS
AKGt2r |
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Reaction | ALCD2x | Alcohol dehydrogenase (ethanol) | ⇆ | etoh_c + nad_c ⇆ acald_c + h_c + nadh_c | BQB_IS
ALCD2x |
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Reaction | ATPM | ATP maintenance requirement | ➞ | atp_c + h2o_c ➞ adp_c + h_c + pi_c | BQB_IS
ATPM |
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Reaction | ATPS4r | ATP synthase (four protons for one ATP) | ⇆ | adp_c + 4.0 h_e + pi_c ⇆ atp_c + h2o_c + 3.0 h_c | BQB_IS
ATPS4r |
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Reaction | BIOMASS_Ecoli_core_w_GAM | Biomass Objective Function with GAM | ➞ | 1.496 M_3pg_c + 3.7478 accoa_c + 59.81 atp_c + 0.361 e4p_c + 0.0709 f6p_c + 0.129 g3p_c + 0.205 g6p_c + 0.2557 gln__L_c + 4.9414 glu__L_c + 59.81 h2o_c + 3.547 nad_c + 13.0279 nadph_c + 1.7867 oaa_c + 0.5191 pep_c + 2.8328 pyr_c + 0.8977 r5p_c ➞ 59.81 adp_c + 4.1182 akg_c + 3.7478 coa_c + 59.81 h_c + 3.547 nadh_c + 13.0279 nadp_c + 59.81 pi_c | BQB_IS
Ecoli_core_w_GAM |
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Reaction | CO2t | CO2 transporter via diffusion | ⇆ | co2_e ⇆ co2_c | BQB_IS
CO2t |
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Reaction | CS | Citrate synthase | ➞ | accoa_c + h2o_c + oaa_c ➞ cit_c + coa_c + h_c | BQB_IS
CS |
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Reaction | CYTBD | Cytochrome oxidase bd (ubiquinol-8: 2 protons) | ➞ | 2.0 h_c + 0.5 o2_c + q8h2_c ➞ h2o_c + 2.0 h_e + q8_c | BQB_IS
CYTBD |
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Reaction | D_LACt2 | D lactate transport via proton symport | ⇆ | h_e + lac__D_e ⇆ h_c + lac__D_c | BQB_IS
D_LACt2 |
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Reaction | ENO | Enolase | ⇆ | M_2pg_c ⇆ h2o_c + pep_c | BQB_IS
ENO |
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Reaction | ETOHt2r | ETOHt2r | ⇆ | etoh_e + h_e ⇆ etoh_c + h_c | BQB_IS
ETOHt2r |
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Reaction | EX_ac_e | Acetate exchange | ⇆ | ac_e ⇆ | BQB_IS
ac |
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Reaction | EX_acald_e | Acetaldehyde exchange | ⇆ | acald_e ⇆ | BQB_IS
acald |
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Reaction | EX_akg_e | 2-Oxoglutarate exchange | ⇆ | akg_e ⇆ | BQB_IS
akg |
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Reaction | EX_co2_e | CO2 exchange | ⇆ | co2_e ⇆ | BQB_IS
co2 |
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Reaction | EX_etoh_e | Ethanol exchange | ⇆ | etoh_e ⇆ | BQB_IS
etoh |
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Reaction | EX_for_e | Formate exchange | ⇆ | for_e ⇆ | BQB_IS
for |
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Reaction | EX_fru_e | D-Fructose exchange | ⇆ | fru_e ⇆ | BQB_IS
fru |
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Reaction | EX_fum_e | Fumarate exchange | ⇆ | fum_e ⇆ | BQB_IS
fum |
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Reaction | EX_glc__D_e | D-Glucose exchange | ⇆ | glc__D_e ⇆ | BQB_IS
glc__D |
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Reaction | EX_gln__L_e | L-Glutamine exchange | ⇆ | gln__L_e ⇆ | BQB_IS
gln__L |
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Reaction | EX_glu__L_e | L-Glutamate exchange | ⇆ | glu__L_e ⇆ | BQB_IS
glu__L |
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Reaction | EX_h_e | H+ exchange | ⇆ | h_e ⇆ | BQB_IS
h |
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Reaction | EX_h2o_e | H2O exchange | ⇆ | h2o_e ⇆ | BQB_IS
h2o |
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Reaction | EX_lac__D_e | D-lactate exchange | ⇆ | lac__D_e ⇆ | BQB_IS
lac__D |
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Reaction | EX_mal__L_e | L-Malate exchange | ⇆ | mal__L_e ⇆ | BQB_IS
mal__L |
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Reaction | EX_nh4_e | Ammonia exchange | ⇆ | nh4_e ⇆ | BQB_IS
nh4 |
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Reaction | EX_o2_e | O2 exchange | ⇆ | o2_e ⇆ | BQB_IS
o2 |
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Reaction | EX_pi_e | Phosphate exchange | ⇆ | pi_e ⇆ | BQB_IS
pi |
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Reaction | EX_pyr_e | Pyruvate exchange | ⇆ | pyr_e ⇆ | BQB_IS
pyr |
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Reaction | EX_succ_e | Succinate exchange | ⇆ | succ_e ⇆ | BQB_IS
succ |
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Reaction | FBA | Fructose-bisphosphate aldolase | ⇆ | fdp_c ⇆ dhap_c + g3p_c | BQB_IS
FBA |
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Reaction | FBP | Fructose-bisphosphatase | ➞ | fdp_c + h2o_c ➞ f6p_c + pi_c | BQB_IS
FBP |
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Reaction | FORt2 | Formate transport in via proton symport | ➞ | for_e + h_e ➞ for_c + h_c | BQB_IS
FORt2 |
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Reaction | FORti | Formate transport via diffusion | ➞ | for_c ➞ for_e | BQB_IS
FORti |
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Reaction | FRD7 | Fumarate reductase | ➞ | fum_c + q8h2_c ➞ q8_c + succ_c | BQB_IS
FRD7 |
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Reaction | FRUpts2 | Fructose transport via PEP:Pyr PTS (f6p generating) | ➞ | fru_e + pep_c ➞ f6p_c + pyr_c | BQB_IS
FRUpts2 |
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Reaction | FUM | Fumarase | ⇆ | fum_c + h2o_c ⇆ mal__L_c | BQB_IS
FUM |
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Reaction | FUMt2_2 | Fumarate transport via proton symport (2 H) | ➞ | fum_e + 2.0 h_e ➞ fum_c + 2.0 h_c | BQB_IS
FUMt2_2 |
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Reaction | G6PDH2r | Glucose 6-phosphate dehydrogenase | ⇆ | g6p_c + nadp_c ⇆ M_6pgl_c + h_c + nadph_c | BQB_IS
G6PDH2r |
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Reaction | GAPD | Glyceraldehyde-3-phosphate dehydrogenase | ⇆ | g3p_c + nad_c + pi_c ⇆ M_13dpg_c + h_c + nadh_c | BQB_IS
GAPD |
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Reaction | GLCpts | D-glucose transport via PEP:Pyr PTS | ➞ | glc__D_e + pep_c ➞ g6p_c + pyr_c | BQB_IS
GLCpts |
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Reaction | GLNS | Glutamine synthetase | ➞ | atp_c + glu__L_c + nh4_c ➞ adp_c + gln__L_c + h_c + pi_c | BQB_IS
GLNS |
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Reaction | GLNabc | GLNabc | ➞ | atp_c + gln__L_e + h2o_c ➞ adp_c + gln__L_c + h_c + pi_c | BQB_IS
GLNabc |
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Reaction | GLUDy | Glutamate dehydrogenase (NADP) | ⇆ | glu__L_c + h2o_c + nadp_c ⇆ akg_c + h_c + nadph_c + nh4_c | BQB_IS
GLUDy |
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Reaction | GLUN | Glutaminase | ➞ | gln__L_c + h2o_c ➞ glu__L_c + nh4_c | BQB_IS
GLUN |
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Reaction | GLUSy | Glutamate synthase (NADPH) | ➞ | akg_c + gln__L_c + h_c + nadph_c ➞ 2.0 glu__L_c + nadp_c | BQB_IS
GLUSy |
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Reaction | GLUt2r | L glutamate transport via proton symport reversible | ⇆ | glu__L_e + h_e ⇆ glu__L_c + h_c | BQB_IS
GLUt2r |
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Reaction | GND | Phosphogluconate dehydrogenase | ➞ | M_6pgc_c + nadp_c ➞ co2_c + nadph_c + ru5p__D_c | BQB_IS
GND |
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Reaction | H2Ot | H2O transport via diffusion | ⇆ | h2o_e ⇆ h2o_c | BQB_IS
H2Ot |
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Reaction | ICDHyr | Isocitrate dehydrogenase (NADP) | ⇆ | icit_c + nadp_c ⇆ akg_c + co2_c + nadph_c | BQB_IS
ICDHyr |
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Reaction | ICL | Isocitrate lyase | ➞ | icit_c ➞ glx_c + succ_c | BQB_IS
ICL |
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Reaction | LDH_D | D-lactate dehydrogenase | ⇆ | lac__D_c + nad_c ⇆ h_c + nadh_c + pyr_c | BQB_IS
LDH_D |
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Reaction | MALS | Malate synthase | ➞ | accoa_c + glx_c + h2o_c ➞ coa_c + h_c + mal__L_c | BQB_IS
MALS |
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Reaction | MALt2_2 | Malate transport via proton symport (2 H) | ➞ | 2.0 h_e + mal__L_e ➞ 2.0 h_c + mal__L_c | BQB_IS
MALt2_2 |
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Reaction | MDH | Malate dehydrogenase | ⇆ | mal__L_c + nad_c ⇆ h_c + nadh_c + oaa_c | BQB_IS
MDH |
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Reaction | ME1 | Malic enzyme (NAD) | ➞ | mal__L_c + nad_c ➞ co2_c + nadh_c + pyr_c | BQB_IS
ME1 |
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Reaction | ME2 | Malic enzyme (NADP) | ➞ | mal__L_c + nadp_c ➞ co2_c + nadph_c + pyr_c | BQB_IS
ME2 |
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Reaction | NADH16 | NADH dehydrogenase (ubiquinone-8 & 3 protons) | ➞ | 4.0 h_c + nadh_c + q8_c ➞ 3.0 h_e + nad_c + q8h2_c | BQB_IS
NADH16 |
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Reaction | NADTRHD | NAD transhydrogenase | ➞ | nad_c + nadph_c ➞ nadh_c + nadp_c | BQB_IS
NADTRHD |
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Reaction | NH4t | Ammonia reversible transport | ⇆ | nh4_e ⇆ nh4_c | BQB_IS
NH4t |
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Reaction | O2t | O2 transport diffusion | ⇆ | o2_e ⇆ o2_c | BQB_IS
O2t |
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Reaction | PDH | Pyruvate dehydrogenase | ➞ | coa_c + nad_c + pyr_c ➞ accoa_c + co2_c + nadh_c | BQB_IS
PDH |
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Reaction | PFK | Phosphofructokinase | ➞ | atp_c + f6p_c ➞ adp_c + fdp_c + h_c | BQB_IS
PFK |
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Reaction | PFL | Pyruvate formate lyase | ➞ | coa_c + pyr_c ➞ accoa_c + for_c | BQB_IS
PFL |
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Reaction | PGI | Glucose-6-phosphate isomerase | ⇆ | g6p_c ⇆ f6p_c | BQB_IS
PGI |
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Reaction | PGK | Phosphoglycerate kinase | ⇆ | M_3pg_c + atp_c ⇆ M_13dpg_c + adp_c | BQB_IS
PGK |
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Reaction | PGL | 6-phosphogluconolactonase | ➞ | M_6pgl_c + h2o_c ➞ M_6pgc_c + h_c | BQB_IS
PGL |
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Reaction | PGM | Phosphoglycerate mutase | ⇆ | M_2pg_c ⇆ M_3pg_c | BQB_IS
PGM |
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Reaction | PIt2r | Phosphate reversible transport via symport | ⇆ | h_e + pi_e ⇆ h_c + pi_c | BQB_IS
PIt2r |
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Reaction | PPC | Phosphoenolpyruvate carboxylase | ➞ | co2_c + h2o_c + pep_c ➞ h_c + oaa_c + pi_c | BQB_IS
PPC |
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Reaction | PPCK | Phosphoenolpyruvate carboxykinase | ➞ | atp_c + oaa_c ➞ adp_c + co2_c + pep_c | BQB_IS
PPCK |
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Reaction | PPS | Phosphoenolpyruvate synthase | ➞ | atp_c + h2o_c + pyr_c ➞ amp_c + 2.0 h_c + pep_c + pi_c | BQB_IS
PPS |
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Reaction | PTAr | Phosphotransacetylase | ⇆ | accoa_c + pi_c ⇆ actp_c + coa_c | BQB_IS
PTAr |
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Reaction | PYK | Pyruvate kinase | ➞ | adp_c + h_c + pep_c ➞ atp_c + pyr_c | BQB_IS
PYK |
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Reaction | PYRt2 | Pyruvate transport in via proton symport | ⇆ | h_e + pyr_e ⇆ h_c + pyr_c | BQB_IS
PYRt2 |
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Reaction | RPE | Ribulose 5-phosphate 3-epimerase | ⇆ | ru5p__D_c ⇆ xu5p__D_c | BQB_IS
RPE |
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Reaction | RPI | Ribose-5-phosphate isomerase | ⇆ | r5p_c ⇆ ru5p__D_c | BQB_IS
RPI |
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Reaction | SUCCt2_2 | Succinate transport via proton symport (2 H) | ➞ | 2.0 h_e + succ_e ➞ 2.0 h_c + succ_c | BQB_IS
SUCCt2_2 |
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Reaction | SUCCt3 | Succinate transport out via proton antiport | ➞ | h_e + succ_c ➞ h_c + succ_e | BQB_IS
SUCCt3 |
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Reaction | SUCDi | Succinate dehydrogenase (irreversible) | ➞ | q8_c + succ_c ➞ fum_c + q8h2_c | BQB_IS
SUCDi |
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Reaction | SUCOAS | Succinyl-CoA synthetase (ADP-forming) | ⇆ | atp_c + coa_c + succ_c ⇆ adp_c + pi_c + succoa_c | BQB_IS
SUCOAS |
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Reaction | TALA | Transaldolase | ⇆ | g3p_c + s7p_c ⇆ e4p_c + f6p_c | BQB_IS
TALA |
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Reaction | THD2 | NAD(P) transhydrogenase | ➞ | 2.0 h_e + nadh_c + nadp_c ➞ 2.0 h_c + nad_c + nadph_c | BQB_IS
THD2 |
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Reaction | TKT1 | Transketolase | ⇆ | r5p_c + xu5p__D_c ⇆ g3p_c + s7p_c | BQB_IS
TKT1 |
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Reaction | TKT2 | Transketolase | ⇆ | e4p_c + xu5p__D_c ⇆ f6p_c + g3p_c | BQB_IS
TKT2 |
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Reaction | TPI | Triose-phosphate isomerase | ⇆ | dhap_c ⇆ g3p_c | BQB_IS
TPI |