Mercurial > repos > bimib > cobraxy
changeset 327:3708b6751876 draft
Uploaded
| author | francesco_lapi |
|---|---|
| date | Wed, 02 Jul 2025 09:35:26 +0000 |
| parents | 3dccdf56cb24 |
| children | 0bb8dd125b42 |
| files | COBRAxy/local/models/ENGRO2.xml |
| diffstat | 1 files changed, 2261 insertions(+), 0 deletions(-) [+] |
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--- a/COBRAxy/local/models/ENGRO2.xml Mon Jun 30 11:07:55 2025 +0000 +++ b/COBRAxy/local/models/ENGRO2.xml Wed Jul 02 09:35:26 2025 +0000 @@ -421,126 +421,251 @@ </listOfParameters> <listOfReactions> <reaction metaid="meta_R_EX_lac__L_e" sboTerm="SBO:0000627" id="R_EX_lac__L_e" name="EX_lactatex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-lactate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_lac__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_glc__D_e" sboTerm="SBO:0000627" id="R_EX_glc__D_e" name="EX_glucosex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['D-glycime exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glc__D_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_glu__L_e" sboTerm="SBO:0000627" id="R_EX_glu__L_e" name="EX_glutamateINx" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-glutamate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_gln__L_e" sboTerm="SBO:0000627" id="R_EX_gln__L_e" name="EX_glutaminex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-glycine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gln__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_asp__L_e" sboTerm="SBO:0000627" id="R_EX_asp__L_e" name="EX_aspartatex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-aspartate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_co2_e" sboTerm="SBO:0000627" id="R_EX_co2_e" name="EX_CO2x" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['CO2 exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_co2_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_h_e" sboTerm="SBO:0000627" id="R_EX_h_e" name="EX_Hx" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['H exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_h2o_e" sboTerm="SBO:0000627" id="R_EX_h2o_e" name="EX_H2Ox" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['H2O exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_pi_e" sboTerm="SBO:0000627" id="R_EX_pi_e" name="EX_Pix" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Phosphate exchange ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_nh4_e" sboTerm="SBO:0000627" id="R_EX_nh4_e" name="EX_NH3x" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['NH4 exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_nh4_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_o2_e" sboTerm="SBO:0000627" id="R_EX_o2_e" name="EX_O2x" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['O2 exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_o2_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_arg__L_e" sboTerm="SBO:0000627" id="R_EX_arg__L_e" name="EX_argininex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-arginine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_arg__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_pro__L_e" sboTerm="SBO:0000627" id="R_EX_pro__L_e" name="EX_prolinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-proline exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_pro__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_leu__L_e" sboTerm="SBO:0000627" id="R_EX_leu__L_e" name="EX_leucinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-leucine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_leu__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_ile__L_e" sboTerm="SBO:0000627" id="R_EX_ile__L_e" name="EX_isoleucinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-isoleucine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ile__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_met__L_e" sboTerm="SBO:0000627" id="R_EX_met__L_e" name="EX_methionine" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-methionine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_met__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_gly_e" sboTerm="SBO:0000627" id="R_EX_gly_e" name="EX_glycinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gly_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_phe__L_e" sboTerm="SBO:0000627" id="R_EX_phe__L_e" name="EX_phenylalaninex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-pheninaline exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_phe__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_ser__L_e" sboTerm="SBO:0000627" id="R_EX_ser__L_e" name="EX_serinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-serine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ser__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_ala__L_e" sboTerm="SBO:0000627" id="R_EX_ala__L_e" name="EX_alaninex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-alanine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ala__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_asn__L_e" sboTerm="SBO:0000627" id="R_EX_asn__L_e" name="EX_asparaginex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-asparagine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asn__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_fol_e" sboTerm="SBO:0000627" id="R_EX_fol_e" name="EX_folatex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fol_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_urea_e" sboTerm="SBO:0000627" id="R_EX_urea_e" name="EX_ureax" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_urea_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_pyr_e" sboTerm="SBO:0000627" id="R_EX_pyr_e" name="EX_pyruvatex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvat exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_pyr_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_PYRt2" sboTerm="SBO:0000176" id="R_PYRt2" name="Pyruvate transport in via proton symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_e" stoichiometry="1" constant="true"/> <speciesReference species="M_pyr_e" stoichiometry="1" constant="true"/> @@ -558,121 +683,241 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_EX_gudac_e" sboTerm="SBO:0000627" id="R_EX_gudac_e" name="EX_guanidinoacetatex" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Guanidinoacetic acid exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gudac_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_hdca_e" sboTerm="SBO:0000627" id="R_EX_hdca_e" name="EX_palmitatex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Hexadecanoate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_hdca_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_ptrc_e" sboTerm="SBO:0000627" id="R_EX_ptrc_e" name="EX_putrescinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Putrescine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ptrc_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_biomassx" sboTerm="SBO:0000627" id="R_EX_biomassx" name="EX_biomassx" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Biomass exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_BIOMASSA_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_gthox_e" sboTerm="SBO:0000627" id="R_EX_gthox_e" name="EX_GSSGx" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidized glutathione exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthox_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_2obut_e" sboTerm="SBO:0000627" id="R_EX_2obut_e" name="EX_2oxobutyratex" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['2-Oxobutanoate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2obut_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_val__L_e" sboTerm="SBO:0000627" id="R_EX_val__L_e" name="EX_valinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-valine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_val__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_spmd_e" sboTerm="SBO:0000627" id="R_EX_spmd_e" name="EX_spermidinex" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Spermidine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_spmd_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_sprm_e" sboTerm="SBO:0000627" id="R_EX_sprm_e" name="EX_sperminex" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Spermine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_sprm_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_5mthf_e" sboTerm="SBO:0000627" id="R_EX_5mthf_e" name="EX_5methylTHFx" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['5-Methyltetrahydrofolate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5mthf_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_thbpt_e" sboTerm="SBO:0000627" id="R_EX_thbpt_e" name="EX_tetrahydrobiopterinx" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['5,6,7,8-Tetrahydrobiopterin exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_thbpt_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_CE2705_e" sboTerm="SBO:0000627" id="R_EX_CE2705_e" name="EX_dihydrobiopterinx" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Quinonoid Dihydrobiopterin exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_CE2705_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_crtn_e" sboTerm="SBO:0000627" id="R_EX_crtn_e" name="EX_creatininex" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Creatinine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_crtn_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_his__L_e" sboTerm="SBO:0000627" id="R_EX_his__L_e" name="EX_histidinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-histidine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_his__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_lys__L_e" sboTerm="SBO:0000627" id="R_EX_lys__L_e" name="EX_lysinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-lysine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_lys__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_cys__L_e" sboTerm="SBO:0000627" id="R_EX_cys__L_e" name="EX_cysteinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-cysteine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cys__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_so3_e" sboTerm="SBO:0000627" id="R_EX_so3_e" name="EX_sulfitex" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Sulfite exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_so3_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_thr__L_e" sboTerm="SBO:0000627" id="R_EX_thr__L_e" name="EX_threoninex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-threonine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_thr__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_trp__L_e" sboTerm="SBO:0000627" id="R_EX_trp__L_e" name="EX_tryptophanx" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-tryptophan exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_trp__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_anth_e" sboTerm="SBO:0000627" id="R_EX_anth_e" name="EX_anthx" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Anthranilate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_anth_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_tyr__L_e" sboTerm="SBO:0000627" id="R_EX_tyr__L_e" name="EX_tyrosinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-tyrosine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_tyr__L_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_Lcystin_e" sboTerm="SBO:0000627" id="R_EX_Lcystin_e" name="EX_cystinex" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['L-cysteate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_EX_gthrd_e" sboTerm="SBO:0000627" id="R_EX_gthrd_e" name="EX_GSHx" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Reduced glutathione exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthrd_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction metaid="meta_R_HEX1" sboTerm="SBO:0000176" id="R_HEX1" name="GCK1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/> @@ -693,6 +938,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_G6PP" sboTerm="SBO:0000176" id="R_G6PP" name="G6PP" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -710,6 +960,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PGI" sboTerm="SBO:0000176" id="R_PGI" name="GPI" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -721,6 +976,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PFK" sboTerm="SBO:0000176" id="R_PFK" name="PFK1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_f6p_c" stoichiometry="1" constant="true"/> @@ -739,6 +999,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FBP" sboTerm="SBO:0000176" id="R_FBP" name="FBP" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -755,6 +1020,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FBA" sboTerm="SBO:0000176" id="R_FBA" name="FBPALDO" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fdp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -771,6 +1041,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TPI" sboTerm="SBO:0000176" id="R_TPI" name="TPI" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -782,6 +1057,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GAPD" sboTerm="SBO:0000176" id="R_GAPD" name="GAPDH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> @@ -800,6 +1080,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PGK" sboTerm="SBO:0000176" id="R_PGK" name="PGK" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_13dpg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> @@ -816,6 +1101,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DPGM" sboTerm="SBO:0000176" id="R_DPGM" name="13BPGM" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_13dpg_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -832,6 +1122,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DPGase" sboTerm="SBO:0000176" id="R_DPGase" name="23BPGM" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_23dpg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -849,6 +1144,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PGM" sboTerm="SBO:0000176" id="R_PGM" name="PGM_1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3pg_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -864,6 +1164,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ENO" sboTerm="SBO:0000176" id="R_ENO" name="ENO" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2pg_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -880,6 +1185,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PYK" sboTerm="SBO:0000176" id="R_PYK" name="PK" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis', 'Gluconeogenesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -897,6 +1207,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_LDH_L" sboTerm="SBO:0000176" id="R_LDH_L" name="LDH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lactic acid fermentation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> @@ -918,6 +1233,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0407" sboTerm="SBO:0000176" id="R_r0407" name="ALDO1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC00361_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -934,6 +1254,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PRPPS" sboTerm="SBO:0000176" id="R_PRPPS" name="PRPS1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/> @@ -952,6 +1277,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_G6PDH2r" sboTerm="SBO:0000176" id="R_G6PDH2r" name="G6PD" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_g6p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> @@ -966,6 +1296,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PGL" sboTerm="SBO:0000176" id="R_PGL" name="PGLS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_6pgl_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -982,6 +1317,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GND" sboTerm="SBO:0000176" id="R_GND" name="6PGD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_6pgc_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> @@ -996,6 +1336,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RPI" sboTerm="SBO:0000176" id="R_RPI" name="RPI" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1007,6 +1352,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TKT2" sboTerm="SBO:0000176" id="R_TKT2" name="TKT1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_e4p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/> @@ -1024,6 +1374,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RPE" sboTerm="SBO:0000176" id="R_RPE" name="RPE" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ru5p__D_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1038,6 +1393,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TKT1" sboTerm="SBO:0000176" id="R_TKT1" name="TKT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_r5p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_xu5p__D_c" stoichiometry="1" constant="true"/> @@ -1055,6 +1415,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TALA" sboTerm="SBO:0000176" id="R_TALA" name="TALDO1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_g3p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/> @@ -1068,6 +1433,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0408" sboTerm="SBO:0000176" id="R_r0408" name="SBPase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_s7p_c" stoichiometry="1" constant="true"/> @@ -1086,6 +1456,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PDHm" sboTerm="SBO:0000176" id="R_PDHm" name="PDH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -1110,6 +1485,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PCm" sboTerm="SBO:0000176" id="R_PCm" name="PC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_hco3_m" stoichiometry="1" constant="true"/> @@ -1126,6 +1506,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PEPCK_re" sboTerm="SBO:0000176" id="R_PEPCK_re" name="PEPCK" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_oaa_c" stoichiometry="1" constant="true"/> @@ -1140,6 +1525,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CSm" sboTerm="SBO:0000176" id="R_CSm" name="CS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_accoa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -1155,6 +1545,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACONTm" sboTerm="SBO:0000176" id="R_ACONTm" name="mACO" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cit_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1169,6 +1564,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ICDHxm" sboTerm="SBO:0000176" id="R_ICDHxm" name="IDH3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_icit_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -1187,6 +1587,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ICDHym" sboTerm="SBO:0000176" id="R_ICDHym" name="IDH2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_icit_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_m" stoichiometry="1" constant="true"/> @@ -1201,6 +1606,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AKGDm" sboTerm="SBO:0000176" id="R_AKGDm" name="AKGDH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -1220,6 +1630,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SUCOAS1m" sboTerm="SBO:0000176" id="R_SUCOAS1m" name="SCS" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gdp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_pi_m" stoichiometry="1" constant="true"/> @@ -1238,6 +1653,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SUCD1m" sboTerm="SBO:0000176" id="R_SUCD1m" name="SDH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_m" stoichiometry="1" constant="true"/> <speciesReference species="M_succ_m" stoichiometry="1" constant="true"/> @@ -1256,6 +1676,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FUMm" sboTerm="SBO:0000176" id="R_FUMm" name="FH1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fum_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -1268,6 +1693,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MDHm" sboTerm="SBO:0000176" id="R_MDHm" name="MDH2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mal__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -1282,6 +1712,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ME1m" sboTerm="SBO:0000176" id="R_ME1m" name="ME2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mal__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -1296,6 +1731,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ME2m" sboTerm="SBO:0000176" id="R_ME2m" name="ME3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mal__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_m" stoichiometry="1" constant="true"/> @@ -1310,6 +1750,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ME2" sboTerm="SBO:0000176" id="R_ME2" name="ME1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> @@ -1324,6 +1769,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACITL" sboTerm="SBO:0000176" id="R_ACITL" name="ACLY" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_cit_c" stoichiometry="1" constant="true"/> @@ -1340,6 +1790,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FUM" sboTerm="SBO:0000176" id="R_FUM" name="FH2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -1352,6 +1807,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MDH" sboTerm="SBO:0000176" id="R_MDH" name="MDH1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mal__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> @@ -1369,6 +1829,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AKGMALtm" sboTerm="SBO:0000176" id="R_AKGMALtm" name="SLC25A11" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_mal__L_m" stoichiometry="1" constant="true"/> @@ -1385,6 +1850,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACONT" sboTerm="SBO:0000176" id="R_ACONT" name="cACO" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Carbon metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cit_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1396,6 +1866,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ICDHyr" sboTerm="SBO:0000176" id="R_ICDHyr" name="IDH1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Carbon metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_icit_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> @@ -1410,6 +1885,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PPA" sboTerm="SBO:0000176" id="R_PPA" name="cPPA" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ppi_c" stoichiometry="1" constant="true"/> @@ -1426,6 +1906,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_Complex1ROS" sboTerm="SBO:0000176" id="R_Complex1ROS" name="Complex1ROS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_m" stoichiometry="4.75" constant="true"/> <speciesReference species="M_nadh_m" stoichiometry="1" constant="true"/> @@ -1483,6 +1968,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FADH2ETC" sboTerm="SBO:0000176" id="R_FADH2ETC" name="Complex2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fadh2_m" stoichiometry="1" constant="true"/> <speciesReference species="M_q10_m" stoichiometry="1" constant="true"/> @@ -1500,6 +1990,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CYOR_u10mi" sboTerm="SBO:0000176" id="R_CYOR_u10mi" name="Complex3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ficytC_m" stoichiometry="2" constant="true"/> <speciesReference species="M_h_m" stoichiometry="2" constant="true"/> @@ -1526,6 +2021,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CYOOm2i" sboTerm="SBO:0000176" id="R_CYOOm2i" name="Complex4" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_focytC_m" stoichiometry="4" constant="true"/> <speciesReference species="M_h_m" stoichiometry="8" constant="true"/> @@ -1573,6 +2073,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ATPS4mi" sboTerm="SBO:0000176" id="R_ATPS4mi" name="ATPsynthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="4" constant="true"/> @@ -1608,6 +2113,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUCYS" sboTerm="SBO:0000176" id="R_GLUCYS" name="GCL" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/> @@ -1627,6 +2137,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GTHS" sboTerm="SBO:0000176" id="R_GTHS" name="GSS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_glucys_c" stoichiometry="1" constant="true"/> @@ -1643,6 +2158,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SPODMm" sboTerm="SBO:0000176" id="R_SPODMm" name="SOD2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_m" stoichiometry="2" constant="true"/> <speciesReference species="M_o2s_m" stoichiometry="2" constant="true"/> @@ -1656,6 +2176,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GTHPi" sboTerm="SBO:0000176" id="R_GTHPi" name="GPcit" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthrd_c" stoichiometry="2" constant="true"/> <speciesReference species="M_h2o2_c" stoichiometry="1" constant="true"/> @@ -1675,6 +2200,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GTHPm" sboTerm="SBO:0000176" id="R_GTHPm" name="GPmit" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthrd_m" stoichiometry="2" constant="true"/> <speciesReference species="M_h2o2_m" stoichiometry="1" constant="true"/> @@ -1692,6 +2222,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GDR" sboTerm="SBO:0000176" id="R_GDR" name="cGSRnadh" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -1706,6 +2241,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GTHOr" sboTerm="SBO:0000176" id="R_GTHOr" name="cGSRnadph" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthox_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -1720,6 +2260,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GDRm" sboTerm="SBO:0000176" id="R_GDRm" name="mGSRnadh" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthox_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -1734,6 +2279,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GTHOm" sboTerm="SBO:0000176" id="R_GTHOm" name="mGSRnadph" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthox_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -1748,6 +2298,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0885" sboTerm="SBO:0000176" id="R_r0885" name="TrasportGSH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pi_m" stoichiometry="1" constant="true"/> @@ -1761,6 +2316,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PYRt2m" sboTerm="SBO:0000176" id="R_PYRt2m" name="MPC" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> @@ -1778,6 +2338,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_4964" sboTerm="SBO:0000176" id="R_HMR_4964" name="SLC25A1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Alternative Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cit_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -1793,6 +2358,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r2420" sboTerm="SBO:0000176" id="R_r2420" name="SLC25A2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pi transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> @@ -1806,6 +2376,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ATPtm" sboTerm="SBO:0000176" id="R_ATPtm" name="ANT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['ATP transport ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_m" stoichiometry="1" constant="true"/> @@ -1823,6 +2398,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FUMtm" sboTerm="SBO:0000176" id="R_FUMtm" name="SLC25A10" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fumarate transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fum_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pi_m" stoichiometry="1" constant="true"/> @@ -1836,6 +2416,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CO2tm" sboTerm="SBO:0000176" id="R_CO2tm" name="TransportCO2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['CO2 transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1844,6 +2429,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_O2tm" sboTerm="SBO:0000176" id="R_O2tm" name="TransportO2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Oxidative phosphorylation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1852,6 +2442,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_r0801" sboTerm="SBO:0000176" id="R_r0801" name="GNT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['GDP transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gtp_m" stoichiometry="1" constant="true"/> @@ -1865,6 +2460,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_THD1m" sboTerm="SBO:0000176" id="R_THD1m" name="NNT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['NAD metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadh_m" stoichiometry="1" constant="true"/> @@ -1880,6 +2480,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_H2Otm" sboTerm="SBO:0000176" id="R_H2Otm" name="AQP8" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Water transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1891,6 +2496,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NH4tm" sboTerm="SBO:0000176" id="R_NH4tm" name="TransportNH3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Ammonia detox']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -1899,6 +2509,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_HCO3E" sboTerm="SBO:0000176" id="R_HCO3E" name="cCA" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Miscellaneous']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -1923,6 +2538,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HCO3Em" sboTerm="SBO:0000176" id="R_HCO3Em" name="mCA" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Miscellaneous']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_co2_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -1939,6 +2559,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUN" sboTerm="SBO:0000176" id="R_GLUN" name="cGLS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -1952,6 +2577,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLNS" sboTerm="SBO:0000176" id="R_GLNS" name="GS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> @@ -1971,6 +2601,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUt2m" sboTerm="SBO:0000176" id="R_GLUt2m" name="GluCarrier" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -1987,6 +2622,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLNtm_1" sboTerm="SBO:0000176" id="R_GLNtm_1" name="GlnCarrier" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -1997,6 +2637,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_GLUNm" sboTerm="SBO:0000176" id="R_GLUNm" name="mGLS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gln__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -2013,6 +2658,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUPRT" sboTerm="SBO:0000176" id="R_GLUPRT" name="PPAT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -2028,6 +2678,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PRAGSr" sboTerm="SBO:0000176" id="R_PRAGSr" name="GART1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/> @@ -2044,6 +2699,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GARFT" sboTerm="SBO:0000176" id="R_GARFT" name="GART2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gar_c" stoichiometry="1" constant="true"/> @@ -2058,6 +2718,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PRFGS" sboTerm="SBO:0000176" id="R_PRFGS" name="PFAS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_fgam_c" stoichiometry="1" constant="true"/> @@ -2076,6 +2741,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PRAIS" sboTerm="SBO:0000176" id="R_PRAIS" name="GART3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_fpram_c" stoichiometry="1" constant="true"/> @@ -2091,6 +2761,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AIRCr" sboTerm="SBO:0000176" id="R_AIRCr" name="PAICS1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_air_c" stoichiometry="1" constant="true"/> <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> @@ -2104,6 +2779,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PRASCSi" sboTerm="SBO:0000176" id="R_PRASCSi" name="PAICS2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5aizc_c" stoichiometry="1" constant="true"/> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> @@ -2120,6 +2800,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADSL2r" sboTerm="SBO:0000176" id="R_ADSL2r" name="PAICS3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_25aics_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2132,6 +2817,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AICART" sboTerm="SBO:0000176" id="R_AICART" name="ATIC1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_aicar_c" stoichiometry="1" constant="true"/> @@ -2145,6 +2835,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_IMPC" sboTerm="SBO:0000176" id="R_IMPC" name="ATIC2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Purine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fprica_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2157,6 +2852,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADSS" sboTerm="SBO:0000176" id="R_ADSS" name="ADSS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gtp_c" stoichiometry="1" constant="true"/> @@ -2176,6 +2876,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADSL1r" sboTerm="SBO:0000176" id="R_ADSL1r" name="ADSL" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dcamp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2188,6 +2893,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_IMPDH2" sboTerm="SBO:0000176" id="R_IMPDH2" name="IMPDH2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_imp_c" stoichiometry="1" constant="true"/> @@ -2206,6 +2916,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GMPS" sboTerm="SBO:0000176" id="R_GMPS" name="GMPS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> @@ -2222,6 +2937,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GMPS2" sboTerm="SBO:0000176" id="R_GMPS2" name="GMPS2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> @@ -2240,6 +2960,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GK1" sboTerm="SBO:0000176" id="R_GK1" name="GUK1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gmp_c" stoichiometry="1" constant="true"/> @@ -2253,6 +2978,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RNDR2" sboTerm="SBO:0000176" id="R_RNDR2" name="RRM2B1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2271,6 +3001,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADK1" sboTerm="SBO:0000176" id="R_ADK1" name="cAK" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_amp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -2288,6 +3023,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RNDR1" sboTerm="SBO:0000176" id="R_RNDR1" name="RRM2B2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2306,6 +3046,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CBPS" sboTerm="SBO:0000176" id="R_CBPS" name="CAD1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyrimidine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="2" constant="true"/> <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> @@ -2324,6 +3069,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASPCT" sboTerm="SBO:0000176" id="R_ASPCT" name="CAD2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyrimidine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_cbp_c" stoichiometry="1" constant="true"/> @@ -2338,6 +3088,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DHORTS" sboTerm="SBO:0000176" id="R_DHORTS" name="CAD3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyrimidine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cbasp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -2351,6 +3106,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DHORD9" sboTerm="SBO:0000176" id="R_DHORD9" name="DHODH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyrimidine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dhor__S_c" stoichiometry="1" constant="true"/> <speciesReference species="M_q10_m" stoichiometry="1" constant="true"/> @@ -2364,6 +3124,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ORPT" sboTerm="SBO:0000176" id="R_ORPT" name="UMPS1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyrimidine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_orot_c" stoichiometry="1" constant="true"/> <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/> @@ -2377,6 +3142,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_OMPDC" sboTerm="SBO:0000176" id="R_OMPDC" name="UMPS2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyrimidine synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_orot5p_c" stoichiometry="1" constant="true"/> @@ -2390,6 +3160,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_UMPK" sboTerm="SBO:0000176" id="R_UMPK" name="CMPK1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ump_c" stoichiometry="1" constant="true"/> @@ -2403,6 +3178,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RNDR4" sboTerm="SBO:0000176" id="R_RNDR4" name="RRM2B3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2421,6 +3201,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TMDS" sboTerm="SBO:0000176" id="R_TMDS" name="TYMS" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dump_c" stoichiometry="1" constant="true"/> <speciesReference species="M_mlthf_c" stoichiometry="1" constant="true"/> @@ -2434,6 +3219,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_URIDK2r" sboTerm="SBO:0000176" id="R_URIDK2r" name="CMPK2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_dudp_c" stoichiometry="1" constant="true"/> @@ -2447,6 +3237,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NDPK2" sboTerm="SBO:0000176" id="R_NDPK2" name="NME1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_udp_c" stoichiometry="1" constant="true"/> @@ -2468,6 +3263,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NDPK3" sboTerm="SBO:0000176" id="R_NDPK3" name="NME2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ctp_c" stoichiometry="1" constant="true"/> @@ -2489,6 +3289,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CTPS1" sboTerm="SBO:0000176" id="R_CTPS1" name="CTPS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> @@ -2508,6 +3313,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RNDR3" sboTerm="SBO:0000176" id="R_RNDR3" name="RRM2B4" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cdp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2526,6 +3336,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GDHm" sboTerm="SBO:0000176" id="R_GDHm" name="GLUDnadh" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutamate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -2545,6 +3360,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUDym" sboTerm="SBO:0000176" id="R_GLUDym" name="GLUDnadph" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutamate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -2564,6 +3384,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASPTA" sboTerm="SBO:0000176" id="R_ASPTA" name="cGOT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> @@ -2577,6 +3402,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASPTAm" sboTerm="SBO:0000176" id="R_ASPTAm" name="mGOT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_oaa_m" stoichiometry="1" constant="true"/> @@ -2590,6 +3420,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASPGLUm" sboTerm="SBO:0000176" id="R_ASPGLUm" name="GLAST" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> @@ -2608,6 +3443,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASPT" sboTerm="SBO:0000176" id="R_ASPT" name="FH3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2620,6 +3460,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CBPSam" sboTerm="SBO:0000176" id="R_CBPSam" name="CPS1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Malate and aspartate shuttle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_m" stoichiometry="2" constant="true"/> <speciesReference species="M_hco3_m" stoichiometry="1" constant="true"/> @@ -2636,6 +3481,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_OCBTm" sboTerm="SBO:0000176" id="R_OCBTm" name="OTC" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Ammonia detox']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cbp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_orn_m" stoichiometry="1" constant="true"/> @@ -2650,6 +3500,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ORNt4m" sboTerm="SBO:0000176" id="R_ORNt4m" name="ORNT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Ammonia detox']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_citr__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -2668,6 +3523,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ARGSS" sboTerm="SBO:0000176" id="R_ARGSS" name="ASS1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -2684,6 +3544,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ARGSL" sboTerm="SBO:0000176" id="R_ARGSL" name="ASL" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_argsuc_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2696,6 +3561,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ARGN" sboTerm="SBO:0000176" id="R_ARGN" name="ARG1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_arg__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -2709,6 +3579,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ORNDC" sboTerm="SBO:0000176" id="R_ORNDC" name="ODC1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_orn_c" stoichiometry="1" constant="true"/> @@ -2722,6 +3597,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SPMS" sboTerm="SBO:0000176" id="R_SPMS" name="SpermidineSynthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ametam_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/> @@ -2736,6 +3616,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SPRMS" sboTerm="SBO:0000176" id="R_SPRMS" name="SpermineSynthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ametam_c" stoichiometry="1" constant="true"/> <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/> @@ -2753,6 +3638,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADMDC" sboTerm="SBO:0000176" id="R_ADMDC" name="AMD1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -2766,6 +3656,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTAP" sboTerm="SBO:0000176" id="R_MTAP" name="MTAP" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5mta_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pi_c" stoichiometry="1" constant="true"/> @@ -2779,6 +3674,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADPT" sboTerm="SBO:0000176" id="R_ADPT" name="APRT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ade_c" stoichiometry="1" constant="true"/> <speciesReference species="M_prpp_c" stoichiometry="1" constant="true"/> @@ -2792,6 +3692,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTRI" sboTerm="SBO:0000176" id="R_MTRI" name="MRI1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5mdr1p_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2800,6 +3705,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_MDRPD" sboTerm="SBO:0000176" id="R_MDRPD" name="MTRUD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5mdru1p_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2819,6 +3729,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DKMPPD" sboTerm="SBO:0000176" id="R_DKMPPD" name="dkmppDegradation" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dkmpp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -2832,6 +3747,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_SPMDtex2" sboTerm="SBO:0000176" id="R_SPMDtex2" name="DMspermidine" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_spmd_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2840,6 +3760,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_SPRMti" sboTerm="SBO:0000176" id="R_SPRMti" name="DMspermine" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_sprm_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2851,6 +3776,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLYAMDTRc" sboTerm="SBO:0000176" id="R_GLYAMDTRc" name="AGAT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_arg__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/> @@ -2864,6 +3794,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ARGDr" sboTerm="SBO:0000176" id="R_ARGDr" name="ARGAH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_arg__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -2874,6 +3809,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_r0074" sboTerm="SBO:0000176" id="R_r0074" name="ALDH18A1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="2" constant="true"/> @@ -2889,6 +3829,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLU5SAtmc" sboTerm="SBO:0000176" id="R_GLU5SAtmc" name="TransportGLU5SA" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu5sa_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2897,6 +3842,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_G5SADs" sboTerm="SBO:0000176" id="R_G5SADs" name="ALDH4A1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu5sa_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -2910,6 +3860,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PRO1x" sboTerm="SBO:0000176" id="R_PRO1x" name="P5CR2nadh" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_1pyr5c_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> @@ -2924,6 +3879,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_P5CR" sboTerm="SBO:0000176" id="R_P5CR" name="P5CR2nadph" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_1pyr5c_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> @@ -2938,6 +3898,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PROD2" sboTerm="SBO:0000176" id="R_PROD2" name="PRODH2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pro__L_c" stoichiometry="1" constant="true"/> @@ -2952,6 +3917,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TransportFAD" sboTerm="SBO:0000176" id="R_TransportFAD" name="TransportFAD" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['FAD transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_m" stoichiometry="1" constant="true"/> <speciesReference species="M_fadh2_c" stoichiometry="1" constant="true"/> @@ -2962,6 +3932,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_ASNS1" sboTerm="SBO:0000176" id="R_ASNS1" name="ASNS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -2980,6 +3955,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASNN" sboTerm="SBO:0000176" id="R_ASNN" name="ASRGL1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asn__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -2996,6 +3976,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_METS" sboTerm="SBO:0000176" id="R_METS" name="MTR" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5mthf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_hcys__L_c" stoichiometry="1" constant="true"/> @@ -3010,6 +3995,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_METAT" sboTerm="SBO:0000176" id="R_METAT" name="MAT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -3031,6 +4021,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_3915" sboTerm="SBO:0000176" id="R_HMR_3915" name="HNMT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/> <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/> @@ -3044,6 +4039,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AHCi" sboTerm="SBO:0000176" id="R_AHCi" name="AHCY" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ahcys_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -3064,6 +4064,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ADNK1" sboTerm="SBO:0000176" id="R_ADNK1" name="ADK" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_adn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -3078,6 +4083,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CYSTS" sboTerm="SBO:0000176" id="R_CYSTS" name="CBS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_hcys__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/> @@ -3091,6 +4101,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CYSTGL" sboTerm="SBO:0000176" id="R_CYSTGL" name="CTH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cyst__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -3105,6 +4120,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTHFR3" sboTerm="SBO:0000176" id="R_MTHFR3" name="MTHFR" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> <speciesReference species="M_mlthf_c" stoichiometry="1" constant="true"/> @@ -3119,6 +4139,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_UNK2" sboTerm="SBO:0000176" id="R_UNK2" name="MetSynthesis" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2kmb_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gln__L_c" stoichiometry="1" constant="true"/> @@ -3130,6 +4155,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_UNK3" sboTerm="SBO:0000176" id="R_UNK3" name="TAT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cysteine and methionine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2kmb_c" stoichiometry="1" constant="true"/> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> @@ -3140,6 +4170,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_5MTHFt" sboTerm="SBO:0000176" id="R_5MTHFt" name="Dm5methylTHF" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5mthf_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3154,6 +4189,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ILETA" sboTerm="SBO:0000176" id="R_ILETA" name="cBCAT1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['N-A']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ile__L_c" stoichiometry="1" constant="true"/> @@ -3167,6 +4207,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3MOPt2im" sboTerm="SBO:0000176" id="R_3MOPt2im" name="Transport3mop" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['N-A']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3mop_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -3177,6 +4222,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_ILETAm" sboTerm="SBO:0000176" id="R_ILETAm" name="mBCAT1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['N-A']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> <speciesReference species="M_ile__L_m" stoichiometry="1" constant="true"/> @@ -3190,6 +4240,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_LEUTA" sboTerm="SBO:0000176" id="R_LEUTA" name="cBCAT2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_leu__L_c" stoichiometry="1" constant="true"/> @@ -3203,6 +4258,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_4MOPt2im" sboTerm="SBO:0000176" id="R_4MOPt2im" name="Transport4mop" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4mop_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -3213,6 +4273,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_LEUTAm" sboTerm="SBO:0000176" id="R_LEUTAm" name="mBCAT2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> <speciesReference species="M_leu__L_m" stoichiometry="1" constant="true"/> @@ -3226,6 +4291,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_OIVD1m" sboTerm="SBO:0000176" id="R_OIVD1m" name="BCKD1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4mop_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -3246,6 +4316,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACOAD8m" sboTerm="SBO:0000176" id="R_ACOAD8m" name="IVD" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_m" stoichiometry="1" constant="true"/> <speciesReference species="M_ivcoa_m" stoichiometry="1" constant="true"/> @@ -3259,6 +4334,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MCCCrm" sboTerm="SBO:0000176" id="R_MCCCrm" name="MCC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3mb2coa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_m" stoichiometry="1" constant="true"/> @@ -3278,6 +4358,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MGCHrm" sboTerm="SBO:0000176" id="R_MGCHrm" name="MGCoAH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3mgcoa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -3290,6 +4375,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMGCOAtm" sboTerm="SBO:0000176" id="R_HMGCOAtm" name="TransportHMGCoA" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_hmgcoa_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3298,6 +4388,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_VALTA" sboTerm="SBO:0000176" id="R_VALTA" name="cBCAT3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_val__L_c" stoichiometry="1" constant="true"/> @@ -3311,6 +4406,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3MOBt2im" sboTerm="SBO:0000176" id="R_3MOBt2im" name="Transport3mob" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3mob_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -3321,6 +4421,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_VALTAim" sboTerm="SBO:0000176" id="R_VALTAim" name="mBCAT3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> <speciesReference species="M_val__L_m" stoichiometry="1" constant="true"/> @@ -3334,6 +4439,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_OIVD2m" sboTerm="SBO:0000176" id="R_OIVD2m" name="BCKD2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3mob_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -3354,6 +4464,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACOAD9m" sboTerm="SBO:0000176" id="R_ACOAD9m" name="ACOAD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_m" stoichiometry="1" constant="true"/> <speciesReference species="M_ibcoa_m" stoichiometry="1" constant="true"/> @@ -3370,6 +4485,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ECOAH12m" sboTerm="SBO:0000176" id="R_ECOAH12m" name="ECoAH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2mp2coa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -3388,6 +4508,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3HBCOAHLm" sboTerm="SBO:0000176" id="R_3HBCOAHLm" name="HIBCH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3hibutcoa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -3399,6 +4524,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_HIBDm" sboTerm="SBO:0000176" id="R_HIBDm" name="HIBD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3hmp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -3413,6 +4543,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0643" sboTerm="SBO:0000176" id="R_r0643" name="HIBADH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2mop_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -3434,6 +4569,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MMSAD1m" sboTerm="SBO:0000176" id="R_MMSAD1m" name="MMAL1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2mop_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -3449,6 +4589,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MMTSADm" sboTerm="SBO:0000176" id="R_MMTSADm" name="MMAL2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2mop_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -3461,6 +4606,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_PCC" sboTerm="SBO:0000176" id="R_PCC" name="PCC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_hco3_m" stoichiometry="1" constant="true"/> @@ -3474,6 +4624,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_MMALH" sboTerm="SBO:0000176" id="R_MMALH" name="MMALH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC00900_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -3484,6 +4639,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_MMEm" sboTerm="SBO:0000176" id="R_MMEm" name="MCM1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mmcoa__S_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3495,6 +4655,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MMMm" sboTerm="SBO:0000176" id="R_MMMm" name="MCM2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine leucine and isoleucine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mmcoa__R_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3506,6 +4671,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ILEtmi" sboTerm="SBO:0000176" id="R_ILEtmi" name="TransportIle" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['N-A']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ile__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3514,6 +4684,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_LEUt5m" sboTerm="SBO:0000176" id="R_LEUt5m" name="TransportLeu" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Leucine mitochondrial transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_leu__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3522,6 +4697,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_VALt5m" sboTerm="SBO:0000176" id="R_VALt5m" name="TransportVal" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Valine mitochondrial transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_val__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3530,6 +4710,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_PGCD" sboTerm="SBO:0000176" id="R_PGCD" name="PHGDH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3pg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> @@ -3544,6 +4729,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PSERT" sboTerm="SBO:0000176" id="R_PSERT" name="PSAT1" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3php_c" stoichiometry="1" constant="true"/> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> @@ -3557,6 +4747,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PSP_L" sboTerm="SBO:0000176" id="R_PSP_L" name="PSPH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pser__L_c" stoichiometry="1" constant="true"/> @@ -3570,6 +4765,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GHMT2r" sboTerm="SBO:0000176" id="R_GHMT2r" name="cSHMT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_thf_c" stoichiometry="1" constant="true"/> @@ -3584,6 +4784,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SERD_L" sboTerm="SBO:0000176" id="R_SERD_L" name="SDS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3599,6 +4804,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ALATA_L" sboTerm="SBO:0000176" id="R_ALATA_L" name="GPT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_pyr_c" stoichiometry="1" constant="true"/> @@ -3615,6 +4825,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r1435" sboTerm="SBO:0000176" id="R_r1435" name="TransportSer" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycine and serine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3623,6 +4838,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_GLYtm" sboTerm="SBO:0000176" id="R_GLYtm" name="TransportGly" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycine and serine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gly_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3631,6 +4851,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_GHMT2rm" sboTerm="SBO:0000176" id="R_GHMT2rm" name="mSHMT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycine and serine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ser__L_m" stoichiometry="1" constant="true"/> <speciesReference species="M_thf_m" stoichiometry="1" constant="true"/> @@ -3645,6 +4870,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MLTHFtm" sboTerm="SBO:0000176" id="R_MLTHFtm" name="mlthf Transport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_mlthf_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3653,6 +4883,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_r0962" sboTerm="SBO:0000176" id="R_r0962" name="Transport_folate" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fol_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3664,6 +4899,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FORtm" sboTerm="SBO:0000176" id="R_FORtm" name="TransportFormate" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_for_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3672,6 +4912,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_r0514" sboTerm="SBO:0000176" id="R_r0514" name="DHFRL1_DHFR_5" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fol_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nadph_m" stoichiometry="1" constant="true"/> @@ -3685,6 +4930,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DHFRim" sboTerm="SBO:0000176" id="R_DHFRim" name="DHFRL1_DHFR_6" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dhf_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -3699,6 +4949,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FTHFLmi" sboTerm="SBO:0000176" id="R_FTHFLmi" name="mMTHFD1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_for_m" stoichiometry="1" constant="true"/> @@ -3717,6 +4972,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTHFCm" sboTerm="SBO:0000176" id="R_MTHFCm" name="mMTHFD2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_10fthf_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -3730,6 +4990,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTHFDm" sboTerm="SBO:0000176" id="R_MTHFDm" name="mMTHFD3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_methf_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nadph_m" stoichiometry="1" constant="true"/> @@ -3746,6 +5011,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FOLR2" sboTerm="SBO:0000176" id="R_FOLR2" name="cDHFR1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fol_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> @@ -3759,6 +5029,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DHFR" sboTerm="SBO:0000176" id="R_DHFR" name="cDHFR2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dhf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -3773,6 +5048,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FTHFLi" sboTerm="SBO:0000176" id="R_FTHFLi" name="cMTHFD1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_for_c" stoichiometry="1" constant="true"/> @@ -3788,6 +5068,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FTHFDH" sboTerm="SBO:0000176" id="R_FTHFDH" name="cMTHFD2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -3807,6 +5092,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTHFC" sboTerm="SBO:0000176" id="R_MTHFC" name="cMTHFD3" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_10fthf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -3820,6 +5110,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTHFD" sboTerm="SBO:0000176" id="R_MTHFD" name="cMTHFD4" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_methf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> @@ -3836,6 +5131,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MTHFD2i" sboTerm="SBO:0000176" id="R_MTHFD2i" name="cMTHFD5" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_methf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadh_c" stoichiometry="1" constant="true"/> @@ -3852,6 +5152,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACACT1r" sboTerm="SBO:0000176" id="R_ACACT1r" name="cACAT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_accoa_c" stoichiometry="2" constant="true"/> </listOfReactants> @@ -3864,6 +5169,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMGCOAS" sboTerm="SBO:0000176" id="R_HMGCOAS" name="cHMGCS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_aacoa_c" stoichiometry="1" constant="true"/> <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> @@ -3879,6 +5189,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMGCOAR" sboTerm="SBO:0000176" id="R_HMGCOAR" name="Hydroxymethylglutaryl CoA reductase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> <speciesReference species="M_hmgcoa_c" stoichiometry="1" constant="true"/> @@ -3894,6 +5209,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MEVK1" sboTerm="SBO:0000176" id="R_MEVK1" name="Mevalonate kinase atp" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_mev__R_c" stoichiometry="1" constant="true"/> @@ -3908,6 +5228,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PMEVK" sboTerm="SBO:0000176" id="R_PMEVK" name="Phosphomevalonate kinase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5pmev_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -3921,6 +5246,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_IPDDI" sboTerm="SBO:0000176" id="R_IPDDI" name="Isopentenyl-diphosphate D-isomerase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ipdp_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -3935,6 +5265,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DPMVD" sboTerm="SBO:0000176" id="R_DPMVD" name="Diphosphomevalonate decarboxylase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5dpmev_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -3950,6 +5285,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DMATT" sboTerm="SBO:0000176" id="R_DMATT" name="Dimethylallyltranstransferase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dmpp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ipdp_c" stoichiometry="1" constant="true"/> @@ -3963,6 +5303,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GRTT" sboTerm="SBO:0000176" id="R_GRTT" name="Geranyltranstransferase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_grdp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ipdp_c" stoichiometry="1" constant="true"/> @@ -3976,6 +5321,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1465" sboTerm="SBO:0000176" id="R_HMR_1465" name="Farnesyl-Diphosphate:Farnesyl-Diphosphate Farnesyltransferase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_frdp_c" stoichiometry="2" constant="true"/> </listOfReactants> @@ -3988,6 +5338,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1467" sboTerm="SBO:0000176" id="R_HMR_1467" name="Presqualene-Diphosphate Diphosphate-Lyase (Reducing, Squalene-Forming)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC01118_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4003,6 +5358,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SMO" sboTerm="SBO:0000176" id="R_SMO" name="Squalene monooxygenase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> @@ -4019,6 +5379,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_LNSTLS" sboTerm="SBO:0000176" id="R_LNSTLS" name="Lanosterol synthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Ssq23epx_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4030,6 +5395,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1477" sboTerm="SBO:0000176" id="R_HMR_1477" name="Sterol 14Alpha-Demethylase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> <speciesReference species="M_lanost_c" stoichiometry="1" constant="true"/> @@ -4046,6 +5416,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1478" sboTerm="SBO:0000176" id="R_HMR_1478" name="Sterol 14Alpha-Demethylase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00939_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4062,6 +5437,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1479" sboTerm="SBO:0000176" id="R_HMR_1479" name="Sterol 14Alpha-Demethylase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00937_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadph_c" stoichiometry="1" constant="true"/> @@ -4078,6 +5458,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_C14STR" sboTerm="SBO:0000176" id="R_C14STR" name="C 14 sterol reductase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_44mctr_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4095,6 +5480,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1490" sboTerm="SBO:0000176" id="R_HMR_1490" name="Methylsterol Monooxygenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_44mzym_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4114,6 +5504,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1493" sboTerm="SBO:0000176" id="R_HMR_1493" name="Methylsterol Monooxygenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00961_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4133,6 +5528,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1494" sboTerm="SBO:0000176" id="R_HMR_1494" name="Methylsterol Monooxygenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00957_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4152,6 +5552,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_C3STDH1" sboTerm="SBO:0000176" id="R_C3STDH1" name="C 3 sterol dehydrogenase 4 methylzymosterol" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4mzym_int1_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_c" stoichiometry="1" constant="true"/> @@ -4167,6 +5572,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1495" sboTerm="SBO:0000176" id="R_HMR_1495" name="3Beta-Hydroxysteroid-4Alpha-Carboxylate 3-Dehydrogenase (Decarboxylating)" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4mzym_int1_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> @@ -4185,6 +5595,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1500" sboTerm="SBO:0000176" id="R_HMR_1500" name="3Beta-Hydroxysteroid 3-Dehydrogenase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4mzym_int2_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="3" constant="true"/> @@ -4199,6 +5614,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1502" sboTerm="SBO:0000176" id="R_HMR_1502" name="Methylsterol Monooxygenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC02110_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4218,6 +5638,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1503" sboTerm="SBO:0000176" id="R_HMR_1503" name="Methylsterol Monooxygenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00963_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4237,6 +5662,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1504" sboTerm="SBO:0000176" id="R_HMR_1504" name="Methylsterol Monooxygenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00959_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4256,6 +5686,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1505" sboTerm="SBO:0000176" id="R_HMR_1505" name="3Beta-Hydroxysteroid-4Alpha-Carboxylate 3-Dehydrogenase (Decarboxylating)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M00955_c" stoichiometry="1" constant="true"/> <speciesReference species="M_nadp_c" stoichiometry="1" constant="true"/> @@ -4271,6 +5706,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1509" sboTerm="SBO:0000176" id="R_HMR_1509" name="3Beta-Hydroxysteroid 3-Dehydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_M01067_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4285,6 +5725,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CHLSTI_1" sboTerm="SBO:0000176" id="R_CHLSTI_1" name="Delta8,24-cholestadien-3beta-ol delta7-delta8-isomerase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_zymst_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4296,6 +5741,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_1516" sboTerm="SBO:0000176" id="R_HMR_1516" name="HMR 1516" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_chlstol_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4312,6 +5762,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_RE2410C" sboTerm="SBO:0000176" id="R_RE2410C" name="7-Dehydrocholesterol Reductase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ddsmsterol_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4323,6 +5778,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_DSMSTOLR" sboTerm="SBO:0000176" id="R_DSMSTOLR" name="Desmosterol reductase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dsmsterol_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4337,6 +5797,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ACCOAC" sboTerm="SBO:0000176" id="R_ACCOAC" name="ACC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -4356,6 +5821,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FASN" sboTerm="SBO:0000176" id="R_FASN" name="FASN" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> @@ -4369,6 +5839,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MCAT" sboTerm="SBO:0000176" id="R_MCAT" name="MCAT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_malcoa_c" stoichiometry="1" constant="true"/> @@ -4382,6 +5857,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AcetoacetylACPsynthesis" sboTerm="SBO:0000176" id="R_AcetoacetylACPsynthesis" name="AcetoacetylACPsynthesis" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_acACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> @@ -4396,6 +5876,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0691" sboTerm="SBO:0000176" id="R_r0691" name="r0691" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC01587_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4410,6 +5895,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0681" sboTerm="SBO:0000176" id="R_r0681" name="r0681" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_R_3_hydroxybutanoyl_ACP_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4422,6 +5912,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0682" sboTerm="SBO:0000176" id="R_r0682" name="r0682" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_but_2_enoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4436,6 +5931,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0760" sboTerm="SBO:0000176" id="R_r0760" name="r0760" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_butyryl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> @@ -4450,6 +5950,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0761" sboTerm="SBO:0000176" id="R_r0761" name="r0761" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3_oxohexanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4464,6 +5969,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0762" sboTerm="SBO:0000176" id="R_r0762" name="r0762" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_D_3_hydroxyhexanoyl_ACP_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4476,6 +5986,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0763" sboTerm="SBO:0000176" id="R_r0763" name="r0763" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2E_hexenoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4490,6 +6005,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0764" sboTerm="SBO:0000176" id="R_r0764" name="r0764" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_hexanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> @@ -4504,6 +6024,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0694" sboTerm="SBO:0000176" id="R_r0694" name="r0694" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3_oxooctanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4518,6 +6043,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0695" sboTerm="SBO:0000176" id="R_r0695" name="r0695" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_R_3_hydroxyoctanoyl_ACP_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4530,6 +6060,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0765" sboTerm="SBO:0000176" id="R_r0765" name="r0765" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2E_octenoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4544,6 +6079,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0766" sboTerm="SBO:0000176" id="R_r0766" name="r0766" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_octanoyl_ACP_c" stoichiometry="1" constant="true"/> @@ -4558,6 +6098,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0692" sboTerm="SBO:0000176" id="R_r0692" name="r0692" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3_oxodecanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4572,6 +6117,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0693" sboTerm="SBO:0000176" id="R_r0693" name="r0693" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_R_3_hydroxydecanoyl_ACP_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4584,6 +6134,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0767" sboTerm="SBO:0000176" id="R_r0767" name="r0767" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2E_decenoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4598,6 +6153,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0768" sboTerm="SBO:0000176" id="R_r0768" name="r0768" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_decanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> @@ -4612,6 +6172,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0769" sboTerm="SBO:0000176" id="R_r0769" name="r0769" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3_oxododecanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4626,6 +6191,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0770" sboTerm="SBO:0000176" id="R_r0770" name="r0770" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_D_3_hydroxydodecanoyl_ACP_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4638,6 +6208,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0712" sboTerm="SBO:0000176" id="R_r0712" name="r0712" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2E_dodecenoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4652,6 +6227,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0713" sboTerm="SBO:0000176" id="R_r0713" name="r0713" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dodecanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> @@ -4666,6 +6246,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0701" sboTerm="SBO:0000176" id="R_r0701" name="r0701" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3_oxotetradecanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4680,6 +6265,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0702" sboTerm="SBO:0000176" id="R_r0702" name="r0702" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HMA_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4692,6 +6282,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0771" sboTerm="SBO:0000176" id="R_r0771" name="r0771" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2E_tetradecenoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4706,6 +6301,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0772" sboTerm="SBO:0000176" id="R_r0772" name="r0772" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_malACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_tetradecanoyl_ACP_c" stoichiometry="1" constant="true"/> @@ -4720,6 +6320,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0696" sboTerm="SBO:0000176" id="R_r0696" name="r0696" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3_oxohexadecanoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4734,6 +6339,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0697" sboTerm="SBO:0000176" id="R_r0697" name="r0697" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_R_3_hydroxypalmitoyl_ACP_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4746,6 +6356,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0773" sboTerm="SBO:0000176" id="R_r0773" name="r0773" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2E_hexadecenoyl_ACP_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -4760,6 +6375,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FA160ACPH" sboTerm="SBO:0000176" id="R_FA160ACPH" name="FA160ACPH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_hexadecanoyl_ACP_c" stoichiometry="1" constant="true"/> @@ -4776,6 +6396,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_palmitateActivation" sboTerm="SBO:0000176" id="R_palmitateActivation" name="palmitateActivation" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> @@ -4796,6 +6421,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_carnitineAcylTransferaseI" sboTerm="SBO:0000176" id="R_carnitineAcylTransferaseI" name="carnitineAcylTransferaseI" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids β-oxidation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_ptth_c" stoichiometry="1" constant="true"/> @@ -4813,6 +6443,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CARN160t_m" sboTerm="SBO:0000176" id="R_CARN160t_m" name="translocase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids β-oxidation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_crn_m" stoichiometry="1" constant="true"/> <speciesReference species="M_pmtcrn_c" stoichiometry="1" constant="true"/> @@ -4826,6 +6461,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_carnitineAcylTransferaseII" sboTerm="SBO:0000176" id="R_carnitineAcylTransferaseII" name="carnitineAcylTransferaseII" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids β-oxidation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_pmtcrn_m" stoichiometry="1" constant="true"/> @@ -4839,6 +6479,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_betaOxidation" sboTerm="SBO:0000176" id="R_betaOxidation" name="betaOxidation" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids β-oxidation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_coa_m" stoichiometry="7" constant="true"/> <speciesReference species="M_fad_m" stoichiometry="7" constant="true"/> @@ -4867,6 +6512,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_Biomass" sboTerm="SBO:0000176" id="R_Biomass" name="Biomass" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Biomass reaction']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ala__L_c" stoichiometry="0.505626" constant="true"/> <speciesReference species="M_arg__L_c" stoichiometry="0.35926" constant="true"/> @@ -4909,6 +6559,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_GLCt1" sboTerm="SBO:0000176" id="R_GLCt1" name="uptakeGlc" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycolysis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glc__D_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4947,6 +6602,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_O2t" sboTerm="SBO:0000176" id="R_O2t" name="uptakeO2" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['O2 transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -4958,6 +6618,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000017483 or ENSG00000111371 or ENSG00000134294 or ENSG00000139209 or ENSG00000149150 or ENSG00000174358 or ENSG00000188338 or ENSG00000268104 or (ENSG00000147003 and ENSG00000164363)</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -4997,6 +6658,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0963" sboTerm="SBO:0000176" id="R_r0963" name="ExFolate" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fol_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5012,6 +6678,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_THBPTt" sboTerm="SBO:0000176" id="R_THBPTt" name="ExTetrahydrobiopterinc" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['5,6,7,8-Tetrahydrobiopterin transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_thbpt_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5023,6 +6694,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000003989 or ENSG00000139209 or ENSG00000139514 or ENSG00000165349 or ENSG00000268104</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5057,6 +6729,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000112394 or ENSG00000149150 or ENSG00000167703</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5098,6 +6771,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000149150 or ENSG00000167703</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5132,6 +6806,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000149150 or ENSG00000167703</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5172,6 +6847,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000149150 or ENSG00000167703</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5206,6 +6882,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000149150 or ENSG00000167703</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5243,6 +6920,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000017483 or ENSG00000111371 or ENSG00000123643 or ENSG00000134294 or ENSG00000139209 or ENSG00000149150 or ENSG00000268104 or (ENSG00000130234 and ENSG00000174358) or (ENSG00000147003 and ENSG00000164363) or (ENSG00000147003 and ENSG00000174358)</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5281,6 +6959,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000017483 or ENSG00000111371 or ENSG00000123643 or ENSG00000134294 or ENSG00000139209 or ENSG00000165970 or ENSG00000186335 or ENSG00000196517 or ENSG00000268104 or (ENSG00000130234 and ENSG00000174358) or (ENSG00000147003 and ENSG00000164363) or (ENSG00000147003 and ENSG00000174358)</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5326,6 +7005,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000017483 or ENSG00000111371 or ENSG00000134294 or ENSG00000139209 or ENSG00000149150 or ENSG00000188338 or ENSG00000268104 or (ENSG00000130234 and ENSG00000174358) or (ENSG00000147003 and ENSG00000164363) or (ENSG00000147003 and ENSG00000174358)</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5364,6 +7044,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000123643 or ENSG00000186335</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5399,6 +7080,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HDCAt" sboTerm="SBO:0000176" id="R_HDCAt" name="ExPalmitate" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_hdca_e" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5415,6 +7101,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GTHRDt2" sboTerm="SBO:0000176" id="R_GTHRDt2" name="ExGSH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione synthesis ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthrd_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5423,6 +7114,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_DmLact" sboTerm="SBO:0000176" id="R_DmLact" name="DmLact" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lactate acid fermentation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_lac__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5440,6 +7136,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_UREAt" sboTerm="SBO:0000176" id="R_UREAt" name="DmUrea" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_urea_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5454,6 +7155,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DmBiomass" sboTerm="SBO:0000176" id="R_DmBiomass" name="DmBiomass" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Biomass reaction']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_BIOMASSA_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5462,6 +7168,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_NH4t" sboTerm="SBO:0000176" id="R_NH4t" name="ExNH3" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Urea cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_nh4_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5470,6 +7181,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_PTRCtex2" sboTerm="SBO:0000176" id="R_PTRCtex2" name="DmPutrescine" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine biosynthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ptrc_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5478,6 +7194,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_GUDACtr2" sboTerm="SBO:0000176" id="R_GUDACtr2" name="ExGA" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Creatine synthase']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gudac_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5486,6 +7207,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_CE2705t" sboTerm="SBO:0000176" id="R_CE2705t" name="ExDihydrobiopterinc" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Biopterin pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_CE2705_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5500,6 +7226,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_Dm2oxobutyrate" sboTerm="SBO:0000176" id="R_Dm2oxobutyrate" name="Dm2oxobutyrate" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['2-oxocarboxylic exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2obut_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5508,6 +7239,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_H2Ot" sboTerm="SBO:0000176" id="R_H2Ot" name="ExH2O" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Water transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_e" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5526,6 +7262,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PHLACHt" sboTerm="SBO:0000176" id="R_PHLACHt" name="ExH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Transport of Phenyl Lactate']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5534,6 +7275,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_CO2t" sboTerm="SBO:0000176" id="R_CO2t" name="ExCO2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['CO2 transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_co2_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5542,6 +7288,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_DmGSSG" sboTerm="SBO:0000176" id="R_DmGSSG" name="DmGSSG" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glutathione synthesis ']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gthox_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5553,6 +7304,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000188338</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5581,6 +7333,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000003989 or ENSG00000017483 or ENSG00000111371 or ENSG00000123643 or ENSG00000134294 or ENSG00000139209 or ENSG00000139514 or ENSG00000165349 or ENSG00000180773 or ENSG00000186335 or ENSG00000188338 or ENSG00000268104 or (ENSG00000130234 and ENSG00000174358) or (ENSG00000147003 and ENSG00000164363) or (ENSG00000147003 and ENSG00000174358)</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5625,6 +7378,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000079215 or ENSG00000105143 or ENSG00000106688 or ENSG00000110436 or ENSG00000162383</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5645,6 +7399,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ATPM" sboTerm="SBO:0000176" id="R_ATPM" name="ATPmaintenance" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['ATP maintenance']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -5656,6 +7415,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_GACMTRc" sboTerm="SBO:0000176" id="R_GACMTRc" name="GAMT" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Creatine synthase']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_amet_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gudac_c" stoichiometry="1" constant="true"/> @@ -5670,6 +7434,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CKc_cho" sboTerm="SBO:0000176" id="R_CKc_cho" name="CK" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Creatine synthase']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_creat_c" stoichiometry="1" constant="true"/> @@ -5687,6 +7456,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CRTNsyn_cho" sboTerm="SBO:0000176" id="R_CRTNsyn_cho" name="CRTNsynthase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Creatine synthase']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_pcreat_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5696,6 +7470,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_CRTNtr" sboTerm="SBO:0000176" id="R_CRTNtr" name="DmCreatinine" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Creatine synthase']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_crtn_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5704,6 +7483,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_NDPK1" sboTerm="SBO:0000176" id="R_NDPK1" name="GTPsynth" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gdp_c" stoichiometry="1" constant="true"/> @@ -5725,6 +7509,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NDPK5" sboTerm="SBO:0000176" id="R_NDPK5" name="dGTPsynth" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_dgdp_c" stoichiometry="1" constant="true"/> @@ -5746,6 +7535,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NDPK8" sboTerm="SBO:0000176" id="R_NDPK8" name="dATPsynth" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_dadp_c" stoichiometry="1" constant="true"/> @@ -5767,6 +7561,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NDPK7" sboTerm="SBO:0000176" id="R_NDPK7" name="dCTPsynth" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_dcdp_c" stoichiometry="1" constant="true"/> @@ -5788,6 +7587,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_DTMPK" sboTerm="SBO:0000176" id="R_DTMPK" name="dTDPsynth" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_dtmp_c" stoichiometry="1" constant="true"/> @@ -5801,6 +7605,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NDPK4" sboTerm="SBO:0000176" id="R_NDPK4" name="dTTPsynth" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Nucleotide synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_dtdp_c" stoichiometry="1" constant="true"/> @@ -5825,6 +7634,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000139209</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -5848,6 +7658,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PTRCOX1" sboTerm="SBO:0000176" id="R_PTRCOX1" name="PTRCOX1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> @@ -5867,6 +7682,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ABUTD" sboTerm="SBO:0000176" id="R_ABUTD" name="ABUTD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4abutn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -5882,6 +7702,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0465_1" sboTerm="SBO:0000176" id="R_r0465_1" name="HisAbutLigase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4abut_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -5898,6 +7723,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ABUTH" sboTerm="SBO:0000176" id="R_ABUTH" name="ABUTH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC00576_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -5918,6 +7748,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUDC" sboTerm="SBO:0000176" id="R_GLUDC" name="GLUDC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -5934,6 +7769,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HISDr" sboTerm="SBO:0000176" id="R_HISDr" name="HISD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_his__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -5946,6 +7786,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_URCN" sboTerm="SBO:0000176" id="R_URCN" name="URCN" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_urcan_c" stoichiometry="1" constant="true"/> @@ -5965,6 +7810,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_IZPN" sboTerm="SBO:0000176" id="R_IZPN" name="IZPN" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4izp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -5978,6 +7828,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GluForTx" sboTerm="SBO:0000176" id="R_GluForTx" name="GluForTx" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_forglu_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -5992,6 +7847,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FTCD" sboTerm="SBO:0000176" id="R_FTCD" name="FTCD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Folate cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5forthf_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="2" constant="true"/> @@ -6005,6 +7865,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_NBAHH_ir" sboTerm="SBO:0000176" id="R_NBAHH_ir" name="NBAHH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['β-Alanine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_carn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6025,6 +7890,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0283" sboTerm="SBO:0000176" id="R_r0283" name="HisAlaLigase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['β-Alanine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ala_B_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -6041,6 +7911,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ASP1DC" sboTerm="SBO:0000176" id="R_ASP1DC" name="ASP1DC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['β-Alanine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_asp__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -6057,6 +7932,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000003989 or ENSG00000139209 or ENSG00000139514 or ENSG00000165349</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -6079,6 +7955,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_LYStm" sboTerm="SBO:0000176" id="R_LYStm" name="TransportLys" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lysine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> <speciesReference species="M_lys__L_c" stoichiometry="1" constant="true"/> @@ -6095,6 +7976,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_SACCD3m" sboTerm="SBO:0000176" id="R_SACCD3m" name="SACCD3m" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lysine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h_m" stoichiometry="1" constant="true"/> @@ -6111,6 +7997,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_r0525" sboTerm="SBO:0000176" id="R_r0525" name="SACCRPOX" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lysine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -6127,6 +8018,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AASAD3m" sboTerm="SBO:0000176" id="R_AASAD3m" name="AASAD3m" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lysine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_L2aadp6sa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -6139,6 +8035,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_r0450" sboTerm="SBO:0000176" id="R_r0450" name="AADPTA" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lysine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_L2aadp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> @@ -6152,6 +8053,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_2OXOADOXm" sboTerm="SBO:0000176" id="R_2OXOADOXm" name="OXOADPOR" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Lysine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2oxoadp_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -6172,6 +8078,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLUTCOADHm" sboTerm="SBO:0000176" id="R_GLUTCOADHm" name="GLUTCOADHm" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Tryptophan metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_m" stoichiometry="1" constant="true"/> <speciesReference species="M_glutcoa_m" stoichiometry="1" constant="true"/> @@ -6187,6 +8098,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3HBCDm" sboTerm="SBO:0000176" id="R_3HBCDm" name="ECOAH1m" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Butanoate metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_b2coa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -6199,6 +8115,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HACD1m" sboTerm="SBO:0000176" id="R_HACD1m" name="HACD1m" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Tryptophan metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3hbcoa__R_m" stoichiometry="1" constant="true"/> <speciesReference species="M_nad_m" stoichiometry="1" constant="true"/> @@ -6220,6 +8141,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMGCOASm" sboTerm="SBO:0000176" id="R_HMGCOASm" name="mHMGCS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cholesterol metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_aacoa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_accoa_m" stoichiometry="1" constant="true"/> @@ -6238,6 +8164,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000167703</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -6270,6 +8197,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CYSO" sboTerm="SBO:0000176" id="R_CYSO" name="CDO1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Taurine and hypotaurine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cys__L_c" stoichiometry="1" constant="true"/> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> @@ -6283,6 +8215,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3SALATAi" sboTerm="SBO:0000176" id="R_3SALATAi" name="3SALATAc" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3sala_c" stoichiometry="1" constant="true"/> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> @@ -6297,6 +8234,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3SALAASPm" sboTerm="SBO:0000176" id="R_3SALAASPm" name="Transport3SALA" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3sala_c" stoichiometry="1" constant="true"/> <speciesReference species="M_asp__L_m" stoichiometry="1" constant="true"/> @@ -6313,6 +8255,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3SALATAim" sboTerm="SBO:0000176" id="R_3SALATAim" name="3SALATAm" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3sala_m" stoichiometry="1" constant="true"/> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> @@ -6327,6 +8274,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3SPYRSP" sboTerm="SBO:0000176" id="R_3SPYRSP" name="3SPYRSTc" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3snpyr_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6338,6 +8290,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_3SPYRSPm" sboTerm="SBO:0000176" id="R_3SPYRSPm" name="3SPYRSTm" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3snpyr_m" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> @@ -6349,6 +8306,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_HMR_3951" sboTerm="SBO:0000176" id="R_HMR_3951" name="ExSulfitec" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Sodium-sulfite co-transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_so3_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6357,6 +8319,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_ExSulfitem" sboTerm="SBO:0000176" id="R_ExSulfitem" name="ExSulfitem" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Sulfite transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_so3_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6365,6 +8332,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_PHETHPTOX2" sboTerm="SBO:0000176" id="R_PHETHPTOX2" name="PHETHPTOX2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Phenylanine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> <speciesReference species="M_phe__L_c" stoichiometry="1" constant="true"/> @@ -6383,6 +8355,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000112394</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -6413,6 +8386,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TYRTA" sboTerm="SBO:0000176" id="R_TYRTA" name="TYRTA" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_akg_c" stoichiometry="1" constant="true"/> <speciesReference species="M_tyr__L_c" stoichiometry="1" constant="true"/> @@ -6429,6 +8407,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_34HPPOR" sboTerm="SBO:0000176" id="R_34HPPOR" name="HPPOR" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_34hpp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> @@ -6442,6 +8425,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HGNTOR" sboTerm="SBO:0000176" id="R_HGNTOR" name="HGNTOR" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_hgentis_c" stoichiometry="1" constant="true"/> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> @@ -6455,6 +8443,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_MACACI" sboTerm="SBO:0000176" id="R_MACACI" name="MACACI" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4mlacac_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6466,6 +8459,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FUMAC" sboTerm="SBO:0000176" id="R_FUMAC" name="FUMAC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4fumacac_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6480,6 +8478,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AACOAT" sboTerm="SBO:0000176" id="R_AACOAT" name="AACOAT" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_acac_c" stoichiometry="1" constant="true"/> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> @@ -6498,6 +8501,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000149150</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -6526,6 +8530,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_THRD_L" sboTerm="SBO:0000176" id="R_THRD_L" name="THRD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_thr__L_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6541,6 +8550,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_OBDHc" sboTerm="SBO:0000176" id="R_OBDHc" name="OBDH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2obut_c" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_c" stoichiometry="1" constant="true"/> @@ -6553,6 +8567,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_PPCOAtm" sboTerm="SBO:0000176" id="R_PPCOAtm" name="TransportPropCoA" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['PropionilCOA transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ppcoa_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6564,6 +8583,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>gpr_old: ENSG00000103257</p> + <p>pathways: ['Aminoacids uptake/secretion']</p> </html> </notes> <listOfReactants> @@ -6595,6 +8615,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_TRPO2" sboTerm="SBO:0000176" id="R_TRPO2" name="TRPO2" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> <speciesReference species="M_trp__L_c" stoichiometry="1" constant="true"/> @@ -6611,6 +8636,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_FKYNH" sboTerm="SBO:0000176" id="R_FKYNH" name="FKYNH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_5hoxnfkyn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6625,6 +8655,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_KYN" sboTerm="SBO:0000176" id="R_KYN" name="KYN" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lkynr_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6639,6 +8674,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_ANTHte" sboTerm="SBO:0000176" id="R_ANTHte" name="ExAnth" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Tryptophan metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_anth_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6647,6 +8687,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_KYN3OX" sboTerm="SBO:0000176" id="R_KYN3OX" name="KYN3OX" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lkynr_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -6663,6 +8708,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HKYNH" sboTerm="SBO:0000176" id="R_HKYNH" name="HKYNH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> <speciesReference species="M_hLkynr_c" stoichiometry="1" constant="true"/> @@ -6676,6 +8726,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_3HAO" sboTerm="SBO:0000176" id="R_3HAO" name="3HAO" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_3hanthrn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_o2_c" stoichiometry="1" constant="true"/> @@ -6689,6 +8744,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_PCLAD" sboTerm="SBO:0000176" id="R_PCLAD" name="PCLAD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_cmusa_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -6702,6 +8762,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_AM6SAD" sboTerm="SBO:0000176" id="R_AM6SAD" name="AM6SADH" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_am6sa_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6714,6 +8779,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_AMCOXO" sboTerm="SBO:0000176" id="R_AMCOXO" name="AMCOXO" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_amuco_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6727,6 +8797,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_2OXOADPTm" sboTerm="SBO:0000176" id="R_2OXOADPTm" name="Transport2Oxoadp" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacid synthesis/degradation']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_2oxoadp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_akg_m" stoichiometry="1" constant="true"/> @@ -6740,6 +8815,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_CystinePyruvate" sboTerm="SBO:0000176" id="R_CystinePyruvate" name="CystinePyruvate" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h2o_c" stoichiometry="1" constant="true"/> @@ -6750,6 +8830,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_r0027" sboTerm="SBO:0000176" id="R_r0027" name="CystineReductaseNADPH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -6767,6 +8852,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_HMR_3996" sboTerm="SBO:0000176" id="R_HMR_3996" name="CystineReductaseNADH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -6778,6 +8868,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_CYSGLTH" sboTerm="SBO:0000176" id="R_CYSGLTH" name="CystineGSH" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Methionine and cysteine metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gthrd_c" stoichiometry="2" constant="true"/> @@ -6788,6 +8883,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_ACACT1m" sboTerm="SBO:0000176" id="R_ACACT1m" name="mACAT_backward" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cholesterol metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_aacoa_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -6806,6 +8906,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_G3PD1ir" sboTerm="SBO:0000176" id="R_G3PD1ir" name="G3PD1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Glycerophospholipid metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dhap_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -6820,6 +8925,11 @@ </fbc:geneProductAssociation> </reaction> <reaction metaid="meta_R_GLYC3Ptm" sboTerm="SBO:0000176" id="R_GLYC3Ptm" name="Transport_glycerol3P" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_glyc3p_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6828,6 +8938,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_G3PDm" sboTerm="SBO:0000176" id="R_G3PDm" name="GLY3PFAD" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_fad_m" stoichiometry="1" constant="true"/> <speciesReference species="M_glyc3p_m" stoichiometry="1" constant="true"/> @@ -6838,6 +8953,11 @@ </listOfProducts> </reaction> <reaction metaid="meta_R_DHAPtm" sboTerm="SBO:0000176" id="R_DHAPtm" name="Transport_DHAP" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pentose phosphate pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_dhap_m" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6846,6 +8966,11 @@ </listOfProducts> </reaction> <reaction id="R_Transport_ala_B_c_e" name="Transport_ala_B_c_e" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['β-Alanine transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ala_B_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6854,11 +8979,21 @@ </listOfProducts> </reaction> <reaction id="R_EX_ala_B_e" name="bAlae ExchangeRxn" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['β-Alanine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ala_B_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction id="R_TMDK1" name="TMDK1" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['N-A']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_thymd_c" stoichiometry="1" constant="true"/> @@ -6876,6 +9011,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_THYMDt1" name="Thymd Transport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Thymid transport']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_thymd_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6890,11 +9030,21 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_EX_thymd_e" name="thymd ExchangeRxn" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_0_bound"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Thymidine exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_thymd_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction id="R_Transport_HC00576_c_e" name="HC00576 Transport" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC00576_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6903,11 +9053,21 @@ </listOfProducts> </reaction> <reaction id="R_EX_HC00576_e" name="HC00576 ExchangeRxn" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Exchange reaction']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_HC00576_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction id="R_Transport_4abut_c_e" name="4abut Transport" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Arginine and proline metabolism']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4abut_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6916,11 +9076,21 @@ </listOfProducts> </reaction> <reaction id="R_EX_4abut_e" name="4abut ExchangeRxn" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['4-Aminobutanoate exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_4abut_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction id="R_GLUVESSEC" name="transporto of GLUVESSEC" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacids uptake/secretion']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> @@ -6941,11 +9111,21 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_EX_chsterol_e" name="Exchange of Cholesterol" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Cholesterol exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_chsterol_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction id="R_r1050" name="Vesicular Transport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_chsterol_e" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6954,11 +9134,21 @@ </listOfProducts> </reaction> <reaction id="R_EX_gal_e" name="Exchange of D-Galactose" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['D-Galactose exchange']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gal_e" stoichiometry="1" constant="true"/> </listOfReactants> </reaction> <reaction id="R_GALt1r" name="Galactose Transport (Uniport)" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Galactose pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gal_e" stoichiometry="1" constant="true"/> </listOfReactants> @@ -6976,6 +9166,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_GALK" name="Galactokinase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Galactose pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_atp_c" stoichiometry="1" constant="true"/> <speciesReference species="M_gal_c" stoichiometry="1" constant="true"/> @@ -6992,6 +9187,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_UGLT" name="UDPglucose-Hexose-1-Phosphate Uridylyltransferase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Galactose pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_gal1p_c" stoichiometry="1" constant="true"/> <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/> @@ -7005,6 +9205,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_PGMT" name="Phosphoglucomutase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Galactose pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_g1p_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -7019,6 +9224,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_UDPG4E" name="UDPglucose 4-Epimerase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Galactose pathway']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_udpg_c" stoichiometry="1" constant="true"/> </listOfReactants> @@ -7030,6 +9240,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_t_Lcystin_ala__L" name="t_Lcystin_ala__L" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacids uptake/secretion']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_e" stoichiometry="1" constant="true"/> <speciesReference species="M_ala__L_c" stoichiometry="1" constant="true"/> @@ -7046,6 +9261,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_t_Lcystin_glu__L" name="t_Lcystin_glu__L" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacids uptake/secretion']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_e" stoichiometry="1" constant="true"/> <speciesReference species="M_glu__L_c" stoichiometry="1" constant="true"/> @@ -7062,6 +9282,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_t_Lcystin_leu__L" name="t_Lcystin_leu__L" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacids uptake/secretion']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_e" stoichiometry="1" constant="true"/> <speciesReference species="M_leu__L_c" stoichiometry="1" constant="true"/> @@ -7078,6 +9303,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_t_Lcystin_ser__L" name="t_Lcystin_ser__L" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Aminoacids uptake/secretion']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_Lcystin_e" stoichiometry="1" constant="true"/> <speciesReference species="M_ser__L_c" stoichiometry="1" constant="true"/> @@ -7094,6 +9324,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_CSNATr" name="Carnitine O-Acetyltransferase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_accoa_c" stoichiometry="1" constant="true"/> <speciesReference species="M_crn_c" stoichiometry="1" constant="true"/> @@ -7107,6 +9342,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_CRNCARtm" name="Fatty acid oxidation" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_acrn_c" stoichiometry="1" constant="true"/> <speciesReference species="M_crn_m" stoichiometry="1" constant="true"/> @@ -7120,6 +9360,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_CSNATm" name="Citrate Lyase" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_acrn_m" stoichiometry="1" constant="true"/> <speciesReference species="M_coa_m" stoichiometry="1" constant="true"/> @@ -7136,6 +9381,7 @@ <notes> <html xmlns="http://www.w3.org/1999/xhtml"> <p>original_bigg_ids: ['ACS']</p> + <p>pathways: ['Fatty acids/cholesterol synthesis']</p> </html> </notes> <annotation> @@ -7219,6 +9465,11 @@ </fbc:geneProductAssociation> </reaction> <reaction id="R_ACt2m" name="Acetate mitochondrial transport via proton symport" reversible="true" fast="false" fbc:lowerFluxBound="cobra_default_lb" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Transport reaction']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_ac_c" stoichiometry="1" constant="true"/> <speciesReference species="M_h_c" stoichiometry="1" constant="true"/> @@ -7229,6 +9480,11 @@ </listOfProducts> </reaction> <reaction id="R_PyrODC" name="Oxidative decarboxylation of pyruvate facilitated by ROS" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Pyruvate decarboxylase']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o2_m" stoichiometry="1" constant="true"/> <speciesReference species="M_pyr_m" stoichiometry="1" constant="true"/> @@ -7240,6 +9496,11 @@ </listOfProducts> </reaction> <reaction id="R_Incompox_Pyr" name="Incomplete oxidation of pyruvate by ketoacid dehydrogenase" reversible="false" fast="false" fbc:lowerFluxBound="cobra_0_bound" fbc:upperFluxBound="cobra_default_ub"> + <notes> + <html xmlns="http://www.w3.org/1999/xhtml"> + <p>pathways: ['Krebs cycle']</p> + </html> + </notes> <listOfReactants> <speciesReference species="M_h2o_m" stoichiometry="1" constant="true"/> <speciesReference species="M_pyr_m" stoichiometry="1" constant="true"/>