{ "cells": [ { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "# Getting started with cameo " ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "**cameo** reuses and extends model data structures defined by [cobrapy](https://opencobra.github.io/cobrapy/) (**CO**nstraints-**B**ased **R**econstruction and **A**nalysis tool for **Py**thon). So, in addition to following this quick start guide and other **cameo** tutorials, we encourage you to explore cobrapy's [documentation](https://cobrapy.readthedocs.org/en/latest/cobra.core.html) as well." ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "Step 1: Load a model\n", "-------------------\n", "\n", "Loading a model is easy. Just import the `~cameo.io.load_model` function." ] }, { "cell_type": "code", "execution_count": 1, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [] }, "metadata": {}, "output_type": "display_data" }, { "data": { "application/javascript": [ "\n", "(function(global) {\n", " function now() {\n", " return new Date();\n", " }\n", "\n", " var force = true;\n", "\n", " if (typeof (window._bokeh_onload_callbacks) === \"undefined\" || force === true) {\n", " window._bokeh_onload_callbacks = [];\n", " window._bokeh_is_loading = undefined;\n", " }\n", "\n", "\n", " \n", " if (typeof (window._bokeh_timeout) === \"undefined\" || force === true) {\n", " window._bokeh_timeout = Date.now() + 5000;\n", " window._bokeh_failed_load = false;\n", " }\n", "\n", " var NB_LOAD_WARNING = {'data': {'text/html':\n", " \"
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\\n\"+\n", " \"

\\n\"+\n", " \"BokehJS does not appear to have successfully loaded. If loading BokehJS from CDN, this \\n\"+\n", " \"may be due to a slow or bad network connection. Possible fixes:\\n\"+\n", " \"

\\n\"+\n", " \"\\n\"+\n", " \"\\n\"+\n", " \"from bokeh.resources import INLINE\\n\"+\n", " \"output_notebook(resources=INLINE)\\n\"+\n", " \"\\n\"+\n", " \"
\"}};\n", "\n", " function display_loaded() {\n", " if (window.Bokeh !== undefined) {\n", " document.getElementById(\"\").textContent = \"BokehJS successfully loaded.\";\n", " } else if (Date.now() < window._bokeh_timeout) {\n", " setTimeout(display_loaded, 100)\n", " }\n", " }\n", "\n", " function run_callbacks() {\n", " window._bokeh_onload_callbacks.forEach(function(callback) { callback() });\n", " delete window._bokeh_onload_callbacks\n", " console.info(\"Bokeh: all callbacks have finished\");\n", " }\n", "\n", " function load_libs(js_urls, callback) {\n", " window._bokeh_onload_callbacks.push(callback);\n", " if (window._bokeh_is_loading > 0) {\n", " console.log(\"Bokeh: BokehJS is being loaded, scheduling callback at\", now());\n", " return null;\n", " }\n", " if (js_urls == null || js_urls.length === 0) {\n", " run_callbacks();\n", " return null;\n", " }\n", " console.log(\"Bokeh: BokehJS not loaded, scheduling load and callback at\", now());\n", " window._bokeh_is_loading = js_urls.length;\n", " for (var i = 0; i < js_urls.length; i++) {\n", " var url = js_urls[i];\n", " var s = document.createElement('script');\n", " s.src = url;\n", " s.async = false;\n", " s.onreadystatechange = s.onload = function() {\n", " window._bokeh_is_loading--;\n", " if (window._bokeh_is_loading === 0) {\n", " console.log(\"Bokeh: all BokehJS libraries loaded\");\n", " run_callbacks()\n", " }\n", " };\n", " s.onerror = function() {\n", " console.warn(\"failed to load library \" + url);\n", " };\n", " console.log(\"Bokeh: injecting script tag for BokehJS library: \", url);\n", " document.getElementsByTagName(\"head\")[0].appendChild(s);\n", " }\n", " };\n", "\n", " var js_urls = [\"https://cdn.pydata.org/bokeh/release/bokeh-0.12.2.min.js\", \"https://cdn.pydata.org/bokeh/release/bokeh-widgets-0.12.2.min.js\"];\n", "\n", " var inline_js = [\n", " function(Bokeh) {\n", " Bokeh.set_log_level(\"info\");\n", " },\n", " function(Bokeh) {\n", " console.log(\"Bokeh: injecting CSS: https://cdn.pydata.org/bokeh/release/bokeh-0.12.2.min.css\");\n", " Bokeh.embed.inject_css(\"https://cdn.pydata.org/bokeh/release/bokeh-0.12.2.min.css\");\n", " console.log(\"Bokeh: injecting CSS: https://cdn.pydata.org/bokeh/release/bokeh-widgets-0.12.2.min.css\");\n", " Bokeh.embed.inject_css(\"https://cdn.pydata.org/bokeh/release/bokeh-widgets-0.12.2.min.css\");\n", " }\n", " ];\n", "\n", " function run_inline_js() {\n", " \n", " if ((window.Bokeh !== undefined) || (force === true)) {\n", " for (var i = 0; i < inline_js.length; i++) {\n", " inline_js[i](window.Bokeh);\n", " }} else if (Date.now() < window._bokeh_timeout) {\n", " setTimeout(run_inline_js, 100);\n", " } else if (!window._bokeh_failed_load) {\n", " console.log(\"Bokeh: BokehJS failed to load within specified timeout.\");\n", " window._bokeh_failed_load = true;\n", " } else if (force !== true) {\n", " var cell = $(document.getElementById(\"\")).parents('.cell').data().cell;\n", " cell.output_area.append_execute_result(NB_LOAD_WARNING)\n", " }\n", "\n", " }\n", "\n", " if (window._bokeh_is_loading === 0) {\n", " console.log(\"Bokeh: BokehJS loaded, going straight to plotting\");\n", " run_inline_js();\n", " } else {\n", " load_libs(js_urls, function() {\n", " console.log(\"Bokeh: BokehJS plotting callback run at\", now());\n", " run_inline_js();\n", " });\n", " }\n", "}(this));" ] }, "metadata": {}, "output_type": "display_data" } ], "source": [ "from cameo import load_model" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "For example, load the most current genome-scale metabolic reconstruction of _Escherichia coli_." ] }, { "cell_type": "code", "execution_count": 2, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [], "source": [ "model = load_model(\"iJO1366\")" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "Models, reactions, metabolites, etc., provide return HTML when evaluated in Jupyter notebooks and can thus be easily inspected." ] }, { "cell_type": "code", "execution_count": 3, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "\n", "
NameiJO1366
Number of metabolites1805
Number of reactions2583
Reactions
4crsol_c -->
5drib_c -->
aacald_c -->
amob_c -->
mththf_c -->
oxam_c -->
0.000223 10fthf_c + 0.000223 2dmmql8_c + 2.5e-05 2fe2s_c + 0.000248 4fe4s_c + 0.000223 5mthf_c + 0.000279 accoa_c + 0.000223 adocbl_c + 0.499149 ala__L_c + 0.000223 amet_c + 0.28742 arg__L_c + 0.234232 asn__L_c + 0.234232 asp__L_c + 54.119975 atp_c + 0.000116 bmocogdp_c + 2e-06 btn_c + 0.004952 ca2_c + 0.000223 chor_c + 0.004952 cl_c + 0.002944 clpn160_p + 0.00229 clpn161_p + 0.00118 clpn181_p + 0.000168 coa_c + 2.4e-05 cobalt2_c + 0.008151 colipa_e + 0.129799 ctp_c + 0.000674 cu2_c + 0.088988 cys__L_c + 0.024805 datp_c + 0.025612 dctp_c + 0.025612 dgtp_c + 0.024805 dttp_c + 0.000223 enter_c + 0.000223 fad_c + 0.006388 fe2_c + 0.007428 fe3_c + 0.255712 gln__L_c + 0.255712 glu__L_c + 0.595297 gly_c + 0.154187 glycogen_c + 0.000223 gthrd_c + 0.209121 gtp_c + 48.752916 h2o_c + 0.000223 hemeO_c + 0.092056 his__L_c + 0.282306 ile__L_c + 0.18569 k_c + 0.437778 leu__L_c + 3e-06 lipopb_c + 0.333448 lys__L_c + 3.1e-05 malcoa_c + 0.149336 met__L_c + 0.008253 mg2_c + 0.000223 mlthf_c + 0.000658 mn2_c + 7e-06 mobd_c + 7e-06 mococdp_c + 7e-06 mocogdp_c + 0.000223 mql8_c + 0.001345 murein3p3p_p + 0.000605 murein3px4p_p + 0.005381 murein4p4p_p + 0.005448 murein4px4p_p + 0.000673 murein4px4px4p_p + 0.001787 nad_c + 4.5e-05 nadh_c + 0.000112 nadp_c + 0.000335 nadph_c + 0.012379 nh4_c + 0.000307 ni2_c + 0.012366 pe160_c + 0.031798 pe160_p + 0.009618 pe161_c + 0.024732 pe161_p + 0.004957 pe181_c + 0.012747 pe181_p + 0.005707 pg160_c + 0.004892 pg160_p + 0.004439 pg161_c + 0.003805 pg161_p + 0.002288 pg181_c + 0.001961 pg181_p + 0.180021 phe__L_c + 0.000223 pheme_c + 0.214798 pro__L_c + 0.03327 ptrc_c + 0.000223 pydx5p_c + 0.000223 q8h2_c + 0.000223 ribflv_c + 0.209684 ser__L_c + 0.000223 sheme_c + 0.004126 so4_c + 0.006744 spmd_c + 9.8e-05 succoa_c + 0.000223 thf_c + 0.000223 thmpp_c + 0.246506 thr__L_c + 0.055234 trp__L_c + 0.133993 tyr__L_c + 5.5e-05 udcpdp_c + 0.140101 utp_c + 0.411184 val__L_c + 0.000324 zn2_c --> 53.95 adp_c + 53.95 h_c + 53.945874 pi_c + 0.749831 ppi_c
0.000223 10fthf_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.00026 4fe4s_c + 0.513689 ala__L_c + 0.000223 amet_c + 0.295792 arg__L_c + 0.241055 asn__L_c + 0.241055 asp__L_c + 54.124831 atp_c + 0.000122 bmocogdp_c + 2e-06 btn_c + 0.005205 ca2_c + 0.005205 cl_c + 0.000576 coa_c + 2.5e-05 cobalt2_c + 0.133508 ctp_c + 0.000709 cu2_c + 0.09158 cys__L_c + 0.026166 datp_c + 0.027017 dctp_c + 0.027017 dgtp_c + 0.026166 dttp_c + 0.000223 fad_c + 0.006715 fe2_c + 0.007808 fe3_c + 0.26316 gln__L_c + 0.26316 glu__L_c + 0.612638 gly_c + 0.215096 gtp_c + 48.601527 h2o_c + 0.094738 his__L_c + 0.290529 ile__L_c + 0.195193 k_c + 0.019456 kdo2lipid4_e + 0.450531 leu__L_c + 0.343161 lys__L_c + 0.153686 met__L_c + 0.008675 mg2_c + 0.000223 mlthf_c + 0.000691 mn2_c + 7e-06 mobd_c + 0.013894 murein5px4p_p + 0.001831 nad_c + 0.000447 nadp_c + 0.013013 nh4_c + 0.000323 ni2_c + 0.017868 pe160_c + 0.045946 pe160_p + 0.054154 pe161_c + 0.02106 pe161_p + 0.185265 phe__L_c + 0.000223 pheme_c + 0.221055 pro__L_c + 0.000223 pydx5p_c + 0.000223 ribflv_c + 0.215792 ser__L_c + 0.000223 sheme_c + 0.004338 so4_c + 0.000223 thf_c + 0.000223 thmpp_c + 0.253687 thr__L_c + 0.056843 trp__L_c + 0.137896 tyr__L_c + 5.5e-05 udcpdp_c + 0.144104 utp_c + 0.423162 val__L_c + 0.000341 zn2_c --> 53.95 adp_c + 53.95 h_c + 53.945662 pi_c + 0.773903 ppi_c
12ppd__R_e -->
12ppd__S_e -->
14glucan_e -->
15dap_e -->
23camp_e -->
23ccmp_e -->
23cgmp_e -->
23cump_e -->
23dappa_e -->
26dap__M_e -->
2ddglcn_e -->
34dhpac_e -->
3amp_e -->
3cmp_e -->
3gmp_e -->
3hcinnm_e -->
3hpp_e -->
3hpppn_e -->
3ump_e -->
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4hoxpacd_e -->
5dglcn_e -->
5mtr_e -->
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ac_e -->
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btn_e -->
but_e -->
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ca2_e <=>
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cd2_e -->
cgly_e -->
chol_e -->
chtbs_e -->
cit_e -->
cl_e <=>
cm_e -->
cmp_e -->
co2_e <=>
cobalt2_e <=>
colipa_e -->
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cpgn_un_e -->
crn_e -->
crn__D_e -->
csn_e -->
cu_e -->
cu2_e <=>
cyan_e -->
cynt_e -->
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cytd_e -->
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damp_e -->
dca_e -->
dcmp_e -->
dcyt_e -->
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dgmp_e -->
dgsn_e -->
dha_e -->
dimp_e -->
din_e -->
dms_e -->
dmso_e -->
dopa_e -->
doxrbcn_e -->
dtmp_e -->
dump_e -->
duri_e -->
eca4colipa_e -->
enlipa_e -->
enter_e -->
etha_e -->
ethso3_e -->
etoh_e -->
f6p_e -->
fald_e -->
fe2_e <=>
fe3_e <=>
fe3dcit_e -->
fe3dhbzs_e -->
fe3hox_e -->
fe3hox_un_e -->
fecrm_e -->
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feenter_e -->
feoxam_e -->
feoxam_un_e -->
for_e -->
fru_e -->
frulys_e -->
fruur_e -->
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fum_e -->
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gal_e -->
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galt_e -->
galur_e -->
gam_e -->
gam6p_e -->
gbbtn_e -->
gdp_e -->
glc__D_e <=>
glcn_e -->
glcr_e -->
glcur_e -->
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glu__L_e -->
gly_e -->
glyald_e -->
glyb_e -->
glyc_e -->
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glyc2p_e -->
glyc3p_e -->
glyclt_e -->
gmp_e -->
gsn_e -->
gthox_e -->
gthrd_e -->
gtp_e -->
gua_e -->
h_e <=>
h2_e -->
h2o_e <=>
h2o2_e -->
h2s_e -->
hacolipa_e -->
halipa_e -->
hdca_e -->
hdcea_e -->
hg2_e -->
his__L_e -->
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hxa_e -->
hxan_e -->
idon__L_e -->
ile__L_e -->
imp_e -->
indole_e -->
inost_e -->
ins_e -->
isetac_e -->
k_e <=>
kdo2lipid4_e -->
lac__D_e -->
lac__L_e -->
lcts_e -->
leu__L_e -->
lipa_e -->
lipa_cold_e -->
lipoate_e -->
lys__L_e -->
lyx__L_e -->
mal__D_e -->
mal__L_e -->
malt_e -->
malthx_e -->
maltpt_e -->
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man_e -->
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melib_e -->
meoh_e -->
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met__L_e -->
metsox_R__L_e -->
metsox_S__L_e -->
mg2_e <=>
mincyc_e -->
minohp_e -->
mmet_e -->
mn2_e <=>
mnl_e -->
mobd_e <=>
mso3_e -->
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na1_e <=>
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nh4_e <=>
ni2_e <=>
nmn_e -->
no_e -->
no2_e -->
no3_e -->
novbcn_e -->
o16a4colipa_e -->
o2_e <=>
o2s_e -->
ocdca_e -->
ocdcea_e -->
octa_e -->
orn_e -->
orot_e -->
pacald_e -->
peamn_e -->
phe__L_e -->
pheme_e -->
pi_e <=>
pnto__R_e -->
ppa_e -->
ppal_e -->
pppn_e -->
ppt_e -->
pro__L_e -->
progly_e -->
psclys_e -->
pser__L_e -->
ptrc_e -->
pydam_e -->
pydx_e -->
pydxn_e -->
pyr_e -->
quin_e -->
r5p_e -->
rfamp_e -->
rib__D_e -->
rmn_e -->
sbt__D_e -->
sel_e <=>
ser__D_e -->
ser__L_e -->
skm_e -->
slnt_e <=>
so2_e -->
so3_e -->
so4_e <=>
spmd_e -->
succ_e -->
sucr_e -->
sulfac_e -->
tartr__D_e -->
tartr__L_e -->
taur_e -->
tcynt_e -->
thm_e -->
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thrp_e -->
thym_e -->
thymd_e -->
tma_e -->
tmao_e -->
tre_e -->
trp__L_e -->
tsul_e -->
ttdca_e -->
ttdcea_e -->
ttrcyc_e -->
tungs_e <=>
tym_e -->
tyr__L_e -->
tyrp_e -->
uacgam_e -->
udpacgal_e -->
udpg_e -->
udpgal_e -->
udpglcur_e -->
ump_e -->
ura_e -->
urea_e -->
uri_e -->
val__L_e -->
xan_e -->
xmp_e -->
xtsn_e -->
xyl__D_e -->
xylu__L_e -->
zn2_e <=>
12dgr120_p --> 12dgr120_c
12dgr140_p --> 12dgr140_c
12dgr141_p --> 12dgr141_c
12dgr160_p --> 12dgr160_c
12dgr161_p --> 12dgr161_c
12dgr180_p --> 12dgr180_c
12dgr181_p --> 12dgr181_c
12ppd__R_e <=> 12ppd__R_p
12ppd__R_p <=> 12ppd__R_c
12ppd__S_e <=> 12ppd__S_p
12ppd__S_p <=> 12ppd__S_c
14glucan_p + atp_c + h2o_c --> 14glucan_c + adp_c + h_c + pi_c
14glucan_e --> 14glucan_p
23camp_e <=> 23camp_p
23ccmp_e <=> 23ccmp_p
23cgmp_e <=> 23cgmp_p
23cump_e <=> 23cump_p
23dappa_p + h_p --> 23dappa_c + h_c
23dappa_e <=> 23dappa_p
23cump_p + h2o_p --> 3ump_p + h_p
23ccmp_p + h2o_p --> 3cmp_p + h_p
23camp_p + h2o_p --> 3amp_p + h_p
23cgmp_p + h2o_p --> 3gmp_p + h_p
26dap__M_e <=> 26dap__M_p
2ddecg3p_p --> 2ddecg3p_c
2tdecg3p_p --> 2tdecg3p_c
2tdec7eg3p_p --> 2tdec7eg3p_c
2hdecg3p_p --> 2hdecg3p_c
2hdec9eg3p_p --> 2hdec9eg3p_c
2odecg3p_p --> 2odecg3p_c
2odec11eg3p_p --> 2odec11eg3p_c
2agpe120_p --> 2agpe120_c
2agpe140_p --> 2agpe140_c
2agpe141_p --> 2agpe141_c
2agpe160_p --> 2agpe160_c
2agpe161_p --> 2agpe161_c
2agpe180_p --> 2agpe180_c
2agpe181_p --> 2agpe181_c
2agpe120_c + atp_c + ddca_c --> amp_c + pe120_c + ppi_c
2agpe140_c + atp_c + ttdca_c --> amp_c + pe140_c + ppi_c
2agpe141_c + atp_c + ttdcea_c --> amp_c + pe141_c + ppi_c
2agpe160_c + atp_c + hdca_c --> amp_c + pe160_c + ppi_c
2agpe161_c + atp_c + hdcea_c --> amp_c + pe161_c + ppi_c
2agpe180_c + atp_c + ocdca_c --> amp_c + pe180_c + ppi_c
2agpe181_c + atp_c + ocdcea_c --> amp_c + pe181_c + ppi_c
2agpg120_p --> 2agpg120_c
2agpg140_p --> 2agpg140_c
2agpg141_p --> 2agpg141_c
2agpg160_p --> 2agpg160_c
2agpg161_p --> 2agpg161_c
2agpg180_p --> 2agpg180_c
2agpg181_p --> 2agpg181_c
2agpg120_c + atp_c + ddca_c --> amp_c + pg120_c + ppi_c
2agpg140_c + atp_c + ttdca_c --> amp_c + pg140_c + ppi_c
2agpg141_c + atp_c + ttdcea_c --> amp_c + pg141_c + ppi_c
2agpg160_c + atp_c + hdca_c --> amp_c + pg160_c + ppi_c
2agpg161_c + atp_c + hdcea_c --> amp_c + pg161_c + ppi_c
2agpg180_c + atp_c + ocdca_c --> amp_c + pg180_c + ppi_c
2agpg181_c + atp_c + ocdcea_c --> amp_c + pg181_c + ppi_c
2dhguln_c + h_c + nadh_c --> glcn_c + nad_c
2dhguln_c + h_c + nadph_c --> glcn_c + nadp_c
2dhguln_c + h_c + nadh_c --> idon__L_c + nad_c
2dhguln_c + h_c + nadph_c --> idon__L_c + nadp_c
2mahmp_c + h2o_c --> 4ampm_c + h_c + pi_c
34dhpac_e <=> 34dhpac_p
3amac_c + h2o_c + h_c --> msa_c + nh4_c
3amp_e <=> 3amp_p
3cmp_e <=> 3cmp_p
3gmp_e <=> 3gmp_p
3hdecACP_c --> h2o_c + tdec2eACP_c
3hddecACP_c --> h2o_c + tddec2eACP_c
3hcddec5eACP_c --> h2o_c + t3c5ddeceACP_c
3hmrsACP_c --> h2o_c + tmrs2eACP_c
3hcmrs7eACP_c --> h2o_c + t3c7mrseACP_c
3hpalmACP_c --> h2o_c + tpalm2eACP_c
3hcpalm9eACP_c --> h2o_c + t3c9palmeACP_c
3hoctaACP_c --> h2o_c + toctd2eACP_c
3hcvac11eACP_c --> h2o_c + t3c11vaceACP_c
3haACP_c --> but2eACP_c + h2o_c
3hhexACP_c --> h2o_c + thex2eACP_c
3hoctACP_c --> h2o_c + toct2eACP_c
3hcinnm_c + h_c + nadh_c + o2_c --> dhcinnm_c + h2o_c + nad_c
3hpppn_c + h_c + nadh_c + o2_c --> dhpppn_c + h2o_c + nad_c
3hpp_e <=> 3hpp_p
3hpp_c + h_c --> 3hpp_p + h_p
3dhguln_c + atp_c --> 3dhgulnp_c + adp_c + h_c
3ump_p + h2o_p --> pi_p + uri_p
3cmp_p + h2o_p --> cytd_p + pi_p
3amp_p + h2o_p --> adn_p + pi_p
3gmp_p + h2o_p --> gsn_p + pi_p
3odecACP_c + h_c + nadph_c <=> 3hdecACP_c + nadp_c
3oddecACP_c + h_c + nadph_c <=> 3hddecACP_c + nadp_c
3ocddec5eACP_c + h_c + nadph_c --> 3hcddec5eACP_c + nadp_c
3omrsACP_c + h_c + nadph_c <=> 3hmrsACP_c + nadp_c
3ocmrs7eACP_c + h_c + nadph_c --> 3hcmrs7eACP_c + nadp_c
3opalmACP_c + h_c + nadph_c <=> 3hpalmACP_c + nadp_c
3ocpalm9eACP_c + h_c + nadph_c --> 3hcpalm9eACP_c + nadp_c
3ooctdACP_c + h_c + nadph_c <=> 3hoctaACP_c + nadp_c
3ocvac11eACP_c + h_c + nadph_c --> 3hcvac11eACP_c + nadp_c
actACP_c + h_c + nadph_c <=> 3haACP_c + nadp_c
3ohexACP_c + h_c + nadph_c <=> 3hhexACP_c + nadp_c
3ooctACP_c + h_c + nadph_c <=> 3hoctACP_c + nadp_c
h_c + malACP_c + ocACP_c --> 3odecACP_c + ACP_c + co2_c
dcaACP_c + h_c + malACP_c --> 3oddecACP_c + ACP_c + co2_c
cdec3eACP_c + h_c + malACP_c --> 3ocddec5eACP_c + ACP_c + co2_c
ddcaACP_c + h_c + malACP_c --> 3omrsACP_c + ACP_c + co2_c
cddec5eACP_c + h_c + malACP_c --> 3ocmrs7eACP_c + ACP_c + co2_c
h_c + malACP_c + myrsACP_c --> 3opalmACP_c + ACP_c + co2_c
h_c + malACP_c + tdeACP_c --> 3ocpalm9eACP_c + ACP_c + co2_c
h_c + malACP_c + palmACP_c --> 3ooctdACP_c + ACP_c + co2_c
h_c + hdeACP_c + malACP_c --> 3ocvac11eACP_c + ACP_c + co2_c
butACP_c + h_c + malACP_c --> 3ohexACP_c + ACP_c + co2_c
h_c + hexACP_c + malACP_c --> 3ooctACP_c + ACP_c + co2_c
coa_c + oxadpcoa_c --> accoa_c + succoa_c
LalaDgluMdap_p + atp_c + h2o_c --> LalaDgluMdap_c + adp_c + h_c + pi_c
LalaDgluMdap_e <=> LalaDgluMdap_p
3ump_e <=> 3ump_p
dopa_p + h2o_p + o2_p --> 34dhpac_p + h2o2_p + nh4_p
4hoxpacd_e <=> 4hoxpacd_p
h2o_c + phthr_c --> 4hthr_c + pi_c
LalaDgluMdapDala_c + h2o_c --> LalaDgluMdap_c + ala__D_c
LalaDgluMdapDala_p + h2o_p --> LalaDgluMdap_p + ala__D_p
LalaDgluMdapDala_p + atp_c + h2o_c --> LalaDgluMdapDala_c + adp_c + h_c + pi_c
LalaDgluMdapDala_e <=> LalaDgluMdapDala_p
5dglcn_c + h_c + nadph_c <=> glcn_c + nadp_c
5dglcn_p + h_p <=> 5dglcn_c + h_c
5dglcn_e <=> 5dglcn_p
dad_5_c + h2o_c --> 5drib_c + ade_c
5mtr_e <=> 5mtr_p
5mtr_c + h_c --> 5mtr_p + h_p
ru5p__D_c <=> ara5p_c
ACP_c + atp_c + ttdca_c --> amp_c + myrsACP_c + ppi_c
ACP_c + atp_c + ttdcea_c --> amp_c + ppi_c + tdeACP_c
ACP_c + atp_c + hdca_c --> amp_c + palmACP_c + ppi_c
ACP_c + atp_c + hdcea_c --> amp_c + hdeACP_c + ppi_c
ACP_c + atp_c + ocdcea_c --> amp_c + octeACP_c + ppi_c
ACP_c + atp_c + ocdca_c --> amp_c + ocdcaACP_c + ppi_c
ACP_c + atp_c + ddca_c --> amp_c + ddcaACP_c + ppi_c
ACP_c + atp_c + dca_c --> amp_c + dcaACP_c + ppi_c
ACP_c + atp_c + octa_c --> amp_c + ocACP_c + ppi_c
aact_c + h2o_c + o2_c --> h2o2_c + mthgxl_c + nh4_c
dtdp4aaddg_c + unagamu_c --> dtdp_c + h_c + unagamuf_c
14glucan_c --> malthx_c
14glucan_p --> malthx_p
arbt6p_c + h2o_c --> g6p_c + hqn_c
4abut_c + akg_c --> glu__L_c + sucsal_c
4abutn_c + h2o_c + nad_c --> 4abut_c + 2.0 h_c + nadh_c
4abut_p + h_p --> 4abut_c + h_c
4abut_e <=> 4abut_p
acac_c + accoa_c --> aacoa_c + ac_c
2.0 accoa_c <=> aacoa_c + coa_c
accoa_c + btcoa_c <=> 3ohcoa_c + coa_c
accoa_c + hxcoa_c <=> 3oocoa_c + coa_c
accoa_c + occoa_c <=> 3odcoa_c + coa_c
accoa_c + dcacoa_c <=> 3oddcoa_c + coa_c
accoa_c + ddcacoa_c <=> 3otdcoa_c + coa_c
accoa_c + tdcoa_c <=> 3ohdcoa_c + coa_c
3ohodcoa_c + coa_c <=> accoa_c + pmtcoa_c
acac_p + h_p <=> acac_c + h_c
acac_e <=> acac_p
acald_c + coa_c + nad_c <=> accoa_c + h_c + nadh_c
acald_e <=> acald_p
acald_p <=> acald_c
accoa_c + anth_c --> acanth_c + coa_c
adocbip_c + gtp_c + h_c --> agdpcbi_c + ppi_c
accoa_c + atp_c + hco3_c --> adp_c + h_c + malcoa_c + pi_c
atp_c + coa_c + ppa_c --> adp_c + pi_c + ppcoa_c
acgal1p_p + h2o_p --> acgal_p + pi_p
acgal1p_e <=> acgal1p_p
acgal_e <=> acgal_p
acgam1p_p + h2o_p --> acgam_p + pi_p
acgam1p_e <=> acgam1p_p
acgam_c + atp_c --> acgam6p_c + adp_c + h_c
uacgam_c + udcpp_c --> ump_c + unaga_c
acgam_p + pep_c --> acgam6p_c + pyr_c
acgam_e <=> acgam_p
acglu_c + atp_c --> acg5p_c + adp_c
accoa_c + glu__L_c --> acglu_c + coa_c + h_c
2obut_c + h_c + pyr_c --> 2ahbut_c + co2_c
ac_c + atp_c <=> actp_c + adp_c
h_c + 2.0 pyr_c --> alac__S_c + co2_c
acmum6p_c + h2o_c --> acgam6p_c + lac__D_c
uacmamu_c + unaga_c --> h_c + udp_c + unagamu_c
acmana_p + pep_c --> acmanap_c + pyr_c
acmana_e <=> acmana_p
acmum_p + pep_c --> acmum6p_c + pyr_c
acmum_e --> acmum_p
acnam_p + h_p --> acnam_c + h_c
acnam_e <=> acnam_p
acnam_c --> acmana_c + pyr_c
btcoa_c + fad_c <=> b2coa_c + fadh2_c
fad_c + hxcoa_c <=> fadh2_c + hx2coa_c
fad_c + occoa_c <=> fadh2_c + oc2coa_c
dcacoa_c + fad_c <=> dc2coa_c + fadh2_c
ddcacoa_c + fad_c <=> dd2coa_c + fadh2_c
fad_c + tdcoa_c <=> fadh2_c + td2coa_c
fad_c + pmtcoa_c <=> fadh2_c + hdd2coa_c
fad_c + stcoa_c <=> fadh2_c + od2coa_c
ACP_c + accoa_c <=> acACP_c + coa_c
acorn_c + h2o_c --> ac_c + orn_c
acolipa_p + atp_c + h2o_c --> acolipa_e + adp_c + h_c + pi_c
acon_T_c <=> acon_C_c
acon_T_c + amet_c --> aconm_c + ahcys_c
cit_c <=> acon_C_c + h2o_c
acon_C_c + h2o_c <=> icit_c
acorn_c + akg_c <=> acg5sa_c + glu__L_c
ddcaACP_c + h_c + pi_c --> ACP_c + ddcap_c
h_c + myrsACP_c + pi_c --> ACP_c + ttdcap_c
h_c + pi_c + tdeACP_c --> ACP_c + ttdceap_c
h_c + palmACP_c + pi_c --> ACP_c + hdcap_c
h_c + hdeACP_c + pi_c --> ACP_c + hdceap_c
h_c + ocdcaACP_c + pi_c --> ACP_c + ocdcap_c
h_c + octeACP_c + pi_c --> ACP_c + ocdceap_c
apoACP_c + coa_c --> ACP_c + h_c + pap_c
ac_c + atp_c + coa_c --> accoa_c + amp_c + ppi_c
acser_e <=> acser_p
acser_c --> acser_p
ac_p + h_p <=> ac_c + h_c
ac_p + na1_p --> ac_c + na1_c
ac_e <=> ac_p
adn_c + h2o_c + h_c --> ins_c + nh4_c
4adcho_c --> 4abz_c + h_c + pyr_c
chor_c + gln__L_c --> 4adcho_c + glu__L_c
ade_c + h2o_c + h_c --> hxan_c + nh4_c
ade_p + h_p <=> ade_c + h_c
ade_e <=> ade_p
amp_c + atp_c <=> 2.0 adp_c
amp_c + gtp_c <=> adp_c + gdp_c
amp_c + itp_c <=> adp_c + idp_c
amet_c + h_c --> ametam_c + co2_c
atp_c --> camp_c + ppi_c
adn_c + atp_c --> adp_c + amp_c + h_c
adn_c + h2o_c --> ade_c + rib__D_c
adn_p + h_p --> adn_c + h_c
adn_p + h_p <=> adn_c + h_c
adn_e <=> adn_p
adocbi_c + atp_c --> adocbip_c + adp_c + h_c
agdpcbi_c + rdmbzi_c --> adocbl_c + gmp_c + h_c
adocbl_p + atp_c + h2o_c --> adocbl_c + adp_c + h_c + pi_c
adocbl_e + h_p --> adocbl_p + h_c
adprib_c + h2o_c --> amp_c + 2.0 h_c + r5p_c
ade_c + prpp_c --> amp_c + ppi_c
aps_c + atp_c --> adp_c + h_c + paps_c
dcamp_c <=> amp_c + fum_c
25aics_c <=> aicar_c + fum_c
asp__L_c + gtp_c + imp_c --> dcamp_c + gdp_c + 2.0 h_c + pi_c
acgam6p_c + h2o_c --> ac_c + gam6p_c
anhgm3p_c + h2o_c --> LalaDgluMdap_c + anhgm_c
anhgm3p_p + h2o_p --> LalaDgluMdap_p + anhgm_p
anhgm3p_c + h2o_c --> acgam_c + anhm3p_c
anhgm3p_p + h_p --> anhgm3p_c + h_c
anhgm4p_c + h2o_c --> LalaDgluMdapDala_c + anhgm_c
anhgm4p_p + h2o_p --> LalaDgluMdapDala_p + anhgm_p
anhgm4p_c + h2o_c --> ala__D_c + anhgm3p_c
anhgm4p_p + h2o_p --> ala__D_p + anhgm3p_p
anhgm4p_c + h2o_c --> acgam_c + anhm4p_c
anhgm4p_p + h_p --> anhgm4p_c + h_c
anhgm_c + h2o_c --> acgam_c + anhm_c
adphep_DD_c --> adphep_LD_c
agm_c + h2o_c --> ptrc_c + urea_c
anhgm_p + h_p --> anhgm_c + h_c
agm_e <=> agm_p
1ddecg3p_c + ddcaACP_c --> ACP_c + pa120_c
1tdecg3p_c + myrsACP_c --> ACP_c + pa140_c
1tdec7eg3p_c + tdeACP_c --> ACP_c + pa141_c
1hdecg3p_c + palmACP_c --> ACP_c + pa160_c
1hdec9eg3p_c + hdeACP_c --> ACP_c + pa161_c
1odecg3p_c + ocdcaACP_c --> ACP_c + pa180_c
1odec11eg3p_c + octeACP_c --> ACP_c + pa181_c
acg5sa_c + nadp_c + pi_c <=> acg5p_c + h_c + nadph_c
ag_c + h_e --> ag_e + h_c
ahcys_c + h2o_c --> ade_c + rhcys_c
10fthf_c + aicar_c <=> fprica_c + thf_c
air_c + atp_c + hco3_c --> 5caiz_c + adp_c + h_c + pi_c
5aizc_c <=> 5caiz_c
akg_c + coa_c + nad_c --> co2_c + nadh_c + succoa_c
akg_p + h_p <=> akg_c + h_c
akg_e <=> akg_p
alaala_c + h2o_c --> 2.0 ala__D_c
alaala_p + atp_c + h2o_c --> adp_c + alaala_c + h_c + pi_c
2.0 ala__D_c + atp_c <=> adp_c + alaala_c + h_c + pi_c
alaala_e <=> alaala_p
LalaDglu_c <=> LalaLglu_c
ala__L_c <=> ala__D_c
ala__D_c + pydx5p_c --> pyam5p_c + pyr_c
akg_c + ala__L_c <=> glu__L_c + pyr_c
ala__L_c + pydx5p_c --> pyam5p_c + pyr_c
ala__L_c + atp_c + trnaala_c --> alatrna_c + amp_c + ppi_c
ala__L_p + atp_c + h2o_c --> adp_c + ala__L_c + h_c + pi_c
ala__L_p + h_p --> ala__L_c + h_c
ala__L_p + h_p <=> ala__L_c + h_c
ala__L_p + na1_p --> ala__L_c + na1_c
ala__L_e <=> ala__L_p
glyald_c + h_c + nadh_c <=> glyc_c + nad_c
etoh_c + nad_c <=> acald_c + h_c + nadh_c
h2o_c + nad_c + pacald_c <=> 2.0 h_c + nadh_c + pac_c
acald_c + h2o_c + nad_c --> ac_c + 2.0 h_c + nadh_c
acald_c + h2o_c + nadp_c --> ac_c + 2.0 h_c + nadph_c
h2o_c + nadp_c + ppal_c --> 2.0 h_c + nadph_c + ppa_c
btal_c + h2o_c + nad_c --> but_c + 2.0 h_c + nadh_c
all__D_c + atp_c --> adp_c + all6p_c + h_c
all6p_c <=> allul6p_c
alltt_c + 2.0 h2o_c + 2.0 h_c --> co2_c + 2.0 nh4_c + urdglyc_c
alltn_c + h2o_c --> alltt_c + h_c
alltn_p + h_p <=> alltn_c + h_c
alltn_e <=> alltn_p
allul6p_c <=> f6p_c
all__D_p + atp_c + h2o_c --> adp_c + all__D_c + h_c + pi_c
all__D_e <=> all__D_p
alpp_p + pe160_p --> 2agpe160_p + lpp_p
alpp_p + pg160_p --> 2agpg160_p + lpp_p
h_c + mthgxl_c + nadph_c --> acetol_c + nadp_c
acetol_c + h_c + nadh_c --> 12ppd__R_c + nad_c
altrn_c --> 2ddglcn_c + h2o_c
anhm3p_c + h2o_c --> LalaDgluMdap_c + anhm_c
anhm4p_c + h2o_c --> LalaDgluMdapDala_c + anhm_c
anhm4p_c + h2o_c --> ala__D_c + anhm3p_c
malt_c + malttr_c --> glc__D_c + maltttr_c
malt_c + maltttr_c --> glc__D_c + maltpt_c
malt_c + maltpt_c --> glc__D_c + malthx_c
malt_c + malthx_c --> glc__D_c + malthp_c
acmanap_c <=> acgam6p_c
acmana_c + atp_c --> acmanap_c + adp_c + h_c
8aonn_c + amet_c <=> amob_c + dann_c
2dmmql8_c + amet_c --> ahcys_c + h_c + mql8_c
air_c + h2o_c + nad_c --> 4ampm_c + 2.0 for_c + 3.0 h_c + nadh_c
amp_c + h2o_c --> ade_c + r5p_c
cgly_c + h2o_c --> cys__L_c + gly_c
h2o_c + progly_c --> gly_c + pro__L_c
amp_e <=> amp_p
anhgm_e <=> anhgm_p
anhm_c + atp_c + h2o_c --> acmum6p_c + adp_c + h_c
anth_c + prpp_c --> ppi_c + pran_c
chor_c + gln__L_c --> anth_c + glu__L_c + h_c + pyr_c
2aobut_c + h_c --> aact_c + co2_c
ala__L_c + pimACP_c --> 8aonn_c + ACP_c + co2_c
ap4a_c + h2o_c --> 2.0 adp_c + 2.0 h_c
2.0 atp_c + h_c --> ap4a_c + ppi_c
ap5a_c + h2o_c --> adp_c + atp_c + 2.0 h_c
15dap_c + ametam_c --> 5mta_c + h_c + na15dap_c
ddcap_c + glyc3p_c --> 1ddecg3p_c + h_c + pi_c
glyc3p_c + ttdcap_c --> 1tdecg3p_c + h_c + pi_c
glyc3p_c + ttdceap_c --> 1tdec7eg3p_c + h_c + pi_c
glyc3p_c + hdcap_c --> 1hdecg3p_c + h_c + pi_c
glyc3p_c + hdceap_c --> 1hdec9eg3p_c + h_c + pi_c
glyc3p_c + ocdcap_c --> 1odecg3p_c + h_c + pi_c
glyc3p_c + ocdceap_c --> 1odec11eg3p_c + h_c + pi_c
ddcap_c + h2o_c --> ddca_c + 2.0 h_c + pi_c
h2o_c + ttdcap_c --> 2.0 h_c + pi_c + ttdca_c
h2o_c + ttdceap_c --> 2.0 h_c + pi_c + ttdcea_c
h2o_c + hdcap_c --> 2.0 h_c + hdca_c + pi_c
h2o_c + hdceap_c --> 2.0 h_c + hdcea_c + pi_c
h2o_c + ocdcap_c --> 2.0 h_c + ocdca_c + pi_c
h2o_c + ocdceap_c --> 2.0 h_c + ocdcea_c + pi_c
aact_c + h_c + nadh_c <=> appl_c + nad_c
5apru_c + h_c + nadph_c --> 5aprbu_c + nadp_c
arab__L_c <=> rbl__L_c
2.0 arbtn_fe3_c + fadh2_c --> 2.0 arbtn_c + fad_c + 2.0 fe2_c + 2.0 h_c
2.0 arbtn_fe3_c + fmnh2_c --> 2.0 arbtn_c + 2.0 fe2_c + fmn_c + 2.0 h_c
2.0 arbtn_fe3_c + rbflvrd_c --> 2.0 arbtn_c + 2.0 fe2_c + 2.0 h_c + ribflv_c
arbtn_fe3_p + atp_c + h2o_c --> adp_c + arbtn_fe3_c + h_c + pi_c
arbtn_e + fe3_e --> arbtn_fe3_e
arbtn_p + h_p --> arbtn_e + h_c
arbtn_fe3_e + h_p --> arbtn_fe3_p + h_c
arbtn_c + h_p --> arbtn_p + h_c
arbt_p + pep_c --> arbt6p_c + pyr_c
arbt_e --> arbt_p
arab__L_p + atp_c + h2o_c --> adp_c + arab__L_c + h_c + pi_c
arab__L_p + h_p <=> arab__L_c + h_c
arab__L_c + h_p --> arab__L_p + h_c
arab__L_e <=> arab__L_p
agm_c + arg__L_p <=> agm_p + arg__L_c
arg__L_c + h_c --> agm_c + co2_c
arg__L_p + h_p --> agm_p + co2_p
arg__L_p + orn_c <=> arg__L_c + orn_p
argsuc_c <=> arg__L_c + fum_c
asp__L_c + atp_c + citr__L_c --> amp_c + argsuc_c + h_c + ppi_c
arg__L_c + atp_c + trnaarg_c --> amp_c + argtrna_c + ppi_c
arg__L_p + atp_c + h2o_c --> adp_c + arg__L_c + h_c + pi_c
arg__L_c + h_p --> arg__L_p + h_c
arg__L_e <=> arg__L_p
aspsa_c + nadp_c + pi_c <=> 4pasp_c + h_c + nadph_c
ascb6p_c + h2o_c --> 3dhgulnp_c + h_c
ascb__L_p + pep_c --> ascb6p_c + pyr_c
ascb__L_e <=> ascb__L_p
asn__L_c + h2o_c --> asp__L_c + nh4_c
asn__L_p + h2o_p --> asp__L_p + nh4_p
asp__L_c + atp_c + gln__L_c + h2o_c --> amp_c + asn__L_c + glu__L_c + h_c + ppi_c
asp__L_c + atp_c + nh4_c --> amp_c + asn__L_c + h_c + ppi_c
asn__L_c + atp_c + trnaasn_c --> amp_c + asntrna_c + ppi_c
asn__L_p + atp_c + h2o_c --> adp_c + asn__L_c + h_c + pi_c
asn__L_p + h_p <=> asn__L_c + h_c
asn__L_e <=> asn__L_p
aso3_c + atp_c + h2o_c --> adp_c + aso3_p + h_c + pi_c
aso3_e <=> aso3_p
asp__L_c + h_c --> ala_B_c + co2_c
asp__L_c + cbp_c --> cbasp_c + h_c + pi_c
asp__L_c + atp_c <=> 4pasp_c + adp_c
asp__L_c + q8_c --> h_c + iasp_c + q8h2_c
asp__L_c + mqn8_c --> h_c + iasp_c + mql8_c
asp__L_c + fum_c --> h_c + iasp_c + succ_c
asp__L_c + o2_c --> h2o2_c + h_c + iasp_c
asp__L_c --> fum_c + nh4_c
akg_c + asp__L_c <=> glu__L_c + oaa_c
asp__L_c + atp_c + trnaasp_c --> amp_c + asptrna_c + ppi_c
asp__L_p + atp_c + h2o_c --> adp_c + asp__L_c + h_c + pi_c
asp__L_p + 2.0 h_p --> asp__L_c + 2.0 h_c
asp__L_p + 3.0 h_p --> asp__L_c + 3.0 h_c
asp__L_p + h_p --> asp__L_c + h_c
asp__L_p + h_p <=> asp__L_c + h_c
asp__L_e <=> asp__L_p
aso4_c + 2.0 gthrd_c --> aso3_c + gthox_c + h2o_c
arg__L_c + succoa_c --> coa_c + h_c + sucarg_c
athr__L_c + nadp_c <=> 2aobut_c + h_c + nadph_c
atp_c + h2o_c + h_c --> itp_c + nh4_c
atp_c + h2o_c --> adp_c + h_c + pi_c
atp_c + prpp_c --> ppi_c + prbatp_c
adp_c + 4.0 h_p + pi_c <=> atp_c + h2o_c + 3.0 h_c
ala_B_p + h_p --> ala_B_c + h_c
ala_B_e <=> ala_B_p
betald_c + h2o_c + nad_c --> glyb_c + 2.0 h_c + nadh_c
betald_c + h2o_c + nadp_c --> glyb_c + 2.0 h_c + nadph_c
moco_c + mptamp_c --> amp_c + bmoco_c + cu2_c
bmoco_c + gtp_c + h_c --> bmoco1gdp_c + ppi_c
bmoco1gdp_c + gtp_c + h_c --> bmocogdp_c + ppi_c
h2o_c + pap_c --> amp_c + pi_c
btnso_c + h_c + nadh_c --> btn_c + h2o_c + nad_c
btnso_c + h_c + nadph_c --> btn_c + h2o_c + nadp_c
btn_p + h_p --> btn_c + h_c
btn_e <=> btn_p
2fe2s_c + amet_c + dtbt_c --> 2fe1s_c + btn_c + dad_5_c + h_c + met__L_c
accoa_c + but_c --> ac_c + btcoa_c
atp_c + butso3_p + h2o_c --> adp_c + butso3_c + h_c + pi_c
butso3_e <=> butso3_p
but_p + h_p <=> but_c + h_c
but_e <=> but_p
bwco_c + gtp_c + h_c --> bwco1gdp_c + ppi_c
bwco1gdp_c + gtp_c + h_c --> bwcogdp_c + ppi_c
mptamp_c + wco_c --> amp_c + bwco_c + cu2_c
ca2_c + h_p --> ca2_p + h_c
ca2_e <=> ca2_p
15dap_c + h_p + lys__L_p --> 15dap_p + h_c + lys__L_c
2.0 h2o2_c --> 2.0 h2o_c + o2_c
ca2_c + na1_p <=> ca2_p + na1_c
atp_c + cbi_c + h_c <=> adocbi_c + pppi_c
cbi_e + h_p --> cbi_p + h_c
atp_c + cbi_p + h2o_c --> adp_c + cbi_c + h_c + pi_c
atp_c + cbl1_p + h2o_c --> adp_c + cbl1_c + h_c + pi_c
cbl1_e + h_p --> cbl1_p + h_c
atp_c + cbl1_c + h_c <=> adocbl_c + pppi_c
cbm_c + 2.0 h_c --> co2_c + nh4_c
atp_c + co2_c + nh4_c <=> adp_c + cbp_c + 2.0 h_c
2.0 atp_c + gln__L_c + h2o_c + hco3_c --> 2.0 adp_c + cbp_c + glu__L_c + 2.0 h_c + pi_c
atp_c + cdg_c + nh4_c --> adp_c + h2o_c + h_c + pi_c + preq0_c
atp_c + cd2_c + h2o_c --> adp_c + cd2_p + h_c + pi_c
cd2_c + h_p --> cd2_p + h_c
cd2_e <=> cd2_p
cd2_p --> cd2_c
cdpdddecg_c + h2o_c --> cmp_c + 2.0 h_c + pa120_c
cdpdtdecg_c + h2o_c --> cmp_c + 2.0 h_c + pa140_c
cdpdtdec7eg_c + h2o_c --> cmp_c + 2.0 h_c + pa141_c
cdpdhdecg_c + h2o_c --> cmp_c + 2.0 h_c + pa160_c
cdpdhdec9eg_c + h2o_c --> cmp_c + 2.0 h_c + pa161_c
cdpdodecg_c + h2o_c --> cmp_c + 2.0 h_c + pa180_c
cdpdodec11eg_c + h2o_c --> cmp_c + 2.0 h_c + pa181_c
3.0 h_c + 2.0 nadph_c + preq0_c --> 2.0 nadp_c + preq1_c
cph4_c + h_c --> cdg_c + nh4_c
4c2me_c + atp_c --> 2p4c2me_c + adp_c + h_c
2.0 amet_c + pe161_c --> 2.0 ahcys_c + cpe160_c + 2.0 h_c
2.0 amet_c + pg161_c --> 2.0 ahcys_c + cpg160_c + 2.0 h_c
2.0 amet_c + pe181_c --> 2.0 ahcys_c + cpe180_c + 2.0 h_c
2.0 amet_c + pg181_c --> 2.0 ahcys_c + cpg180_c + 2.0 h_c
atp_c + cgly_p + h2o_c --> adp_c + cgly_c + h_c + pi_c
cgly_e <=> cgly_p
atp_c + chol_p + h2o_c --> adp_c + chol_c + h_c + pi_c
chol_p + h_p --> chol_c + h_c
chol_e <=> chol_p
chol_c + nad_c --> betald_c + h_c + nadh_c
chor_c --> pphn_c
3psme_c --> chor_c + pi_c
chor_c --> 4hbz_c + pyr_c
chtbs_p + pep_c --> chtbs6p_c + pyr_c
chtbs_e <=> chtbs_p
cinnm_c + h_c + nadh_c + o2_c --> cenchddd_c + nad_c
cit_c --> ac_c + oaa_c
cit_c + h_p --> cit_p + h_c
cit_p + succ_c --> cit_c + succ_p
cit_e <=> cit_p
atp_c + h2o_c + lipa_cold_p --> adp_c + h_c + lipa_cold_e + pi_c
clpn120_p + h2o_p --> h_p + pa120_p + pg120_p
clpn140_p + h2o_p --> h_p + pa140_p + pg140_p
clpn141_p + h2o_p --> h_p + pa141_p + pg141_p
clpn160_p + h2o_p --> h_p + pa160_p + pg160_p
clpn161_p + h2o_p --> h_p + pa161_p + pg161_p
clpn180_p + h2o_p --> h_p + pa180_p + pg180_p
clpn181_p + h2o_p --> h_p + pa181_p + pg181_p
2.0 pg120_p <=> clpn120_p + glyc_p
2.0 pg140_p <=> clpn140_p + glyc_p
2.0 pg141_p <=> clpn141_p + glyc_p
2.0 pg160_p <=> clpn160_p + glyc_p
2.0 pg161_p <=> clpn161_p + glyc_p
2.0 pg180_p <=> clpn180_p + glyc_p
2.0 pg181_p <=> clpn181_p + glyc_p
2.0 cl_p + h_c --> 2.0 cl_c + h_p
cl_e <=> cl_p
cmp_c + h2o_c --> csn_c + r5p_c
cmp_e <=> cmp_p
cm_e <=> cm_p
cm_p + h_p --> cm_e + h_c
co2_e <=> co2_p
co2_p <=> co2_c
atp_c + cobalt2_c + h2o_c --> adp_c + cobalt2_p + h_c + pi_c
cobalt2_c + h_p --> cobalt2_p + h_c
cobalt2_e <=> cobalt2_p
cobalt2_p --> cobalt2_c
colipa_p + udcpdp_p --> colipap_p + udcpp_p
atp_c + colipap_p + h2o_c --> adp_c + colipap_e + h_c + pi_c
atp_c + colipa_c + h2o_c --> adp_c + colipa_p + h_c + pi_c
atp_c + colipa_p + h2o_c --> adp_c + colipa_e + h_c + pi_c
2.0 cpgn_c + fadh2_c --> 2.0 cpgn_un_c + fad_c + 2.0 fe2_c + 2.0 h_c
2.0 cpgn_c + fmnh2_c --> 2.0 cpgn_un_c + 2.0 fe2_c + fmn_c + 2.0 h_c
2.0 cpgn_c + rbflvrd_c --> 2.0 cpgn_un_c + 2.0 fe2_c + 2.0 h_c + ribflv_c
cpgn_un_p + h_p --> cpgn_un_e + h_c
cpgn_un_c + h_p --> cpgn_un_p + h_c
atp_c + cpgn_p + h2o_c --> adp_c + cpgn_c + h_c + pi_c
cpgn_un_e + fe3_e --> cpgn_e
cpgn_e + h_p --> cpgn_p + h_c
ahdt_c + h2o_c --> acald_c + cph4_c + h_c + pppi_c
gtp_c + h2o_c --> cpmp_c + ppi_c
cpppg3_c + 2.0 h_c + o2_c --> 2.0 co2_c + 2.0 h2o_c + pppg9_c
2.0 amet_c + cpppg3_c --> 2.0 co2_c + 2.0 dad_5_c + 2.0 met__L_c + pppg9_c
bbtcoa_c + crn_c <=> crncoa_c + gbbtn_c
atp_c + coa_c + crn_c --> adp_c + crncoa_c + pi_c
crncoa_c <=> crnDcoa_c
crn_c + ctbtcoa_c <=> crncoa_c + ctbt_c
crncoa_c <=> ctbtcoa_c + h2o_c
atp_c + coa_c + crn__D_c --> adp_c + crnDcoa_c + pi_c
atp_c + crn__D_p + h2o_c --> adp_c + crn__D_c + h_c + pi_c
crn__D_p + h_p <=> crn__D_c + h_c
crn__D_e <=> crn__D_p
atp_c + crn_p + h2o_c --> adp_c + crn_c + h_c + pi_c
crn_p + h_p <=> crn_c + h_c
crn_p + gbbtn_c --> crn_c + gbbtn_p
crn__D_c + crn_p --> crn__D_p + crn_c
crn_e <=> crn_p
accoa_c + h2o_c + oaa_c --> cit_c + coa_c + h_c
csn_c + h2o_c + h_c --> nh4_c + ura_c
csn_p + h_p --> csn_c + h_c
csn_e <=> csn_p
atp_c + coa_c + ctbt_c --> adp_c + ctbtcoa_c + pi_c
atp_c + ctbt_p + h2o_c --> adp_c + ctbt_c + h_c + pi_c
ctbt_p + h_p <=> ctbt_c + h_c
tdecoa_c <=> td2coa_c
hdcoa_c <=> hdd2coa_c
odecoa_c <=> od2coa_c
atp_c + gln__L_c + h2o_c + utp_c --> adp_c + ctp_c + glu__L_c + 2.0 h_c + pi_c
4.0 cu_p + 4.0 h_p + o2_p --> 4.0 cu2_p + 2.0 h2o_p
atp_c + cu_c + h2o_c --> adp_c + cu_p + h_c + pi_c
atp_c + cu2_c + h2o_c --> adp_c + cu2_p + h_c + pi_c
cu2_e <=> cu2_p
cu2_p --> cu2_c
cu_c + h_e --> cu_e + h_c
cu_e <=> cu_p
cyan_c + tsul_c --> h_c + so3_c + tcynt_c
cyan_p + tsul_p --> h_p + so3_p + tcynt_p
cyan_e <=> cyan_p
cynt_c + 3.0 h_c + hco3_c --> 2.0 co2_c + nh4_c
cynt_p + h_p --> cynt_c + h_c
cynt_e <=> cynt_p
cys__D_c + h2o_c --> h2s_c + nh4_c + pyr_c
cys__L_c + h2o_c --> h2s_c + nh4_c + pyr_c
atp_c + cys__D_p + h2o_c --> adp_c + cys__D_c + h_c + pi_c
cys__D_e <=> cys__D_p
acser_c + h2s_c --> ac_c + cys__L_c + h_c
3sala_c + 2.0 h_c --> ala__L_c + so2_c
cyst__L_c + h2o_c --> hcys__L_c + nh4_c + pyr_c
atp_c + cys__L_c + trnacys_c --> amp_c + cystrna_c + ppi_c
atp_c + cys__L_c + h2o_c --> adp_c + cys__L_p + h_c + pi_c
atp_c + cys__L_p + h2o_c --> adp_c + cys__L_c + h_c + pi_c
cys__L_e <=> cys__L_p
cys__L_c --> cys__L_p
2.0 h_c + mql8_c + 0.5 o2_c --> h2o_c + 2.0 h_p + mqn8_c
2.0 h_c + 0.5 o2_c + q8h2_c --> h2o_c + 2.0 h_p + q8_c
4.0 h_c + 0.5 o2_c + q8h2_c --> h2o_c + 4.0 h_p + q8_c
cytd_c + h2o_c + h_c --> nh4_c + uri_c
cytd_c + h2o_c --> csn_c + rib__D_c
cytd_c + gtp_c --> cmp_c + gdp_c + h_c
cytd_p + h_p --> cytd_c + h_c
cytd_p + h_p <=> cytd_c + h_c
cytd_e <=> cytd_p
atp_c + cmp_c <=> adp_c + cdp_c
atp_c + dcmp_c <=> adp_c + dcdp_c
h_p + lac__D_p <=> h_c + lac__D_c
lac__D_e <=> lac__D_p
ala__D_c + fad_c + h2o_c --> fadh2_c + nh4_c + pyr_c
dad_2_c + h2o_c + h_c --> din_c + nh4_c
atp_c + damp_c <=> adp_c + dadp_c
dad_2_p + h_p --> dad_2_c + h_c
dad_2_e <=> dad_2_p
12dgr120_c + atp_c --> adp_c + h_c + pa120_c
12dgr140_c + atp_c --> adp_c + h_c + pa140_c
12dgr141_c + atp_c --> adp_c + h_c + pa141_c
12dgr160_c + atp_c --> adp_c + h_c + pa160_c
12dgr161_c + atp_c --> adp_c + h_c + pa161_c
12dgr180_c + atp_c --> adp_c + h_c + pa180_c
12dgr181_c + atp_c --> adp_c + h_c + pa181_c
ala__D_p + h_p --> ala__D_c + h_c
ala__D_e <=> ala__D_p
damp_e <=> damp_p
23dappa_c + h2o_c --> 2.0 nh4_c + pyr_c
26dap__M_c + h_c --> co2_c + lys__L_c
26dap_LL_c <=> 26dap__M_c
26dap__M_p + atp_c + h2o_c --> 26dap__M_c + adp_c + h_c + pi_c
15dap_e <=> 15dap_p
ctp_c + h_c + pa120_c --> cdpdddecg_c + ppi_c
ctp_c + h_c + pa140_c --> cdpdtdecg_c + ppi_c
ctp_c + h_c + pa141_c --> cdpdtdec7eg_c + ppi_c
ctp_c + h_c + pa160_c --> cdpdhdecg_c + ppi_c
ctp_c + h_c + pa161_c --> cdpdhdec9eg_c + ppi_c
ctp_c + h_c + pa180_c --> cdpdodecg_c + ppi_c
ctp_c + h_c + pa181_c --> cdpdodec11eg_c + ppi_c
datp_c + h2o_c + h_c --> ditp_c + nh4_c
ru5p__D_c --> db4p_c + for_c + h_c
atp_c + co2_c + dann_c --> adp_c + dtbt_c + 3.0 h_c + pi_c
chtbs6p_c + h2o_c --> acgam6p_c + acgam_c
dca_e <=> dca_p
dcmp_e <=> dcmp_p
dctp_c + h2o_c + h_c --> dutp_c + nh4_c
dcyt_c + h2o_c + h_c --> duri_c + nh4_c
dcyt_p + h_p --> dcyt_c + h_c
dcyt_e <=> dcyt_p
ddca_e --> ddca_p
2dh3dgal_c + atp_c --> 2dh3dgal6p_c + adp_c + h_c
2ddglcn_p + h_p <=> 2ddglcn_c + h_c
2ddglcn_e <=> 2ddglcn_p
2ddglcn_c + atp_c --> 2ddg6p_c + adp_c + h_c
e4p_c + h2o_c + pep_c --> 2dda7p_c + pi_c
2dh3dgal6p_c <=> g3p_c + pyr_c
atp_c + dgmp_c <=> adp_c + dgdp_c
dgmp_e <=> dgmp_p
dgsn_p + h_p --> dgsn_c + h_c
dgsn_e <=> dgsn_p
23dhacoa_c + h2o_c <=> 3hadpcoa_c
23dhmb_c --> 3mob_c + h2o_c
23dhmp_c --> 3mop_c + h2o_c
dha_c + pep_c --> dhap_c + pyr_c
dha_e <=> dha_p
dha_p <=> dha_c
23ddhb_c + nad_c <=> 23dhb_c + h_c + nadh_c
23dhb_c + atp_c + h_c --> 23dhba_c + ppi_c
23dhbzs_c + h2o_c --> 23dhb_c + ser__L_c
cenchddd_c + nad_c --> dhcinnm_c + h_c + nadh_c
dhcinnm_c + o2_c --> h_c + hkntd_c
23dhdp_c + h_c + nadph_c --> nadp_c + thdp_c
aspsa_c + pyr_c --> 23dhdp_c + 2.0 h2o_c + h_c
dhf_c + h_c + nadph_c <=> nadp_c + thf_c
atp_c + dhpt_c + glu__L_c --> adp_c + dhf_c + h_c + pi_c
dhmpt_c + h_c + nadph_c --> nadp_c + thmnp_c
dhna_c + h_c + octdp_c --> 2dmmql8_c + co2_c + ppi_c
h_c + sbzcoa_c --> 14dhncoa_c + h2o_c
14dhncoa_c + h2o_c --> coa_c + dhna_c + h_c
dhnpt_c <=> 6hmhpt_c + gcald_c
dhnpt_c <=> dhmpt_c
dhor__S_c + q8_c --> orot_c + q8h2_c
dhor__S_c + mqn8_c --> mql8_c + orot_c
dhor__S_c + fum_c --> orot_c + succ_c
dhor__S_c + h2o_c <=> cbasp_c + h_c
cechddd_c + nad_c --> dhpppn_c + h_c + nadh_c
25drapp_c + h2o_c + h_c --> 5apru_c + nh4_c
4abz_c + 6hmhptpp_c --> dhpt_c + ppi_c
dhptd_c --> mdhdhf_c
dhptdn_c + 3.0 h_c + nadph_c --> nadp_c + thptdn_c
dhptdn_c + 3.0 h_c + nadh_c --> nad_c + thptdn_c
ahdt_c <=> dhmptp_c
2dda7p_c --> 3dhq_c + pi_c
3dhq_c --> 3dhsk_c + h2o_c
dimp_e <=> dimp_p
din_p + h_p --> din_c + h_c
din_e <=> din_p
25dkglcn_c + h_c + nadph_c --> 2dhguln_c + nadp_c
25dkglcn_c + h_c + nadh_c --> 5dglcn_c + nad_c
25dkglcn_c + h_c + nadph_c --> 5dglcn_c + nadp_c
dmpp_c + ipdp_c --> grdp_c + ppi_c
h2mb4p_c + h_c + nadh_c --> dmpp_c + h2o_c + nad_c
2omhmbl_c + amet_c --> ahcys_c + h_c + q8h2_c
dmso_c + mql8_c --> dms_c + h2o_c + mqn8_c
dmso_p + mql8_c --> dms_p + h2o_p + mqn8_c
2dmmql8_c + dmso_c --> 2dmmq8_c + dms_c + h2o_c
2dmmql8_c + dmso_p --> 2dmmq8_c + dms_p + h2o_p
dmso_e <=> dmso_p
dmso_p <=> dmso_c
dms_e <=> dms_p
dhpmp_c + h2o_c --> dhnpt_c + pi_c
ahdt_c + h2o_c --> dhpmp_c + h_c + ppi_c
23doguln_c + h_c + nadh_c --> 3dhguln_c + nad_c
dopa_e <=> dopa_p
doxrbcn_e <=> doxrbcn_p
doxrbcn_p + h_p --> doxrbcn_e + h_c
atp_c + dpcoa_c --> adp_c + coa_c + h_c
2dhp_c + h_c + nadph_c --> nadp_c + pant__R_c
2dr5p_c --> acald_c + g3p_c
dsbard_p + q8_c --> dsbaox_p + q8h2_c
dsbard_p + mqn8_c --> dsbaox_p + mql8_c
dsbcox_p + 2.0 gthrd_p --> dsbcrd_p + gthox_p
dsbdox_c + trdrd_c --> dsbdrd_c + trdox_c
dsbgox_p + 2.0 gthrd_p --> dsbgrd_p + gthox_p
nadp_c + ser__D_c <=> 2amsa_c + h_c + nadph_c
h_p + ser__D_p --> h_c + ser__D_c
ser__D_e <=> ser__D_p
tartr__D_c --> h2o_c + oaa_c
atp_c + dtmp_c <=> adp_c + dtdp_c
dtmp_e <=> dtmp_p
dump_e <=> dump_p
56dura_c + nad_c <=> h_c + nadh_c + ura_c
atp_c + duri_c --> adp_c + dump_c + h_c
duri_c + pi_c <=> 2dr1p_c + ura_c
duri_p + h_p --> duri_c + h_c
duri_e <=> duri_p
dutp_c + h2o_c --> dump_c + h_c + ppi_c
dxyl5p_c + h_c + nadph_c --> 2me4p_c + nadp_c
g3p_c + h_c + pyr_c --> co2_c + dxyl5p_c
atp_c + dxyl_c --> adp_c + dxyl5p_c + h_c
e4p_c + h2o_c + nad_c <=> 4per_c + 2.0 h_c + nadh_c
h_c + nadh_c + tdec2eACP_c --> dcaACP_c + nad_c
h_c + nadph_c + tdec2eACP_c --> dcaACP_c + nadp_c
h_c + nadh_c + tddec2eACP_c --> ddcaACP_c + nad_c
h_c + nadph_c + tddec2eACP_c --> ddcaACP_c + nadp_c
h_c + nadh_c + t3c5ddeceACP_c --> cddec5eACP_c + nad_c
h_c + nadph_c + t3c5ddeceACP_c --> cddec5eACP_c + nadp_c
h_c + nadh_c + tmrs2eACP_c --> myrsACP_c + nad_c
h_c + nadph_c + tmrs2eACP_c --> myrsACP_c + nadp_c
h_c + nadh_c + t3c7mrseACP_c --> nad_c + tdeACP_c
h_c + nadph_c + t3c7mrseACP_c --> nadp_c + tdeACP_c
h_c + nadh_c + tpalm2eACP_c --> nad_c + palmACP_c
h_c + nadph_c + tpalm2eACP_c --> nadp_c + palmACP_c
h_c + nadh_c + t3c9palmeACP_c --> hdeACP_c + nad_c
h_c + nadph_c + t3c9palmeACP_c --> hdeACP_c + nadp_c
h_c + nadh_c + toctd2eACP_c --> nad_c + ocdcaACP_c
h_c + nadph_c + toctd2eACP_c --> nadp_c + ocdcaACP_c
h_c + nadh_c + t3c11vaceACP_c --> nad_c + octeACP_c
h_c + nadph_c + t3c11vaceACP_c --> nadp_c + octeACP_c
but2eACP_c + h_c + nadh_c --> butACP_c + nad_c
but2eACP_c + h_c + nadph_c --> butACP_c + nadp_c
h_c + nadh_c + thex2eACP_c --> hexACP_c + nad_c
h_c + nadph_c + thex2eACP_c --> hexACP_c + nadp_c
h_c + nadh_c + toct2eACP_c --> nad_c + ocACP_c
h_c + nadph_c + toct2eACP_c --> nadp_c + ocACP_c
atp_c + eca4colipa_p + h2o_c --> adp_c + eca4colipa_e + h_c + pi_c
colipa_p + eca4und_p --> eca4colipa_p + h_p + udcpdp_p
2.0 unagamuf_p --> eca2und_p + h_p + udcpdp_p
eca2und_p + unagamuf_p --> eca3und_p + h_p + udcpdp_p
eca3und_p + unagamuf_p --> eca4und_p + h_p + udcpdp_p
unagamuf_c --> unagamuf_p
3hbcoa_c <=> b2coa_c + h2o_c
3hhcoa_c <=> h2o_c + hx2coa_c
3hocoa_c <=> h2o_c + oc2coa_c
3hdcoa_c <=> dc2coa_c + h2o_c
3hddcoa_c <=> dd2coa_c + h2o_c
3htdcoa_c <=> h2o_c + td2coa_c
3hhdcoa_c <=> h2o_c + hdd2coa_c
3hodcoa_c <=> h2o_c + od2coa_c
2ddg6p_c --> g3p_c + pyr_c
6pgc_c --> 2ddg6p_c + h2o_c
ddcaACP_c + kdo2lipid4_c --> ACP_c + kdo2lipid4L_c
kdo2lipid4L_c + myrsACP_c --> ACP_c + lipa_c
hdeACP_c + kdo2lipid4_c --> ACP_c + kdo2lipid4p_c
kdo2lipid4p_c + myrsACP_c --> ACP_c + lipa_cold_c
egmeACP_c + h_c + nadph_c --> gmeACP_c + nadp_c
atp_c + enlipa_p + h2o_c --> adp_c + enlipa_e + h_c + pi_c
2pg_c <=> h2o_c + pep_c
3.0 23dhba_c + 3.0 seramp_c --> 6.0 amp_c + enter_c + 9.0 h_c
enter_c + 3.0 h2o_c --> 3.0 23dhbzs_c + 3.0 h_c
feenter_c + 3.0 h2o_c --> 3.0 23dhbzs_c + fe3_c + 3.0 h_c
epmeACP_c + h_c + nadph_c --> nadp_c + pmeACP_c
etha_c --> acald_c + nh4_c
etha_p + h_p --> etha_c + h_c
etha_e <=> etha_p
atp_c + ethso3_p + h2o_c --> adp_c + ethso3_c + h_c + pi_c
ethso3_e <=> ethso3_p
etoh_e <=> etoh_p
etoh_p <=> etoh_c
f6p_c <=> dha_c + g3p_c
f6p_c + h2o_c --> fru_c + pi_c
f6p_p + 2.0 pi_c --> f6p_c + 2.0 pi_p
f6p_e <=> f6p_p
dcaACP_c + h2o_c --> ACP_c + dca_c + h_c
ddcaACP_c + h2o_c --> ACP_c + ddca_c + h_c
h2o_c + myrsACP_c --> ACP_c + h_c + ttdca_c
h2o_c + tdeACP_c --> ACP_c + h_c + ttdcea_c
h2o_c + palmACP_c --> ACP_c + h_c + hdca_c
h2o_c + hdeACP_c --> ACP_c + h_c + hdcea_c
h2o_c + ocACP_c --> ACP_c + h_c + octa_c
dcacoa_c + h2o_c --> coa_c + dca_c + h_c
ddcacoa_c + h2o_c --> coa_c + ddca_c + h_c
h2o_c + tdcoa_c --> coa_c + h_c + ttdca_c
h2o_c + tdecoa_c --> coa_c + h_c + ttdcea_c
h2o_c + pmtcoa_c --> coa_c + h_c + hdca_c
h2o_c + hdcoa_c --> coa_c + h_c + hdcea_c
h2o_c + stcoa_c --> coa_c + h_c + ocdca_c
h2o_c + odecoa_c --> coa_c + h_c + ocdcea_c
h2o_c + hxcoa_c --> coa_c + h_c + hxa_c
h2o_c + occoa_c --> coa_c + h_c + octa_c
atp_c + coa_c + dca_p + h_p --> amp_c + dcacoa_c + h_c + ppi_c
atp_c + coa_c + ddca_p + h_p --> amp_c + ddcacoa_c + h_c + ppi_c
atp_c + coa_c + h_p + ttdca_p --> amp_c + h_c + ppi_c + tdcoa_c
atp_c + coa_c + h_p + ttdcea_p --> amp_c + h_c + ppi_c + tdecoa_c
atp_c + coa_c + h_p + hdca_p --> amp_c + h_c + pmtcoa_c + ppi_c
atp_c + coa_c + h_p + hdcea_p --> amp_c + h_c + hdcoa_c + ppi_c
atp_c + coa_c + h_p + ocdca_p --> amp_c + h_c + ppi_c + stcoa_c
atp_c + coa_c + h_p + ocdcea_p --> amp_c + h_c + odecoa_c + ppi_c
atp_c + coa_c + h_p + hxa_p --> amp_c + h_c + hxcoa_c + ppi_c
atp_c + coa_c + h_p + octa_p --> amp_c + h_c + occoa_c + ppi_c
fad_c + h_c + nadh_c --> fadh2_c + nad_c
fad_c + h_c + nadph_c --> fadh2_c + nadp_c
hmgth_c + nad_c <=> Sfglutth_c + h_c + nadh_c
fald_e <=> fald_p
fald_p <=> fald_c
fald_c + gthrd_c <=> hmgth_c
fdp_c <=> dhap_c + g3p_c
s17bp_c <=> dhap_c + e4p_c
fdp_c + h2o_c --> f6p_c + pi_c
fuc__L_c <=> fcl__L_c
atp_c + fcl__L_c --> adp_c + fc1p_c + h_c
fc1p_c <=> dhap_c + lald__L_c
fe2_c + ppp9_c --> 2.0 h_c + pheme_c
for_p + 2.0 h_c + q8_c --> co2_p + h_p + q8h2_c
for_p + 2.0 h_c + mqn8_c --> co2_p + h_p + mql8_c
fmnh2_c + isetac_c + o2_c --> fmn_c + gcald_c + h2o_c + h_c + so3_c
fmnh2_c + mso3_c + o2_c --> fald_c + fmn_c + h2o_c + h_c + so3_c
ethso3_c + fmnh2_c + o2_c --> acald_c + fmn_c + h2o_c + h_c + so3_c
butso3_c + fmnh2_c + o2_c --> btal_c + fmn_c + h2o_c + h_c + so3_c
fmnh2_c + o2_c + sulfac_c --> fmn_c + glx_c + h2o_c + h_c + so3_c
atp_c + fe2_p + h2o_c --> adp_c + fe2_c + h_c + pi_c
fe2_p + h_p --> fe2_c + h_c
fe2_c + h_p --> fe2_p + h_c
fe2_e <=> fe2_p
fe2_p --> fe2_c
atp_c + fe3dcit_p + h2o_c --> adp_c + 2.0 cit_c + fe3_c + h_c + pi_c
fe3dcit_e + h_p --> fe3dcit_p + h_c
fe3dhbzs_c --> 23dhbzs_c + fe3_c
atp_c + fe3dhbzs_p + h2o_c --> adp_c + fe3dhbzs_c + h_c + pi_c
fe3dhbzs_e + h_p --> fe3dhbzs_p + h_c
fadh2_c + 2.0 fe3hox_c --> fad_c + 2.0 fe2_c + 2.0 fe3hox_un_c + 2.0 h_c
2.0 fe3hox_c + fmnh2_c --> 2.0 fe2_c + 2.0 fe3hox_un_c + fmn_c + 2.0 h_c
2.0 fe3hox_c + rbflvrd_c --> 2.0 fe2_c + 2.0 fe3hox_un_c + 2.0 h_c + ribflv_c
fe3hox_un_c + h_p --> fe3hox_un_p + h_c
fe3hox_un_p + h_p --> fe3hox_un_e + h_c
atp_c + fe3hox_p + h2o_c --> adp_c + fe3hox_c + h_c + pi_c
fe3_e + fe3hox_un_e --> fe3hox_e
fe3hox_e + h_p --> fe3hox_p + h_c
fadh2_c + 2.0 fe3_c --> fad_c + 2.0 fe2_c + 2.0 h_c
atp_c + fe3_p + h2o_c --> adp_c + fe3_c + h_c + pi_c
fe3_e <=> fe3_p
fadh2_c + 2.0 fecrm_c --> fad_c + 2.0 fe2_c + 2.0 fecrm_un_c + 2.0 h_c
2.0 fecrm_c + fmnh2_c --> 2.0 fe2_c + 2.0 fecrm_un_c + fmn_c + 2.0 h_c
2.0 fecrm_c + rbflvrd_c --> 2.0 fe2_c + 2.0 fecrm_un_c + 2.0 h_c + ribflv_c
fecrm_un_p + h_p --> fecrm_un_e + h_c
fecrm_un_c + h_p --> fecrm_un_p + h_c
atp_c + fecrm_p + h2o_c --> adp_c + fecrm_c + h_c + pi_c
fe3_e + fecrm_un_e --> fecrm_e
fecrm_e + h_p --> fecrm_p + h_c
fadh2_c + 2.0 feenter_c --> 2.0 enter_c + fad_c + 2.0 fe2_c + 2.0 h_c
2.0 feenter_c + fmnh2_c --> 2.0 enter_c + 2.0 fe2_c + fmn_c + 2.0 h_c
2.0 feenter_c + rbflvrd_c --> 2.0 enter_c + 2.0 fe2_c + 2.0 h_c + ribflv_c
atp_c + feenter_p + h2o_c --> adp_c + feenter_c + h_c + pi_c
enter_e + fe3_e --> feenter_e
enter_p + h_p --> enter_e + h_c
feenter_e + h_p --> feenter_p + h_c
enter_c + h_p --> enter_p + h_c
fadh2_c + 2.0 feoxam_c --> fad_c + 2.0 fe2_c + 2.0 feoxam_un_c + 2.0 h_c
2.0 feoxam_c + fmnh2_c --> 2.0 fe2_c + 2.0 feoxam_un_c + fmn_c + 2.0 h_c
2.0 feoxam_c + rbflvrd_c --> 2.0 fe2_c + 2.0 feoxam_un_c + 2.0 h_c + ribflv_c
feoxam_un_p + h_p --> feoxam_un_e + h_c
feoxam_un_c + h_p --> feoxam_un_p + h_c
atp_c + feoxam_p + h2o_c --> adp_c + feoxam_c + h_c + pi_c
fe3_e + feoxam_un_e --> feoxam_e
feoxam_e + h_p --> feoxam_p + h_c
4.0 fe2_p + 4.0 h_p + o2_p --> 4.0 fe3_p + 2.0 h2o_p
2.0 4fe4s_c + h2o2_c + 2.0 h_c --> 2.0 3fe4s_c + 2.0 fe3_c + 2.0 h2o_c
2.0 4fe4s_c + 2.0 h_c + 2.0 no_c --> 2.0 3fe4s_c + 2.0 fe3_c + h2o_c + n2o_c
3fe4s_c + fe2_c --> 4fe4s_c
h2o_c + suc6p_c --> fru_c + g6p_c
for_c + h_c --> co2_c + h2_c
2.0 flxso_c + nadph_c --> 2.0 flxr_c + h_c + nadp_c
h_c + nadph_c + ribflv_c --> nadp_c + rbflvrd_c
h_c + nadh_c + ribflv_c --> nad_c + rbflvrd_c
10fthf_c + mettrna_c --> fmettrna_c + h_c + thf_c
atp_c + fmn_c + h_c --> fad_c + ppi_c
fmn_c + h_c + nadh_c --> fmnh2_c + nad_c
fmn_c + h_c + nadph_c --> fmnh2_c + nadp_c
5fthf_c + h_c --> h2o_c + methf_c
forcoa_c + oxa_c <=> for_c + oxalcoa_c
for_p + h_p --> for_c + h_c
for_e <=> for_p
for_c --> for_p
fum_c + mql8_c --> mqn8_c + succ_c
2dmmql8_c + fum_c --> 2dmmq8_c + succ_c
atp_c + f1p_c --> adp_c + fdp_c + h_c
frulysp_c + h2o_c <=> g6p_c + lys__L_c
psclys_c <=> frulys_c
atp_c + frulys_c --> adp_c + frulysp_c + h_c
frulys_p + h_p --> frulys_c + h_c
frulys_e <=> frulys_p
fruur_p + h_p <=> fruur_c + h_c
fruur_e <=> fruur_p
fru_p + pep_c --> f6p_c + pyr_c
fru_p + pep_c --> f1p_c + pyr_c
fru_e <=> fru_p
10fthf_c + h2o_c --> for_c + h_c + thf_c
atp_c + for_c + thf_c --> 10fthf_c + adp_c + pi_c
fuc__L_e <=> fuc__L_p
fuc__L_p + h_p <=> fuc__L_c + h_c
fum_c + h2o_c <=> mal__L_c
fum_p + 2.0 h_p --> fum_c + 2.0 h_c
fum_p + 3.0 h_p --> fum_c + 3.0 h_c
fum_e <=> fum_p
fusa_e <=> fusa_p
fusa_p + h_p --> fusa_e + h_c
accoa_c + gam1p_c --> acgam1p_c + coa_c + h_c
g1p_p + h2o_p --> glc__D_p + pi_p
dttp_c + g1p_c + h_c --> dtdpglu_c + ppi_c
g1p_e <=> g1p_p
glu1sa_c <=> 5aop_c
glyc2p_c + h2o_c --> glyc_c + pi_c
glyc2p_p + h2o_p --> glyc_p + pi_p
ddcaACP_c + glyc3p_c --> 1ddecg3p_c + ACP_c
glyc3p_c + myrsACP_c --> 1tdecg3p_c + ACP_c
glyc3p_c + tdeACP_c --> 1tdec7eg3p_c + ACP_c
glyc3p_c + palmACP_c --> 1hdecg3p_c + ACP_c
glyc3p_c + hdeACP_c --> 1hdec9eg3p_c + ACP_c
glyc3p_c + ocdcaACP_c --> 1odecg3p_c + ACP_c
glyc3p_c + octeACP_c --> 1odec11eg3p_c + ACP_c
atp_c + g3pc_p + h2o_c --> adp_c + g3pc_c + h_c + pi_c
g3pc_e <=> g3pc_p
glyc3p_c + nadp_c <=> dhap_c + h_c + nadph_c
glyc3p_c + q8_c --> dhap_c + q8h2_c
glyc3p_c + mqn8_c --> dhap_c + mql8_c
2dmmq8_c + glyc3p_c --> 2dmmql8_c + dhap_c
atp_c + g3pe_p + h2o_c --> adp_c + g3pe_c + h_c + pi_c
g3pe_e <=> g3pe_p
atp_c + g3pg_p + h2o_c --> adp_c + g3pg_c + h_c + pi_c
g3pg_e <=> g3pg_p
atp_c + g3pi_p + h2o_c --> adp_c + g3pi_c + h_c + pi_c
g3pi_e <=> g3pi_p
atp_c + g3ps_p + h2o_c --> adp_c + g3ps_c + h_c + pi_c
g3ps_e <=> g3ps_p
glyc3p_c + h2o_c --> glyc_c + pi_c
glu5sa_c --> 1pyr5c_c + h2o_c + h_c
glu5p_c + h_c + nadph_c --> glu5sa_c + nadp_c + pi_c
gam6p_c + h2o_c --> f6p_c + nh4_c
g6p_c + nadp_c <=> 6pgl_c + h_c + nadph_c
g6p_c + h2o_c --> glc__D_c + pi_c
g6p_p + 2.0 pi_c --> g6p_c + 2.0 pi_p
g6p_e <=> g6p_p
gal1p_p + h2o_p --> gal_p + pi_p
gal1p_e <=> gal1p_p
gal_bD_e <=> gal_bD_p
galct__D_c --> 5dh4dglc_c + h2o_c
galctn__L_c + nad_c --> h_c + nadh_c + tagur_c
galctn__D_c --> 2dh3dgal_c + h2o_c
galctn__L_p + h_p --> galctn__L_c + h_c
galctn__L_e <=> galctn__L_p
galctn__D_p + h_p --> galctn__D_c + h_c
galctn__D_e <=> galctn__D_p
galct__D_p + h_p <=> galct__D_c + h_c
galct__D_e <=> galct__D_p
atp_c + gal_c <=> adp_c + gal1p_c + h_c
gal_bD_p --> gal_p
h2o_c + melib_c --> gal_c + glc__D_c
gicolipa_c + udpg_c --> gagicolipa_c + h_c + udp_c
galt_p + pep_c --> galt1p_c + pyr_c
galt_e <=> galt_p
galur_p + h_p <=> galur_c + h_c
galur_e <=> galur_p
g1p_c + h_c + utp_c --> ppi_c + udpg_c
atp_c + gal_p + h2o_c --> adp_c + gal_c + h_c + pi_c
gal_p + h_p --> gal_c + h_c
gal_e <=> gal_p
gam6p_p + 2.0 pi_c --> gam6p_c + 2.0 pi_p
gam6p_e <=> gam6p_p
gam_p + pep_c --> gam6p_c + pyr_c
gam_e <=> gam_p
g3p_c + nad_c + pi_c <=> 13dpg_c + h_c + nadh_c
10fthf_c + gar_c <=> fgam_c + h_c + thf_c
atp_c + for_c + gar_c --> adp_c + fgam_c + h_c + pi_c
gbbtn_e <=> gbbtn_p
gcald_c + h2o_c + nad_c --> glyclt_c + 2.0 h_c + nadh_c
gdpddman_c --> gdpofuc_c
atp_c + gdp_c --> amp_c + h_c + ppgpp_c
gdpmann_c + h2o_c --> gdp_c + h_c + man_c
gdpmann_c + h2o_c --> gmp_c + 2.0 h_c + man1p_c
gdptp_c + h2o_c --> gtp_c + ppi_c
gdp_e <=> gdp_p
f6p_c + gln__L_c --> gam6p_c + glu__L_c
ggbutal_c + h2o_c + nadp_c <=> gg4abut_c + 2.0 h_c + nadph_c
gg4abut_c + h2o_c --> 4abut_c + glu__L_c
ggptrc_c + h2o_c + o2_c --> ggbutal_c + h2o2_c + nh4_c
atp_c + glu__L_c + ptrc_c --> adp_c + ggptrc_c + h_c + pi_c
h_c + nadh_c + sucsal_c <=> ghb_c + nad_c
ser__L_c + thf_c <=> gly_c + h2o_c + mlthf_c
atp_c + gmp_c <=> adp_c + gdp_c
glycogen_c --> bglycogen_c
accoa_c + glc__D_c <=> acglc__D_c + coa_c
glc__D_p + h2o_p + q8_c --> glcn_p + h_p + q8h2_c
glcn_p + h_p <=> glcn_c + h_c
glcn_e <=> glcn_p
glycogen_c + pi_c --> g1p_c
bglycogen_c + pi_c --> g1p_c
5dh4dglc_c --> 2h3oppan_c + pyr_c
glcr_c --> 5dh4dglc_c + h2o_c
glcr_p + h_p <=> glcr_c + h_c
glcr_e <=> glcr_p
adpglc_c --> adp_c + glycogen_c + h_c
icolipa_c + udpg_c --> gicolipa_c + h_c + udp_c
gagicolipa_c + udpg_c --> ggagicolipa_c + h_c + udp_c
ggagicolipa_c + udpg_c --> gggagicolipa_c + h_c + udp_c
glcur1p_e <=> glcur1p_p
glcur_p + h_p <=> glcur_c + h_c
glcur_e <=> glcur_p
atp_c + glc__D_p + h2o_c --> adp_c + glc__D_c + h_c + pi_c
glc__D_p + pep_c --> g6p_c + pyr_c
glc__D_p + h_p --> glc__D_c + h_c
glc__D_e <=> glc__D_p
glc__D_e --> glc__D_p
bglycogen_c --> glycogen_c
atp_c + g1p_c + h_c --> adpglc_c + ppi_c
atp_c + glu__L_c + nh4_c --> adp_c + gln__L_c + h_c + pi_c
atp_c + gln__L_c + trnagln_c --> amp_c + glntrna_c + ppi_c
atp_c + gln__L_p + h2o_c --> adp_c + gln__L_c + h_c + pi_c
gln__L_e <=> gln__L_p
galt1p_c + nad_c <=> h_c + nadh_c + tag6p__D_c
atp_c + glu__L_c --> adp_c + glu5p_c
4abut_c + glu__L_p <=> 4abut_p + glu__L_c
atp_c + cys__L_c + glu__L_c --> adp_c + glucys_c + h_c + pi_c
glu__L_c + h_c --> 4abut_c + co2_c
glu__L_c + h2o_c + nadp_c <=> akg_c + h_c + nadph_c + nh4_c
gln__L_c + h2o_c --> glu__L_c + nh4_c
gln__L_p + h2o_p --> glu__L_p + nh4_p
gln__L_c + h2o_c + prpp_c --> glu__L_c + ppi_c + pram_c
glu__D_c <=> glu__L_c
akg_c + gln__L_c + h_c + nadph_c --> 2.0 glu__L_c + nadp_c
glutrna_c + h_c + nadph_c --> glu1sa_c + nadp_c + trnaglu_c
atp_c + glu__L_c + trnaglu_c --> amp_c + glutrna_c + ppi_c
atp_c + glu__L_p + h2o_c --> adp_c + glu__L_c + h_c + pi_c
glu__L_p + h_p <=> glu__L_c + h_c
glu__L_p + na1_p --> glu__L_c + na1_c
glu__L_e <=> glu__L_p
2.0 glx_c + h_c --> 2h3oppan_c + co2_c
glyald_e <=> glyald_p
glyald_p <=> glyald_c
accoa_c + gly_c <=> 2aobut_c + coa_c
atp_c + glyb_p + h2o_c --> adp_c + glyb_c + h_c + pi_c
glyb_p + h_p --> glyb_c + h_c
glyb_e <=> glyb_p
atp_c + glyc2p_p + h2o_c --> adp_c + glyc2p_c + h_c + pi_c
glyc2p_e <=> glyc2p_p
atp_c + glyc3p_p + h2o_c --> adp_c + glyc3p_c + h_c + pi_c
glyc3p_p + pi_c --> glyc3p_c + pi_p
glyc3p_e <=> glyc3p_p
glyc__R_p + h_p <=> glyc__R_c + h_c
glyc__R_e <=> glyc__R_p
glyc_c + nad_c --> dha_c + h_c + nadh_c
atp_c + glyc__R_c --> 3pg_c + adp_c + h_c
atp_c + glyc__R_c --> 2pg_c + adp_c + h_c
gly_c + nad_c + thf_c --> co2_c + mlthf_c + nadh_c + nh4_c
glx_c + h_c + nadh_c --> glyclt_c + nad_c
glx_c + h_c + nadph_c --> glyclt_c + nadp_c
glyclt_p + h_p <=> glyclt_c + h_c
glyclt_p + na1_p --> glyclt_c + na1_c
glyclt_e <=> glyclt_p
glyclt_c + q8_c --> glx_c + q8h2_c
glyclt_c + mqn8_c --> glx_c + mql8_c
2dmmq8_c + glyclt_c --> 2dmmql8_c + glx_c
glyc_e <=> glyc_p
glyc_c <=> glyc_p
atp_c + glyc_c --> adp_c + glyc3p_c + h_c
h2o_c + lgt__S_c --> gthrd_c + h_c + lac__D_c
h2o_c + mthgxl_c --> h_c + lac__D_c
atp_c + gly_c + trnagly_c --> amp_c + glytrna_c + ppi_c
gly_p + h_p --> gly_c + h_c
gly_p + h_p <=> gly_c + h_c
gly_p + na1_p --> gly_c + na1_c
gly_e <=> gly_p
gdpmann_c --> gdpddman_c + h2o_c
atp_c + gmhep1p_c + h_c --> adphep_DD_c + ppi_c
atp_c + gmhep7p_c --> adp_c + gmhep17bp_c + h_c
gmhep17bp_c + h2o_c --> gmhep1p_c + pi_c
gmp_c + 2.0 h_c + nadph_c --> imp_c + nadp_c + nh4_c
atp_c + gln__L_c + h2o_c + xmp_c --> amp_c + glu__L_c + gmp_c + 2.0 h_c + ppi_c
gmp_e <=> gmp_p
6pgc_c + nadp_c --> co2_c + nadph_c + ru5p__D_c
atp_c + glcn_c --> 6pgc_c + adp_c + h_c
gdpofuc_c + h_c + nadph_c --> gdpfuc_c + nadp_c
gp4g_c + h2o_c --> 2.0 gdp_c + 2.0 h_c
g3pc_c + h2o_c --> chol_c + glyc3p_c + h_c
g3pc_p + h2o_p --> chol_p + glyc3p_p + h_p
g3pe_c + h2o_c --> etha_c + glyc3p_c + h_c
g3pe_p + h2o_p --> etha_p + glyc3p_p + h_p
g3ps_c + h2o_c --> glyc3p_c + h_c + ser__L_c
g3ps_p + h2o_p --> glyc3p_p + h_p + ser__L_p
g3pg_c + h2o_c --> glyc3p_c + glyc_c + h_c
g3pg_p + h2o_p --> glyc3p_p + glyc_p + h_p
g3pi_c + h2o_c --> glyc3p_c + h_c + inost_c
g3pi_p + h2o_p --> glyc3p_p + h_p + inost_p
grdp_c + ipdp_c --> frdp_c + ppi_c
grxox_c + 2.0 gthrd_c --> grxrd_c + gthox_c
atp_c + gsn_c --> adp_c + gmp_c + h_c
gsn_p + h_p --> gsn_c + h_c
gsn_e <=> gsn_p
gtspmd_c + h2o_c --> gthrd_c + spmd_c
atp_c + gthrd_c + spmd_c --> adp_c + gtspmd_c + h_c + pi_c
gthox_e <=> gthox_p
gthox_c + h_c + nadph_c <=> 2.0 gthrd_c + nadp_c
2.0 gthrd_c + h2o2_c --> gthox_c + 2.0 h2o_c
gthrd_p + h2o_p --> cgly_p + glu__L_p
atp_c + gthrd_c + h2o_c --> adp_c + gthrd_p + h_c + pi_c
atp_c + gthrd_p + h2o_c --> adp_c + gthrd_c + h_c + pi_c
gthrd_e <=> gthrd_p
atp_c + glucys_c + gly_c --> adp_c + gthrd_c + h_c + pi_c
gtp_c + h2o_c --> ahdt_c + for_c + h_c
gtp_c + 3.0 h2o_c --> 25drapp_c + for_c + 2.0 h_c + ppi_c
gdptp_c + h2o_c --> h_c + pi_c + ppgpp_c
atp_c + gtp_c --> amp_c + gdptp_c + h_c
gtp_c + h2o_c + h_c --> nh4_c + xtp_c
gtp_e <=> gtp_p
gtp_c --> 35cgmp_c + ppi_c
gua_c + h2o_c + h_c --> nh4_c + xan_c
gua_c + prpp_c --> gmp_c + ppi_c
gua_p + h_p --> gua_c + h_c
gua_e <=> gua_p
gua_p <=> gua_c
glcur_c <=> fruur_c
galur_c <=> tagur_c
glcur1p_p + h2o_p --> glcur_p + pi_p
h2o2_e <=> h2o2_p
h2o_e <=> h2o_p
h2o_p <=> h2o_c
h2s_c + 2.0 o2_c --> 2.0 h_c + so4_c
h2s_c --> h2s_p
h2s_e <=> h2s_p
h2_e <=> h2_p
h2_p <=> h2_c
aacoa_c + h_c + nadh_c <=> 3hbcoa_c + nad_c
3ohcoa_c + h_c + nadh_c <=> 3hhcoa_c + nad_c
3oocoa_c + h_c + nadh_c <=> 3hocoa_c + nad_c
3odcoa_c + h_c + nadh_c <=> 3hdcoa_c + nad_c
3oddcoa_c + h_c + nadh_c <=> 3hddcoa_c + nad_c
3otdcoa_c + h_c + nadh_c <=> 3htdcoa_c + nad_c
3ohdcoa_c + h_c + nadh_c <=> 3hhdcoa_c + nad_c
3ohodcoa_c + h_c + nadh_c <=> 3hodcoa_c + nad_c
3hadpcoa_c + nad_c <=> h_c + nadh_c + oxadpcoa_c
4hbz_c + octdp_c --> 3ophb_c + ppi_c
3hcinnm_p + h_p <=> 3hcinnm_c + h_c
3hcinnm_e <=> 3hcinnm_p
co2_c + h2o_c <=> h_c + hco3_c
amet_c + hcys__L_c --> ahcys_c + h_c + met__L_c
hcys__L_c + mmet_c --> h_c + 2.0 met__L_c
hdca_e --> hdca_p
hdcea_e --> hdcea_p
frdp_c + h2o_c + pheme_c --> hemeO_c + ppi_c
atp_c + hhlipa_c --> adp_c + h_c + phhlipa_c
atp_c + hphhlipa_c --> adp_c + h_c + phphhlipa_c
adphep_LD_c + lipa_c --> adp_c + h_c + hlipa_c
adphep_LD_c + hlipa_c --> adp_c + h_c + hhlipa_c
adphep_LD_c + phhlipa_c --> adp_c + h_c + hphhlipa_c
adphep_LD_c + gggagicolipa_c --> adp_c + colipa_c + h_c
4mhetz_c + atp_c --> 4mpetz_c + adp_c + h_c
atp_c + glc__D_c --> adp_c + g6p_c + h_c
atp_c + man_c --> adp_c + h_c + man6p_c
atp_c + fru_c --> adp_c + f6p_c + h_c
h_p + hxa_p <=> h_c + hxa_c
atp_c + h2o_c + hg2_c --> adp_c + h_c + hg2_p + pi_c
h_p + hg2_c --> h_c + hg2_p
hg2_e <=> hg2_p
h2o_c + histd_c + 2.0 nad_c --> 3.0 h_c + his__L_c + 2.0 nadh_c
h2o_c + hisp_c --> histd_c + pi_c
atp_c + his__L_c + trnahis_c --> amp_c + histrna_c + ppi_c
atp_c + h2o_c + his__L_p --> adp_c + h_c + his__L_c + pi_c
h_p + his__L_p <=> h_c + his__L_c
his__L_e <=> his__L_p
h2o_c + hkndd_c --> h_c + op4en_c + succ_c
h2o_c + hkntd_c --> fum_c + h_c + op4en_c
h2o_c + 4.0 ppbng_c --> hmbil_c + 4.0 nh4_c
4ahmmp_c + atp_c --> 4ampm_c + adp_c + h_c
h_p + hom__L_c --> h_c + hom__L_p
hom__L_e <=> hom__L_p
4h2opntn_c --> acald_c + pyr_c
6hmhpt_c + atp_c --> 6hmhptpp_c + amp_c + h_c
dhpppn_c + o2_c --> h_c + hkndd_c
3hpppn_p + h_p <=> 3hpppn_c + h_c
3hpppn_e <=> 3hpppn_p
hpyr_c <=> 2h3oppan_c
h_c + hpyr_c + nadh_c --> glyc__R_c + nad_c
h_c + hpyr_c + nadph_c --> glyc__R_c + nadp_c
hom__L_c + nadp_c <=> aspsa_c + h_c + nadph_c
atp_c + hom__L_c --> adp_c + h_c + phom_c
hom__L_c + succoa_c --> coa_c + suchms_c
glu__L_c + imacp_c --> akg_c + hisp_c
h2o_c + hxan_c + nad_c --> h_c + nadh_c + xan_c
hxa_e <=> hxa_p
accoa_c + hxa_c --> ac_c + hxcoa_c
hxan_c + prpp_c --> imp_c + ppi_c
h2_c + 2.0 h_c + q8_c --> 2.0 h_p + q8h2_c
h2_c + 2.0 h_c + mqn8_c --> 2.0 h_p + mql8_c
2dmmq8_c + h2_c + 2.0 h_c --> 2dmmql8_c + 2.0 h_p
h2o_c + pyam5p_c --> pi_c + pydam_c
hxan_e <=> hxan_p
hxan_p <=> hxan_c
h_e <=> h_p
2fe1s_c + iscssh_c + iscu_c --> 4.0 h_c + iscs_c + iscu_2fe2s_c
fadh2_c + 2.0 fe2_c + 2.0 iscssh_c + iscu_c --> fad_c + 6.0 h_c + 2.0 iscs_c + iscu_2fe2s_c
fadh2_c + 2.0 fe2_c + 2.0 iscssh_c + iscu_2fe2s_c --> fad_c + 6.0 h_c + 2.0 iscs_c + iscu_2fe2s2_c
4.0 h_c + iscu_2fe2s_c --> 2fe2s_c + iscu_c
fadh2_c + 2.0 h_c + iscu_2fe2s2_c --> fad_c + iscu_4fe4s_c
4.0 h_c + iscu_4fe4s_c --> 4fe4s_c + iscu_c
icit_c + nadp_c <=> akg_c + co2_c + nadph_c
chor_c <=> ichor_c
chor_c --> ichor_c
h2o_c + ichor_c --> 23ddhb_c + pyr_c
icit_c --> glx_c + succ_c
cys__L_c + iscs_c --> ala__L_c + iscssh_c
5dglcn_c + h_c + nadh_c <=> idon__L_c + nad_c
5dglcn_c + h_c + nadph_c --> idon__L_c + nadp_c
h_p + idon__L_p <=> h_c + idon__L_c
idon__L_e <=> idon__L_p
gln__L_c + prlp_c --> aicar_c + eig3p_c + glu__L_c + h_c
eig3p_c --> h2o_c + imacp_c
2cpr5p_c + h_c --> 3ig3p_c + co2_c + h2o_c
akg_c + ile__L_c <=> 3mop_c + glu__L_c
atp_c + ile__L_c + trnaile_c --> amp_c + iletrna_c + ppi_c
atp_c + h2o_c + ile__L_p --> adp_c + h_c + ile__L_c + pi_c
h_p + ile__L_p <=> h_c + ile__L_c
ile__L_e <=> ile__L_p
h2o_c + imp_c <=> fprica_c
h2o_c + imp_c + nad_c --> h_c + nadh_c + xmp_c
imp_e <=> imp_p
h_c + indole_c --> h_p + indole_p
h_p + indole_p <=> h_c + indole_c
indole_e <=> indole_p
inost_p + na1_p --> inost_c + na1_c
h2o_c + ins_c --> hxan_c + rib__D_c
atp_c + ins_c --> adp_c + h_c + imp_c
inost_e <=> inost_p
h_p + ins_p --> h_c + ins_c
h_p + ins_p <=> h_c + ins_c
ins_e <=> ins_p
ipdp_c <=> dmpp_c
h2mb4p_c + h_c + nadh_c --> h2o_c + ipdp_c + nad_c
3c2hmp_c + nad_c --> 3c4mop_c + h_c + nadh_c
3c2hmp_c <=> 2ippm_c + h2o_c
2ippm_c + h2o_c <=> 3c3hmp_c
3mob_c + accoa_c + h2o_c --> 3c3hmp_c + coa_c + h_c
atp_c + h2o_c + isetac_p --> adp_c + h_c + isetac_c + pi_c
isetac_e <=> isetac_p
atp_c + h2o_c + kdo2lipid4_c --> adp_c + h_c + kdo2lipid4_p + pi_c
atp_c + h2o_c + kdo2lipid4_p --> adp_c + h_c + kdo2lipid4_e + pi_c
23dhmb_c + nadp_c <=> alac__S_c + h_c + nadph_c
2ahbut_c + h_c + nadph_c <=> 23dhmp_c + nadp_c
acACP_c + h_c + malACP_c --> ACP_c + actACP_c + co2_c
accoa_c + h_c + malACP_c --> actACP_c + co2_c + coa_c
ctp_c + kdo_c --> ckdo_c + ppi_c
h2o_c + kdo8p_c --> kdo_c + pi_c
ara5p_c + h2o_c + pep_c --> kdo8p_c + pi_c
3dhgulnp_c + h_c --> co2_c + xu5p__L_c
atp_c + h2o_c + k_p --> adp_c + h_c + k_c + pi_c
h_p + k_p --> h_c + k_c
h_p + k_c --> h_c + k_p
k_e <=> k_p
lac__L_c + q8_c --> pyr_c + q8h2_c
lac__L_c + mqn8_c --> mql8_c + pyr_c
h_p + lac__L_p <=> h_c + lac__L_c
lac__L_e <=> lac__L_p
colipa_p + uLa4n_p --> acolipa_p + udcpp_p
h2o_c + lcts_c --> gal_c + glc__D_c
h2o_p + lcts_p --> gal_p + glc__D_p
LalaDgluMdap_c + h2o_c --> 26dap__M_c + LalaDglu_c
LalaDglu_e <=> LalaDglu_p
LalaDglu_p + h_p --> LalaDglu_c + h_c
LalaLglu_e <=> LalaLglu_p
LalaLglu_p + h_p --> LalaLglu_c + h_c
h_c + mthgxl_c + nadh_c --> lald__D_c + nad_c
h_c + mthgxl_c + nadph_c --> lald__L_c + nadp_c
LalaLglu_c + h2o_c --> ala__L_c + glu__L_c
h2o_c + lald__L_c + nad_c --> 2.0 h_c + lac__L_c + nadh_c
h_c + lald__D_c + nadh_c <=> 12ppd__R_c + nad_c
h_c + lald__L_c + nadh_c <=> 12ppd__S_c + nad_c
h_p + lcts_c --> h_c + lcts_p
lcts_e <=> lcts_p
h_p + lcts_p <=> h_c + lcts_c
lac__D_c + nad_c <=> h_c + nadh_c + pyr_c
lac__D_c + q8_c --> pyr_c + q8h2_c
4mop_c + glu__L_c --> akg_c + leu__L_c
atp_c + leu__L_c + trnaleu_c --> amp_c + leutrna_c + ppi_c
atp_c + h2o_c + leu__L_p --> adp_c + h_c + leu__L_c + pi_c
h_p + leu__L_p <=> h_c + leu__L_c
leu__L_e <=> leu__L_p
gthrd_c + mthgxl_c --> lgt__S_c
atp_c + h2o_c + lipa_cold_c --> adp_c + h_c + lipa_cold_p + pi_c
colipa_e + h_e + hdca_e --> h2o_e + hacolipa_e
h_e + hdca_e + lipa_e --> h2o_e + halipa_e
lipoamp_c --> amp_c + lipopb_c
atp_c + lipoate_c --> lipoamp_c + ppi_c
atp_c + h2o_c + lipa_c --> adp_c + h_c + lipa_p + pi_c
atp_c + h2o_c + lipa_p --> adp_c + h_c + lipa_e + pi_c
h_c + ocACP_c --> ACP_c + octapb_c
4fe4s_c + 2.0 amet_c + h_c + nad_c + octapb_c --> 2fe2s_c + 2.0 dad_5_c + 2.0 fe2_c + lipopb_c + 2.0 met__L_c + nadh_c
h_p + lipoate_p --> h_c + lipoate_c
lipoate_e <=> lipoate_p
lipidX_c + u23ga_c --> h_c + lipidAds_c + udp_c
1ddecg3p_p + h2o_p --> ddca_p + glyc3p_p + h_p
1tdecg3p_p + h2o_p --> glyc3p_p + h_p + ttdca_p
1tdec7eg3p_p + h2o_p --> glyc3p_p + h_p + ttdcea_p
1hdecg3p_p + h2o_p --> glyc3p_p + h_p + hdca_p
1hdec9eg3p_p + h2o_p --> glyc3p_p + h_p + hdcea_p
1odecg3p_p + h2o_p --> glyc3p_p + h_p + ocdca_p
1odec11eg3p_p + h2o_p --> glyc3p_p + h_p + ocdcea_p
1agpe120_p + h2o_p --> ddca_p + g3pe_p + h_p
1agpe140_p + h2o_p --> g3pe_p + h_p + ttdca_p
1agpe141_p + h2o_p --> g3pe_p + h_p + ttdcea_p
1agpe160_p + h2o_p --> g3pe_p + h_p + hdca_p
1agpe161_p + h2o_p --> g3pe_p + h_p + hdcea_p
1agpe180_p + h2o_p --> g3pe_p + h_p + ocdca_p
1agpe181_p + h2o_p --> g3pe_p + h_p + ocdcea_p
1agpg120_p + h2o_p --> ddca_p + g3pg_p + h_p
1agpg140_p + h2o_p --> g3pg_p + h_p + ttdca_p
1agpg141_p + h2o_p --> g3pg_p + h_p + ttdcea_p
1agpg160_p + h2o_p --> g3pg_p + h_p + hdca_p
1agpg161_p + h2o_p --> g3pg_p + h_p + hdcea_p
1agpg180_p + h2o_p --> g3pg_p + h_p + ocdca_p
1agpg181_p + h2o_p --> g3pg_p + h_p + ocdcea_p
2ddecg3p_c + h2o_c --> ddca_c + glyc3p_c + 2.0 h_c
2tdecg3p_c + h2o_c --> glyc3p_c + 2.0 h_c + ttdca_c
2tdec7eg3p_c + h2o_c --> glyc3p_c + 2.0 h_c + ttdcea_c
2hdecg3p_c + h2o_c --> glyc3p_c + 2.0 h_c + hdca_c
2hdec9eg3p_c + h2o_c --> glyc3p_c + 2.0 h_c + hdcea_c
2odecg3p_c + h2o_c --> glyc3p_c + 2.0 h_c + ocdca_c
2odec11eg3p_c + h2o_c --> glyc3p_c + 2.0 h_c + ocdcea_c
2agpe120_c + pg120_c --> apg120_c + g3pe_c
2agpe140_c + pg140_c --> apg140_c + g3pe_c
2agpe141_c + pg141_c --> apg141_c + g3pe_c
2agpe160_c + pg160_c --> apg160_c + g3pe_c
2agpe161_c + pg161_c --> apg161_c + g3pe_c
2agpe180_c + pg180_c --> apg180_c + g3pe_c
2agpe181_c + pg181_c --> apg181_c + g3pe_c
2agpg120_c + pg120_c --> apg120_c + g3pg_c
2agpg140_c + pg140_c --> apg140_c + g3pg_c
2agpg141_c + pg141_c --> apg141_c + g3pg_c
2agpg160_c + pg160_c --> apg160_c + g3pg_c
2agpg161_c + pg161_c --> apg161_c + g3pg_c
2agpg180_c + pg180_c --> apg180_c + g3pg_c
2agpg181_c + pg181_c --> apg181_c + g3pg_c
2agpe120_c + h2o_c --> ddca_c + g3pe_c + h_c
2agpe140_c + h2o_c --> g3pe_c + h_c + ttdca_c
2agpe141_c + h2o_c --> g3pe_c + h_c + ttdcea_c
2agpe160_c + h2o_c --> g3pe_c + h_c + hdca_c
2agpe161_c + h2o_c --> g3pe_c + h_c + hdcea_c
2agpe180_c + h2o_c --> g3pe_c + h_c + ocdca_c
2agpe181_c + h2o_c --> g3pe_c + h_c + ocdcea_c
2agpg120_c + h2o_c --> ddca_c + g3pg_c + h_c
2agpg140_c + h2o_c --> g3pg_c + h_c + ttdca_c
2agpg141_c + h2o_c --> g3pg_c + h_c + ttdcea_c
2agpg160_c + h2o_c --> g3pg_c + h_c + hdca_c
2agpg161_c + h2o_c --> g3pg_c + h_c + hdcea_c
2agpg180_c + h2o_c --> g3pg_c + h_c + ocdca_c
2agpg181_c + h2o_c --> g3pg_c + h_c + ocdcea_c
nadp_c + ser__L_c <=> 2amsa_c + h_c + nadph_c
h_c + lys__L_c --> 15dap_c + co2_c
atp_c + lys__L_c + trnalys_c --> amp_c + lystrna_c + ppi_c
atp_c + h2o_c + lys__L_p --> adp_c + h_c + lys__L_c + pi_c
h_p + lys__L_p --> h_c + lys__L_c
h_p + lys__L_c --> h_c + lys__L_p
lys__L_e <=> lys__L_p
lyx__L_c --> xylu__L_c
h_p + lyx__L_p --> h_c + lyx__L_c
lyx__L_e <=> lyx__L_p
mnl1p_c + nad_c <=> f6p_c + h_c + nadh_c
h_c + malACP_c --> acACP_c + co2_c
amet_c + malcoa_c --> ahcys_c + malcoame_c
mal__D_c + nad_c --> co2_c + nadh_c + pyr_c
2.0 h_p + mal__D_p --> 2.0 h_c + mal__D_c
mal__D_e <=> mal__D_p
accoa_c + glx_c + h2o_c --> coa_c + h_c + mal__L_c
accoa_c + malt_c <=> acmalt_c + coa_c
atp_c + h2o_c + malthx_p --> adp_c + h_c + malthx_c + pi_c
malthx_e --> malthx_p
atp_c + h2o_c + maltpt_p --> adp_c + h_c + maltpt_c + pi_c
maltpt_e --> maltpt_p
atp_c + h2o_c + malttr_p --> adp_c + h_c + malttr_c + pi_c
malttr_e --> malttr_p
atp_c + h2o_c + maltttr_p --> adp_c + h_c + maltttr_c + pi_c
maltttr_e --> maltttr_p
atp_c + h2o_c + malt_p --> adp_c + h_c + malt_c + pi_c
malt_p + pep_c --> malt6p_c + pyr_c
malt_e --> malt_p
2.0 h_p + mal__L_p --> 2.0 h_c + mal__L_c
3.0 h_p + mal__L_p --> 3.0 h_c + mal__L_c
h_p + mal__L_c --> h_c + mal__L_p
mal__L_e <=> mal__L_p
gdp_c + h_c + man1p_c --> gdpmann_c + pi_c
man6p_c <=> f6p_c
man6p_p + 2.0 pi_c --> man6p_c + 2.0 pi_p
man6p_e <=> man6p_p
mana_c + nad_c <=> fruur_c + h_c + nadh_c
manglyc_p + pep_c --> man6pglyc_c + pyr_c
manglyc_e <=> manglyc_p
h2o_c + man6pglyc_c --> glyc__R_c + man6p_c
man_p + pep_c --> man6p_c + pyr_c
man_e <=> man_p
2mcit_c --> 2mcacn_c + h2o_c
micit_c <=> pyr_c + succ_c
h2o_c + oaa_c + ppcoa_c --> 2mcit_c + coa_c + h_c
ACP_c + malcoa_c <=> coa_c + malACP_c
cyan_c + mercppyr_c --> h_c + pyr_c + tcynt_c
murein5p5p_p --> ala__D_p + murein5px4p_p
murein5p5p_p --> alaala_p + murein5px3p_p
murein5p5p5p_p --> 2.0 ala__D_p + murein5px4px4p_p
h2o_p + murein5px4p_p --> ala__D_p + murein4px4p_p
h2o_p + murein5px4px4p_p --> ala__D_p + murein4px4px4p_p
h2o_p + murein5p5p_p --> ala__D_p + murein5p4p_p
h2o_p + murein5p4p_p --> ala__D_p + murein4p4p_p
h2o_p + murein5p3p_p --> ala__D_p + murein4p3p_p
h2o_p + murein4px4p_p --> murein4p4p_p
h2o_p + murein3px4p_p --> murein4p3p_p
h2o_p + murein5px4p_p --> murein5p4p_p
h2o_p + murein4px4px4p_p --> murein4px4p4p_p
mal__L_c + nad_c <=> h_c + nadh_c + oaa_c
mal__L_c + q8_c --> oaa_c + q8h2_c
mal__L_c + mqn8_c --> mql8_c + oaa_c
mal__L_c + nad_c --> co2_c + nadh_c + pyr_c
mal__L_c + nadp_c --> co2_c + nadph_c + pyr_c
2mecdp_c + 2.0 flxr_c + h_c --> 2.0 flxso_c + h2mb4p_c + h2o_c
2p4c2me_c --> 2mecdp_c + cmp_c
h_p + melib_p --> h_c + melib_c
h_p + melib_c --> h_c + melib_p
melib_e <=> melib_p
meoh_e <=> meoh_p
meoh_p <=> meoh_c
2me4p_c + ctp_c + h_c --> 4c2me_c + ppi_c
atp_c + h2o_c + met__L_c --> amet_c + pi_c + ppi_c
atp_c + h2o_c + met__D_p --> adp_c + h_c + met__D_c + pi_c
met__D_e <=> met__D_p
h2o2_c + met__L_c --> h2o_c + metsox_S__L_c
h2o2_c + met__L_c --> h2o_c + metsox_R__L_c
5mthf_c + hcys__L_c --> h_c + met__L_c + thf_c
atp_c + h2o_c + metsox_S__L_p --> adp_c + h_c + metsox_S__L_c + pi_c
metsox_S__L_e <=> metsox_S__L_p
atp_c + h2o_c + metsox_R__L_p --> adp_c + h_c + metsox_R__L_c + pi_c
metsox_R__L_e <=> metsox_R__L_p
metsox_S__L_c + trdrd_c --> h2o_c + met__L_c + trdox_c
metsox_R__L_c + trdrd_c --> h2o_c + met__L_c + trdox_c
atp_c + met__L_c + trnamet_c --> amp_c + mettrna_c + ppi_c
atp_c + h2o_c + met__L_p --> adp_c + h_c + met__L_c + pi_c
met__L_e <=> met__L_p
2.0 h_c + mg2_p <=> 2.0 h_p + mg2_c
mg2_e <=> mg2_p
mg2_p --> mg2_c
atp_c + h2o_c + mg2_p --> adp_c + h_c + mg2_c + pi_c
dhap_c --> mthgxl_c + pi_c
h2o_c + mi1p__D_c --> inost_c + pi_c
2mcacn_c + h2o_c <=> micit_c
mincyc_e <=> mincyc_p
h_p + mincyc_p --> h_c + mincyc_e
minohp_e --> minohp_p
h2o_p + murein5px4p_p --> alaala_p + murein3px4p_p
h2o_p + murein4p4p_p --> ala__D_p + murein4p3p_p
h2o_p + murein5p5p_p --> alaala_p + murein5p3p_p
h2o_p + murein4p3p_p --> ala__D_p + murein3p3p_p
h2o_p + murein5px3p_p --> alaala_p + murein3px3p_p
h2o_p + murein3px3p_p --> murein3p3p_p
h2o_p + murein5px3p_p --> murein5p3p_p
h2o_c + malttr_c --> glc__D_c + malt_c
h2o_c + maltttr_c --> glc__D_c + malttr_c
h2o_c + maltpt_c --> glc__D_c + maltttr_c
h2o_c + malthx_c --> glc__D_c + maltpt_c
h2o_c + malthp_c --> glc__D_c + malthx_c
murein4p4p_p --> 2.0 anhgm4p_p
murein4p3p_p --> anhgm3p_p + anhgm4p_p
murein3p3p_p --> 2.0 anhgm3p_p
murein4px4p4p_p --> anhgm4p_p + murein4px4p_p
maltpt_c + pi_c <=> g1p_c + maltttr_c
malthx_c + pi_c <=> g1p_c + maltpt_c
malthp_c + pi_c <=> g1p_c + malthx_c
h_c + mmcoa__S_c --> co2_c + ppcoa_c
h_p + mmet_p --> h_c + mmet_c
mmet_e <=> mmet_p
succoa_c --> mmcoa__S_c
h_p + mn2_c --> h_c + mn2_p
mn2_p --> mn2_c
h2o_c + man6p_c --> man_c + pi_c
mnl_p + pep_c --> mnl1p_c + pyr_c
mnl_e <=> mnl_p
mana_c --> 2ddglcn_c + h2o_c
h_p + mn2_p --> h_c + mn2_c
mn2_e <=> mn2_p
iscssh_c + moadamp_c + nadh_c --> amp_c + iscs_c + moadcosh_c + nad_c
ckdo_c + lipidA_c --> cmp_c + h_c + kdolipid4_c
ckdo_c + kdolipid4_c --> cmp_c + h_c + kdo2lipid4_c
ckdo_c + phphhlipa_c --> cmp_c + h_c + kphphhlipa_c
atp_c + h2o_c + mobd_p --> adp_c + h_c + mobd_c + pi_c
mobd_e <=> mobd_p
ctp_c + h_c + moco_c --> mococdp_c + ppi_c
2.0 h_c + mobd_c + mptamp_c --> amp_c + cu2_c + h2o_c + moco_c
gtp_c + h_c + moco_c --> mocogdp_c + ppi_c
3mob_c + h2o_c + mlthf_c --> 2dhp_c + thf_c
mal__L_c + o2_c <=> h2o2_c + oaa_c
atp_c + h_c + mpt_c --> mptamp_c + ppi_c
2.0 uaagmda_c --> 2.0 h_c + murein5p5p_p + 2.0 udcpdp_c
murein5p5p_p + uaagmda_c --> h_c + murein5p5p5p_p + udcpdp_c
cpmp_c + cu2_c + 2.0 moadcosh_c --> 5.0 h_c + 2.0 moadcoo_c + mpt_c
atp_c + h_c + moadcoo_c --> moadamp_c + ppi_c
h_c + msa_c + nadph_c --> 3hpp_c + nadp_c
atp_c + h2o_c + mso3_p --> adp_c + h_c + mso3_c + pi_c
mso3_e <=> mso3_p
5mta_c + h2o_c --> 5mtr_c + ade_c
h2o_c + methf_c <=> 10fthf_c + h_c
mlthf_c + nadp_c <=> methf_c + nadph_c
2.0 h_c + mlthf_c + nadh_c --> 5mthf_c + nad_c
h2o_c + mdhdhf_c --> mththf_c
Nmtrp_c + h2o_c + o2_c --> fald_c + h2o2_c + trp__L_c
n2o_e <=> n2o_p
n2o_p <=> n2o_c
acg5sa_c + h2o_c --> ac_c + glu5sa_c
nac_e <=> nac_p
nac_p --> nac_c
h2o_c + nad_c --> amp_c + 2.0 h_c + nmn_c
h_c + mqn8_c + nadh_c --> mql8_c + nad_c
4.0 h_c + nadh_c + q8_c --> 3.0 h_p + nad_c + q8h2_c
4.0 h_c + mqn8_c + nadh_c --> 3.0 h_p + mql8_c + nad_c
2dmmq8_c + 4.0 h_c + nadh_c --> 2dmmql8_c + 3.0 h_p + nad_c
h_c + nadh_c + q8_c --> nad_c + q8h2_c
2dmmq8_c + h_c + nadh_c --> 2dmmql8_c + nad_c
atp_c + nad_c --> adp_c + h_c + nadp_c
h2o_c + nad_c --> adprib_c + h_c + ncam_c
h_c + nadph_c + q8_c --> nadp_c + q8h2_c
h_c + mqn8_c + nadph_c --> mql8_c + nadp_c
2dmmq8_c + h_c + nadph_c --> 2dmmql8_c + nadp_c
h2o_c + nadp_c --> nad_c + pi_c
atp_c + dnad_c + nh4_c --> amp_c + h_c + nad_c + ppi_c
nad_c + nadph_c --> nadh_c + nadp_c
atp_c + h2o_c + nac_c + prpp_c --> adp_c + nicrnt_c + pi_c + ppi_c
3.0 h_p + 2.0 na1_c --> 3.0 h_c + 2.0 na1_p
2.0 h_p + na1_c --> 2.0 h_c + na1_p
h_p + na1_c --> h_c + na1_p
na1_e <=> na1_p
atp_c + gdp_c <=> adp_c + gtp_c
atp_c + udp_c <=> adp_c + utp_c
atp_c + cdp_c <=> adp_c + ctp_c
atp_c + dtdp_c <=> adp_c + dttp_c
atp_c + dgdp_c <=> adp_c + dgtp_c
atp_c + dudp_c <=> adp_c + dutp_c
atp_c + dcdp_c <=> adp_c + dctp_c
atp_c + dadp_c <=> adp_c + datp_c
nh4_e <=> nh4_p
nh4_p <=> nh4_c
h_c + nadh_c + 2.0 no_c --> h2o_c + n2o_c + nad_c
atp_c + h2o_c + ni2_c --> adp_c + h_c + ni2_p + pi_c
h_p + ni2_c --> h_c + ni2_p
ni2_e <=> ni2_p
ni2_p --> ni2_c
atp_c + h2o_c + ni2_p --> adp_c + h_c + ni2_c + pi_c
atp_c + h_c + nmn_c --> nad_c + ppi_c
h2o_c + nmn_c --> nh4_c + nicrnt_c
h2o_c + nmn_c --> h_c + ncam_c + r5p_c
nmn_p --> nmn_c
h2o_c + nmn_p --> h_c + ncam_c + r5p_c
nmn_e <=> nmn_p
h2o_c + ncam_c --> nac_c + nh4_c
atp_c + h_c + nicrnt_c <=> dnad_c + ppi_c
dmbzid_c + nicrnt_c --> 5prdmbz_c + h_c + nac_c
2.0 h_c + prpp_c + quln_c --> co2_c + nicrnt_c + ppi_c
h_p + no2_p <=> h_c + no2_c
no2_e <=> no2_p
no3_p + q8h2_c --> h2o_p + no2_p + q8_c
2.0 h_c + no3_c + q8h2_c --> h2o_c + 2.0 h_p + no2_c + q8_c
mql8_c + no3_p --> h2o_p + mqn8_c + no2_p
2.0 h_c + mql8_c + no3_c --> h2o_c + 2.0 h_p + mqn8_c + no2_c
no2_c + no3_p --> no2_p + no3_c
no3_e <=> no3_p
nadh_c + 2.0 no_c + 2.0 o2_c --> h_c + nad_c + 2.0 no3_c
nadph_c + 2.0 no_c + 2.0 o2_c --> h_c + nadp_c + 2.0 no3_c
novbcn_e <=> novbcn_p
h_p + novbcn_p --> h_c + novbcn_e
no_e <=> no_p
no_p <=> no_c
dump_c + h2o_c --> duri_c + pi_c
h2o_c + xmp_c --> pi_c + xtsn_c
h2o_p + xmp_p --> pi_p + xtsn_p
h2o_c + imp_c --> ins_c + pi_c
h2o_p + imp_p --> ins_p + pi_p
dimp_c + h2o_c --> din_c + pi_c
dimp_p + h2o_p --> din_p + pi_p
dump_p + h2o_p --> duri_p + pi_p
h2o_c + ump_c --> pi_c + uri_c
h2o_p + ump_p --> pi_p + uri_p
dcmp_c + h2o_c --> dcyt_c + pi_c
dcmp_p + h2o_p --> dcyt_p + pi_p
cmp_c + h2o_c --> cytd_c + pi_c
cmp_p + h2o_p --> cytd_p + pi_p
dtmp_c + h2o_c --> pi_c + thymd_c
dtmp_p + h2o_p --> pi_p + thymd_p
damp_c + h2o_c --> dad_2_c + pi_c
damp_p + h2o_p --> dad_2_p + pi_p
amp_c + h2o_c --> adn_c + pi_c
amp_p + h2o_p --> adn_p + pi_p
dgmp_c + h2o_c --> dgsn_c + pi_c
dgmp_p + h2o_p --> dgsn_p + pi_p
gmp_c + h2o_c --> gsn_c + pi_c
gmp_p + h2o_p --> gsn_p + pi_p
atp_c + h2o_c --> adp_c + h_c + pi_c
h2o_c + itp_c --> h_c + idp_c + pi_c
ditp_c + h2o_c --> didp_c + h_c + pi_c
h2o_c + xtp_c --> h_c + pi_c + xdp_c
gtp_c + h2o_c --> gdp_c + h_c + pi_c
gtp_p + h2o_p --> gdp_p + h_p + pi_p
ctp_c + h2o_c --> cdp_c + h_c + pi_c
dgtp_c + h2o_c --> dgmp_c + h_c + ppi_c
ditp_c + h2o_c --> dimp_c + h_c + ppi_c
h2o_c + xtp_c --> h_c + ppi_c + xmp_c
gtp_c + h2o_c --> gmp_c + h_c + ppi_c
dctp_c + h2o_c --> dcmp_c + h_c + ppi_c
ctp_c + h2o_c --> cmp_c + h_c + ppi_c
datp_c + h2o_c --> damp_c + h_c + ppi_c
atp_c + h2o_c --> amp_c + h_c + ppi_c
dttp_c + h2o_c --> dtmp_c + h_c + ppi_c
h2o_c + utp_c --> h_c + ppi_c + ump_c
h2o_c + itp_c --> h_c + imp_c + ppi_c
dgtp_c + h2o_c --> dgsn_c + pppi_c
gtp_c + h2o_c --> gsn_c + pppi_c
5.0 h_c + 3.0 nadh_c + no2_c --> 2.0 h2o_c + 3.0 nad_c + nh4_c
2.0 h_p + no2_p + 3.0 q8h2_c --> 2.0 h2o_p + nh4_p + 3.0 q8_c
2.0 h_p + 3.0 mql8_c + no2_p --> 2.0 h2o_p + 3.0 mqn8_c + nh4_p
atp_c + h2o_c + o16a4colipa_p --> adp_c + h_c + o16a4colipa_e + pi_c
colipa_p + o16a4und_p --> h_p + o16a4colipa_p + udcpdp_p
2.0 o16aund_p --> h_p + o16a2und_p + udcpdp_p
o16a2und_p + o16aund_p --> h_p + o16a3und_p + udcpdp_p
o16a3und_p + o16aund_p --> h_p + o16a4und_p + udcpdp_p
accoa_c + ragund_c --> aragund_c + coa_c
o16aund_c --> o16aund_p
garagund_c + udpgalfur_c --> gfgaragund_c + h_c + udp_c
aragund_c + udpg_c --> garagund_c + h_c + udp_c
gfgaragund_c + udpg_c --> h_c + o16aund_c + udp_c
o2s_e <=> o2s_p
o2_e <=> o2_p
o2_p <=> o2_c
h_c + oaa_c --> co2_c + pyr_c
2obut_c + coa_c --> for_c + ppcoa_c
cbp_c + orn_c <=> citr__L_c + h_c + pi_c
ocdca_e --> ocdca_p
ocdcea_e --> ocdcea_p
octa_e <=> octa_p
frdp_c + 5.0 ipdp_c --> octdp_c + 5.0 ppi_c
atp_c + h_c + octa_c --> amp_c + octapb_c + ppi_c
hgmeACP_c --> egmeACP_c + h2o_c
h_c + nadph_c + ogmeACP_c --> hgmeACP_c + nadp_c
h_c + malACP_c + malcoame_c --> co2_c + coa_c + ogmeACP_c
glu__L_c + ohpb_c <=> akg_c + phthr_c
2ohph_c + amet_c --> 2omph_c + ahcys_c + h_c
2ombzl_c + amet_c --> 2ommbl_c + ahcys_c + h_c
3c4mop_c + h_c --> 4mop_c + co2_c
2ommbl_c + 0.5 o2_c --> 2omhmbl_c
2ommbl_c + 2.0 atp_c + 3.0 h2o_c + nad_c --> 2omhmbl_c + 2.0 adp_c + 3.0 h_c + nadh_c + 2.0 pi_c
h_c + orot5p_c --> co2_c + ump_c
2omph_c + 0.5 o2_c --> 2ombzl_c
2omph_c + 2.0 atp_c + 3.0 h2o_c + nad_c --> 2ombzl_c + 2.0 adp_c + 3.0 h_c + nadh_c + 2.0 pi_c
h2o_c + op4en_c --> 4h2opntn_c
3ophb_c + h_c --> 2oph_c + co2_c
2oph_c + 0.5 o2_c --> 2ohph_c
2oph_c + 2.0 atp_c + 3.0 h2o_c + nad_c --> 2ohph_c + 2.0 adp_c + 3.0 h_c + nadh_c + 2.0 pi_c
hpmeACP_c --> epmeACP_c + h2o_c
h_c + nadph_c + opmeACP_c --> hpmeACP_c + nadp_c
gmeACP_c + h_c + malACP_c --> ACP_c + co2_c + opmeACP_c
h_c + orn_c --> co2_c + ptrc_c
atp_c + h2o_c + orn_p --> adp_c + h_c + orn_c + pi_c
orn_e <=> orn_p
2.0 h_p + orot_p --> 2.0 h_c + orot_c
orot_e <=> orot_p
orot5p_c + ppi_c <=> orot_c + prpp_c
oxur_c + pi_c --> cbp_c + oxam_c
h_c + oxalcoa_c --> co2_c + forcoa_c
2oxpaccoa_c + 2.0 h2o_c + nadp_c --> 3oxdhscoa_c + 2.0 h_c + nadph_c
3oxdhscoa_c + coa_c --> 23dhacoa_c + accoa_c
1pyr5c_c + 2.0 h2o_c + nad_c --> glu__L_c + h_c + nadh_c
1pyr5c_c + 2.0 h_c + nadph_c --> nadp_c + pro__L_c
atp_c + h2o_c + pa120_c --> adp_c + h_c + pa120_p + pi_c
atp_c + h2o_c + pa140_c --> adp_c + h_c + pa140_p + pi_c
atp_c + h2o_c + pa141_c --> adp_c + h_c + pa141_p + pi_c
atp_c + h2o_c + pa160_c --> adp_c + h_c + pa160_p + pi_c
atp_c + h2o_c + pa161_c --> adp_c + h_c + pa161_p + pi_c
atp_c + h2o_c + pa180_c --> adp_c + h_c + pa180_p + pi_c
atp_c + h2o_c + pa181_c --> adp_c + h_c + pa181_p + pi_c
h_p + pacald_p <=> h_c + pacald_c
pacald_e <=> pacald_p
h_c + nadph_c + o2_c + phaccoa_c --> h2o_c + nadp_c + rephaccoa_c
atp_c + coa_c + pac_c --> amp_c + phaccoa_c + ppi_c
ala_B_c + atp_c + pant__R_c --> amp_c + h_c + pnto__R_c + ppi_c
h2o_c + pa120_c --> 12dgr120_c + pi_c
h2o_p + pa120_p --> 12dgr120_p + pi_p
h2o_c + pa140_c --> 12dgr140_c + pi_c
h2o_p + pa140_p --> 12dgr140_p + pi_p
h2o_c + pa141_c --> 12dgr141_c + pi_c
h2o_p + pa141_p --> 12dgr141_p + pi_p
h2o_c + pa160_c --> 12dgr160_c + pi_c
h2o_p + pa160_p --> 12dgr160_p + pi_p
h2o_c + pa161_c --> 12dgr161_c + pi_c
h2o_p + pa161_p --> 12dgr161_p + pi_p
h2o_c + pa180_c --> 12dgr180_c + pi_c
h2o_p + pa180_p --> 12dgr180_p + pi_p
h2o_c + pa181_c --> 12dgr181_c + pi_c
h2o_p + pa181_p --> 12dgr181_p + pi_p
udcpp_c + ugmda_c --> uagmda_c + ump_c
paps_c + trdrd_c --> 2.0 h_c + pap_c + so3_c + trdox_c
grxrd_c + paps_c --> grxox_c + 2.0 h_c + pap_c + so3_c
camp_c + h2o_c --> amp_c + h_c
35cgmp_c + h2o_c --> gmp_c + h_c
coa_c + nad_c + pyr_c --> accoa_c + co2_c + nadh_c
nad_c + pdx5p_c --> h_c + nadh_c + pydx5p_c
o2_c + pdx5p_c --> h2o2_c + pydx5p_c
dxyl5p_c + nad_c + phthr_c --> co2_c + 2.0 h2o_c + h_c + nadh_c + pdx5p_c + pi_c
h2o_c + pdx5p_c --> pi_c + pydxn_c
atp_c + h2o_c + pe120_c --> adp_c + h_c + pe120_p + pi_c
atp_c + h2o_c + pe140_c --> adp_c + h_c + pe140_p + pi_c
atp_c + h2o_c + pe141_c --> adp_c + h_c + pe141_p + pi_c
atp_c + h2o_c + pe160_c --> adp_c + h_c + pe160_p + pi_c
atp_c + h2o_c + pe161_c --> adp_c + h_c + pe161_p + pi_c
atp_c + h2o_c + pe180_c --> adp_c + h_c + pe180_p + pi_c
atp_c + h2o_c + pe181_c --> adp_c + h_c + pe181_p + pi_c
h2o_p + o2_p + peamn_p --> h2o2_p + nh4_p + pacald_p
peamn_e <=> peamn_p
4per_c + nad_c <=> h_c + nadh_c + ohpb_c
lipa_p + pe161_p --> 12dgr161_p + enlipa_p
lipa_p + pe181_p --> 12dgr181_p + enlipa_p
atp_c + f6p_c --> adp_c + fdp_c + h_c
atp_c + tag6p__D_c --> adp_c + h_c + tagdp__D_c
atp_c + s7p_c --> adp_c + h_c + s17bp_c
coa_c + pyr_c --> accoa_c + for_c
atp_c + h2o_c + pg120_c --> adp_c + h_c + pg120_p + pi_c
atp_c + h2o_c + pg140_c --> adp_c + h_c + pg140_p + pi_c
atp_c + h2o_c + pg141_c --> adp_c + h_c + pg141_p + pi_c
atp_c + h2o_c + pg160_c --> adp_c + h_c + pg160_p + pi_c
atp_c + h2o_c + pg161_c --> adp_c + h_c + pg161_p + pi_c
atp_c + h2o_c + pg180_c --> adp_c + h_c + pg180_p + pi_c
atp_c + h2o_c + pg181_c --> adp_c + h_c + pg181_p + pi_c
gam1p_c <=> gam6p_c
3pg_c + nad_c --> 3php_c + h_c + nadh_c
g6p_c <=> f6p_c
3pg_c + atp_c <=> 13dpg_c + adp_c
6pgl_c + h2o_c --> 6pgc_c + h_c
2pglyc_c + h2o_c --> glyclt_c + pi_c
2pg_c <=> 3pg_c
g1p_c <=> g6p_c
atp_c + h2o_c + pgp120_c --> adp_c + h_c + pgp120_p + pi_c
atp_c + h2o_c + pgp140_c --> adp_c + h_c + pgp140_p + pi_c
atp_c + h2o_c + pgp141_c --> adp_c + h_c + pgp141_p + pi_c
atp_c + h2o_c + pgp160_c --> adp_c + h_c + pgp160_p + pi_c
atp_c + h2o_c + pgp161_c --> adp_c + h_c + pgp161_p + pi_c
atp_c + h2o_c + pgp180_c --> adp_c + h_c + pgp180_p + pi_c
atp_c + h2o_c + pgp181_c --> adp_c + h_c + pgp181_p + pi_c
h2o_c + pgp120_c --> pg120_c + pi_c
h2o_p + pgp120_p --> pg120_p + pi_p
h2o_c + pgp140_c --> pg140_c + pi_c
h2o_p + pgp140_p --> pg140_p + pi_p
h2o_c + pgp141_c --> pg141_c + pi_c
h2o_p + pgp141_p --> pg141_p + pi_p
h2o_c + pgp160_c --> pg160_c + pi_c
h2o_p + pgp160_p --> pg160_p + pi_p
h2o_c + pgp161_c --> pg161_c + pi_c
h2o_p + pgp161_p --> pg161_p + pi_p
h2o_c + pgp180_c --> pg180_c + pi_c
h2o_p + pgp180_p --> pg180_p + pi_p
h2o_c + pgp181_c --> pg181_c + pi_c
h2o_p + pgp181_p --> pg181_p + pi_p
cdpdddecg_c + glyc3p_c --> cmp_c + h_c + pgp120_c
cdpdtdecg_c + glyc3p_c --> cmp_c + h_c + pgp140_c
cdpdtdec7eg_c + glyc3p_c --> cmp_c + h_c + pgp141_c
cdpdhdecg_c + glyc3p_c --> cmp_c + h_c + pgp160_c
cdpdhdec9eg_c + glyc3p_c --> cmp_c + h_c + pgp161_c
cdpdodecg_c + glyc3p_c --> cmp_c + h_c + pgp180_c
cdpdodec11eg_c + glyc3p_c --> cmp_c + h_c + pgp181_c
atp_c + h2o_c + pheme_c --> adp_c + h_c + pheme_p + pi_c
pheme_p --> pheme_e
akg_c + phe__L_c <=> glu__L_c + phpyr_c
atp_c + phe__L_c + trnaphe_c --> amp_c + phetrna_c + ppi_c
h_p + phe__L_p <=> h_c + phe__L_c
phe__L_e <=> phe__L_p
6.0 h2o_p + minohp_p --> inost_p + 6.0 pi_p
h_p + pi_p <=> h_c + pi_c
pi_e <=> pi_p
atp_c + h2o_c + pi_p --> adp_c + h_c + 2.0 pi_c
h2o_p + pa120_p --> 2ddecg3p_p + ddca_p
h2o_p + pa140_p --> 2tdecg3p_p + ttdca_p
h2o_p + pa141_p --> 2tdec7eg3p_p + ttdcea_p
h2o_p + pa160_p --> 2hdecg3p_p + hdca_p
h2o_p + pa161_p --> 2hdec9eg3p_p + hdcea_p
h2o_p + pa180_p --> 2odecg3p_p + ocdca_p
h2o_p + pa181_p --> 2odec11eg3p_p + ocdcea_p
h2o_p + pe120_p --> 2agpe120_p + ddca_p + h_p
h2o_p + pe140_p --> 2agpe140_p + h_p + ttdca_p
h2o_p + pe141_p --> 2agpe141_p + h_p + ttdcea_p
h2o_p + pe160_p --> 2agpe160_p + h_p + hdca_p
h2o_p + pe161_p --> 2agpe161_p + h_p + hdcea_p
h2o_p + pe180_p --> 2agpe180_p + h_p + ocdca_p
h2o_p + pe181_p --> 2agpe181_p + h_p + ocdcea_p
h2o_p + pg120_p --> 2agpg120_p + ddca_p + h_p
h2o_p + pg140_p --> 2agpg140_p + h_p + ttdca_p
h2o_p + pg141_p --> 2agpg141_p + h_p + ttdcea_p
h2o_p + pg160_p --> 2agpg160_p + h_p + hdca_p
h2o_p + pg161_p --> 2agpg161_p + h_p + hdcea_p
h2o_p + pg180_p --> 2agpg180_p + h_p + ocdca_p
h2o_p + pg181_p --> 2agpg181_p + h_p + ocdcea_p
h2o_p + pa120_p --> 1ddecg3p_p + ddca_p + h_p
h2o_p + pa140_p --> 1tdecg3p_p + h_p + ttdca_p
h2o_p + pa141_p --> 1tdec7eg3p_p + h_p + ttdcea_p
h2o_p + pa160_p --> 1hdecg3p_p + h_p + hdca_p
h2o_p + pa161_p --> 1hdec9eg3p_p + h_p + hdcea_p
h2o_p + pa180_p --> 1odecg3p_p + h_p + ocdca_p
h2o_p + pa181_p --> 1odec11eg3p_p + h_p + ocdcea_p
h2o_p + pe120_p --> 1agpe120_p + ddca_p + h_p
h2o_p + pe140_p --> 1agpe140_p + h_p + ttdca_p
h2o_p + pe141_p --> 1agpe141_p + h_p + ttdcea_p
h2o_p + pe160_p --> 1agpe160_p + h_p + hdca_p
h2o_p + pe161_p --> 1agpe161_p + h_p + hdcea_p
h2o_p + pe180_p --> 1agpe180_p + h_p + ocdca_p
h2o_p + pe181_p --> 1agpe181_p + h_p + ocdcea_p
h2o_p + pg120_p --> 1agpg120_p + ddca_p + h_p
h2o_p + pg140_p --> 1agpg140_p + h_p + ttdca_p
h2o_p + pg141_p --> 1agpg141_p + h_p + ttdcea_p
h2o_p + pg160_p --> 1agpg160_p + h_p + hdca_p
h2o_p + pg161_p --> 1agpg161_p + h_p + hdcea_p
h2o_p + pg180_p --> 1agpg180_p + h_p + ocdca_p
h2o_p + pg181_p --> 1agpg181_p + h_p + ocdcea_p
man1p_c <=> man6p_c
5aprbu_c + h2o_c --> 4r5au_c + pi_c
h2o_c + pmeACP_c --> meoh_c + pimACP_c
4ampm_c + atp_c --> 2mahmp_c + adp_c
atp_c + pnto__R_c --> 4ppan_c + adp_c + h_c
na1_p + pnto__R_p --> na1_c + pnto__R_c
pnto__R_e <=> pnto__R_p
nadh_c + poaac_c --> 3amac_c + h2o_c + nad_c
coa_c + 2.0 flxso_c + pyr_c <=> accoa_c + co2_c + 2.0 flxr_c + h_c
h2o_c + pyr_c + q8_c --> ac_c + co2_c + q8h2_c
h2o_c + ppi_c --> h_c + 2.0 pi_c
h2o_c + pppi_c --> h_c + pi_c + ppi_c
adp_c + ppap_c <=> atp_c + ppa_c
ppal_e <=> ppal_p
ppal_c <=> ppal_p
na1_p + ppa_p --> na1_c + ppa_c
ppa_e <=> ppa_p
2.0 5aop_c --> 2.0 h2o_c + h_c + ppbng_c
co2_c + h2o_c + pep_c --> h_c + oaa_c + pi_c
4ppcys_c + h_c --> co2_c + pan4p_c
atp_c + oaa_c --> adp_c + co2_c + pep_c
ppcoa_c + succ_c --> ppa_c + succoa_c
h2o_c + ppgpp_c --> gdp_c + ppi_c
atp_c + ppi_c <=> adp_c + pppi_c
atp_c + pi_c <=> adp_c + ppi_c
r1p_c <=> r5p_c
2dr1p_c <=> 2dr5p_c
4ppan_c + ctp_c + cys__L_c --> 4ppcys_c + cmp_c + h_c + ppi_c
nad_c + pphn_c --> 34hpp_c + co2_c + nadh_c
h_c + pphn_c --> co2_c + h2o_c + phpyr_c
1.5 o2_c + pppg9_c --> 3.0 h2o_c + ppp9_c
3.0 fum_c + pppg9_c --> ppp9_c + 3.0 succ_c
h_c + nadh_c + o2_c + pppn_c --> cechddd_c + nad_c
h_p + pppn_p <=> h_c + pppn_c
pppn_e <=> pppn_p
atp_c + h2o_c + pyr_c --> amp_c + 2.0 h_c + pep_c + pi_c
h2o_p + ppt_p --> h2_p + pi_p
ppt_e <=> ppt_p
atp_c + gly_c + pram_c <=> adp_c + gar_c + h_c + pi_c
atp_c + fpram_c --> adp_c + air_c + 2.0 h_c + pi_c
pran_c --> 2cpr5p_c
h2o_c + prbamp_c --> prfp_c
5aizc_c + asp__L_c + atp_c --> 25aics_c + adp_c + h_c + pi_c
h2o_c + prbatp_c --> h_c + ppi_c + prbamp_c
atp_c + fgam_c + gln__L_c + h2o_c --> adp_c + fpram_c + glu__L_c + h_c + pi_c
prfp_c <=> prlp_c
fad_c + pro__L_c --> 1pyr5c_c + fadh2_c + h_c
atp_c + h2o_c + progly_p --> adp_c + h_c + pi_c + progly_c
progly_e <=> progly_p
atp_c + pro__L_c + trnapro_c --> amp_c + ppi_c + protrna_c
atp_c + h2o_c + pro__L_p --> adp_c + h_c + pi_c + pro__L_c
h_p + pro__L_p <=> h_c + pro__L_c
na1_p + pro__L_p --> na1_c + pro__L_c
pro__L_e <=> pro__L_p
atp_c + r5p_c <=> amp_c + h_c + prpp_c
h_p + psclys_p --> h_c + psclys_c
psclys_e <=> psclys_p
pep_c + skm5p_c <=> 3psme_c + pi_c
h_c + ps120_c --> co2_c + pe120_c
h_c + ps140_c --> co2_c + pe140_c
h_c + ps141_c --> co2_c + pe141_c
h_c + ps160_c --> co2_c + pe160_c
h_c + ps161_c --> co2_c + pe161_c
h_c + ps180_c --> co2_c + pe180_c
h_c + ps181_c --> co2_c + pe181_c
3php_c + glu__L_c --> akg_c + pser__L_c
pser__L_e <=> pser__L_p
h2o_c + pser__L_c --> pi_c + ser__L_c
h2o_p + pser__L_p --> pi_p + ser__L_p
cdpdddecg_c + ser__L_c --> cmp_c + h_c + ps120_c
cdpdtdecg_c + ser__L_c --> cmp_c + h_c + ps140_c
cdpdtdec7eg_c + ser__L_c --> cmp_c + h_c + ps141_c
cdpdhdecg_c + ser__L_c --> cmp_c + h_c + ps160_c
cdpdhdec9eg_c + ser__L_c --> cmp_c + h_c + ps161_c
cdpdodecg_c + ser__L_c --> cmp_c + h_c + ps180_c
cdpdodec11eg_c + ser__L_c --> cmp_c + h_c + ps181_c
pi_c + ppcoa_c --> coa_c + ppap_c
accoa_c + pi_c <=> actp_c + coa_c
h2o_p + thrp_p --> pi_p + thr__L_p
atp_c + h_c + pan4p_c --> dpcoa_c + ppi_c
orn_c + ptrc_p <=> orn_p + ptrc_c
akg_c + ptrc_c --> 4abutn_c + glu__L_c
atp_c + h2o_c + ptrc_p --> adp_c + h_c + pi_c + ptrc_c
h_p + ptrc_p --> h_c + ptrc_c
ptrc_e <=> ptrc_p
adn_c + pi_c <=> ade_c + r1p_c
dad_2_c + pi_c <=> 2dr1p_c + ade_c
gsn_c + pi_c <=> gua_c + r1p_c
dgsn_c + pi_c <=> 2dr1p_c + gua_c
ins_c + pi_c <=> hxan_c + r1p_c
din_c + pi_c <=> 2dr1p_c + hxan_c
pi_c + xtsn_c <=> r1p_c + xan_c
h2o_c + o2_c + pyam5p_c --> h2o2_c + nh4_c + pydx5p_c
atp_c + pydam_c --> adp_c + h_c + pyam5p_c
pydam_e <=> pydam_p
pydam_p --> pydam_c
atp_c + pydx_c --> adp_c + h_c + pydx5p_c
atp_c + pydxn_c --> adp_c + h_c + pdx5p_c
pydxn_e <=> pydxn_p
pydxn_p --> pydxn_c
h2o_c + pydx5p_c --> pi_c + pydx_c
pydx_e <=> pydx_p
pydx_p --> pydx_c
adp_c + h_c + pep_c --> atp_c + pyr_c
pi_c + uri_c <=> r1p_c + ura_c
h_c + nadh_c + o2_c + ura_c --> nad_c + uracp_c
h_p + pyr_p <=> h_c + pyr_c
pyr_e <=> pyr_p
2.0 o2_c + q8h2_c --> 2.0 h_c + 2.0 o2s_c + q8_c
mql8_c + 2.0 o2_c --> 2.0 h_c + mqn8_c + 2.0 o2s_c
quin_e <=> quin_p
quin_p <=> quin_c
nad_c + quin_c <=> 3dhq_c + 2.0 h_c + nadh_c
dhap_c + iasp_c --> 2.0 h2o_c + pi_c + quln_c
atp_c + r15bp_c --> adp_c + prpp_c
atp_c + r1p_c --> adp_c + h_c + r15bp_c
h2o_c + r5p_c --> pi_c + rib__D_c
h2o_p + r5p_p --> pi_p + rib__D_p
r5p_e <=> r5p_p
atp_c + ribflv_c --> adp_c + fmn_c + h_c
4r5au_c + db4p_c --> dmlz_c + 2.0 h2o_c + pi_c
2.0 dmlz_c --> 4r5au_c + ribflv_c
atp_c + rib__D_c --> adp_c + h_c + r5p_c
atp_c + rbl__L_c --> adp_c + h_c + ru5p__L_c
ru5p__L_c <=> xu5p__D_c
rephaccoa_c <=> 2oxpaccoa_c
rfamp_e <=> rfamp_p
h_p + rfamp_p --> h_c + rfamp_e
dtdprmn_c + kphphhlipa_c --> dtdp_c + h_c + icolipa_c
rhcys_c --> dhptd_c + hcys__L_c
atp_c + h2o_c + rib__D_p --> adp_c + h_c + pi_c + rib__D_c
rib__D_e <=> rib__D_p
rmn_c <=> rml_c
atp_c + rml_c --> adp_c + h_c + rml1p_c
rmn_e <=> rmn_p
h_p + rmn_p --> h_c + rmn_c
rml1p_c <=> dhap_c + lald__L_c
adp_c + trdrd_c --> dadp_c + h2o_c + trdox_c
adp_c + grxrd_c --> dadp_c + grxox_c + h2o_c
gdp_c + trdrd_c --> dgdp_c + h2o_c + trdox_c
gdp_c + grxrd_c --> dgdp_c + grxox_c + h2o_c
cdp_c + trdrd_c --> dcdp_c + h2o_c + trdox_c
cdp_c + grxrd_c --> dcdp_c + grxox_c + h2o_c
trdrd_c + udp_c --> dudp_c + h2o_c + trdox_c
grxrd_c + udp_c --> dudp_c + grxox_c + h2o_c
atp_c + 2.0 flxr_c + 2.0 h_c --> datp_c + 2.0 flxso_c + h2o_c
2.0 flxr_c + gtp_c + 2.0 h_c --> dgtp_c + 2.0 flxso_c + h2o_c
ctp_c + 2.0 flxr_c + 2.0 h_c --> dctp_c + 2.0 flxso_c + h2o_c
2.0 flxr_c + 2.0 h_c + utp_c --> dutp_c + 2.0 flxso_c + h2o_c
ru5p__D_c <=> xu5p__D_c
r5p_c <=> ru5p__D_c
5prdmbz_c + h2o_c --> pi_c + rdmbzi_c
2fe1s_c + atp_c + h2o_c + sufbcd_c + sufsesh_c --> adp_c + 5.0 h_c + pi_c + sufbcd_2fe2s_c + sufse_c
atp_c + fadh2_c + 2.0 fe2_c + h2o_c + sufbcd_c + 2.0 sufsesh_c --> adp_c + fad_c + 7.0 h_c + pi_c + sufbcd_2fe2s_c + 2.0 sufse_c
atp_c + fadh2_c + 2.0 fe2_c + h2o_c + sufbcd_2fe2s_c + 2.0 sufsesh_c --> adp_c + fad_c + 7.0 h_c + pi_c + sufbcd_2fe2s2_c + 2.0 sufse_c
4.0 h_c + sufbcd_2fe2s_c --> 2fe2s_c + sufbcd_c
fadh2_c + 2.0 h_c + sufbcd_2fe2s2_c --> fad_c + sufbcd_4fe4s_c
4.0 h_c + sufbcd_4fe4s_c --> 4fe4s_c + sufbcd_c
s7p_c --> gmhep7p_c
2.0 h2o_c + 2.0 h_c + sucarg_c --> co2_c + 2.0 nh4_c + sucorn_c
atp_c + gtp_c + h2o_c + so4_c --> aps_c + gdp_c + pi_c + ppi_c
h2o_c + o2_c + sarcs_c --> fald_c + gly_c + h2o2_c
nad_c + sbt6p_c <=> f6p_c + h_c + nadh_c
pep_c + sbt__D_p --> pyr_c + sbt6p_c
sbt__D_e <=> sbt__D_p
cys__L_c + sufse_c --> ala__L_c + sufsesh_c
h2o_c + sl26da_c --> 26dap_LL_c + succ_c
akg_c + sl26da_c <=> glu__L_c + sl2a6o_c
selnp_c + sertrna_sec_c --> h_c + pi_c + sectrna_c
4.0 gthrd_c + 2.0 h_c + slnt_c --> dgslnt_c + gthox_c + 3.0 h2o_c
dgslnt_c + h_c + nadph_c --> gslnt_c + gthrd_c + nadp_c
gslnt_c + nadph_c --> gthrd_c + nadp_c + seln_c
atp_c + h2o_c + seln_c --> amp_c + pi_c + selnp_c
mql8_c + sel_c --> h2o_c + mqn8_c + slnt_c
sel_e <=> sel_p
2.0 h_p + sel_p --> 2.0 h_c + sel_c
akg_c + h_c + ichor_c --> 2sephchc_c + co2_c
atp_c + h_c + ser__L_c <=> ppi_c + seramp_c
accoa_c + ser__L_c <=> acser_c + coa_c
ser__D_c --> nh4_c + pyr_c
ser__L_c --> nh4_c + pyr_c
atp_c + ser__L_c + trnaser_c --> amp_c + ppi_c + sertrna_c
atp_c + ser__L_c + trnasecys_c --> amp_c + ppi_c + sertrna_sec_c
h_p + ser__L_p <=> h_c + ser__L_c
na1_p + ser__L_p --> na1_c + ser__L_c
ser__L_e <=> ser__L_p
Sfglutth_c + h2o_c --> for_c + gthrd_c + h_c
h2o_c + sucglu_c --> glu__L_c + succ_c
h2o_c + nad_c + sucgsa_c --> 2.0 h_c + nadh_c + sucglu_c
2sephchc_c --> 2shchc_c + pyr_c
dscl_c + nad_c --> h_c + nadh_c + scl_c
fe2_c + scl_c --> 3.0 h_c + sheme_c
3dhsk_c + h_c + nadph_c <=> nadp_c + skm_c
atp_c + skm_c --> adp_c + h_c + skm5p_c
cys__L_c + suchms_c --> cyst__L_c + h_c + succ_c
h_p + skm_p --> h_c + skm_c
skm_e <=> skm_p
slnt_e <=> slnt_p
h_p + slnt_p --> h_c + slnt_c
so2_e <=> so2_p
so2_p <=> so2_c
so3_e <=> so3_p
h_p + so4_p --> h_c + so4_c
so4_e <=> so4_p
akg_c + sucorn_c --> glu__L_c + sucgsa_c
accoa_c + spmd_c --> N1aspmd_c + coa_c + h_c
accoa_c + spmd_c --> coa_c + h_c + n8aspmd_c
atp_c + h2o_c + spmd_p --> adp_c + h_c + pi_c + spmd_c
h_p + spmd_c --> h_c + spmd_p
spmd_e <=> spmd_p
ametam_c + ptrc_c --> 5mta_c + h_c + spmd_c
2.0 h_c + 2.0 o2s_c --> h2o2_c + o2_c
2.0 h_p + 2.0 o2s_p --> h2o2_p + o2_p
h2o_c + nad_c + sucsal_c --> 2.0 h_c + nadh_c + succ_c
h2o_c + nadp_c + sucsal_c --> 2.0 h_c + nadph_c + succ_c
asp__L_p + succ_c --> asp__L_c + succ_p
atp_c + coa_c + sucbz_c --> amp_c + ppi_c + sbzcoa_c
2shchc_c --> h2o_c + sucbz_c
2.0 h_p + succ_p --> 2.0 h_c + succ_c
3.0 h_p + succ_p --> 3.0 h_c + succ_c
h_p + succ_c --> h_c + succ_p
succ_e <=> succ_p
q8_c + succ_c --> fum_c + q8h2_c
fum_p + succ_c --> fum_c + succ_p
mal__L_p + succ_c --> mal__L_c + succ_p
atp_c + coa_c + succ_c <=> adp_c + pi_c + succoa_c
sucr_e <=> sucr_p
succ_c + tartr__D_p --> succ_p + tartr__D_c
pep_c + sucr_p --> pyr_c + suc6p_c
atp_c + h2o_c + sulfac_p --> adp_c + h_c + pi_c + sulfac_c
sulfac_e <=> sulfac_p
5.0 h_c + 3.0 nadph_c + so3_c --> 3.0 h2o_c + h2s_c + 3.0 nadp_c
atp_c + h2o_c + so4_p --> adp_c + h_c + pi_c + so4_c
tdec2eACP_c <=> cdec3eACP_c
altrn_c + nad_c <=> h_c + nadh_c + tagur_c
g3p_c + s7p_c <=> e4p_c + f6p_c
tartr__L_c --> h2o_c + oaa_c
tartr__D_e <=> tartr__D_p
succ_c + tartr__L_p <=> succ_p + tartr__L_c
tartr__L_e <=> tartr__L_p
3.0 h_p + tartr__D_p --> 3.0 h_c + tartr__D_c
akg_c + o2_c + taur_c --> aacald_c + co2_c + h_c + so3_c + succ_c
atp_c + h2o_c + taur_p --> adp_c + h_c + pi_c + taur_c
taur_e <=> taur_p
tcynt_e <=> tcynt_p
h2o_c + thmpp_c --> h_c + pi_c + thmmp_c
accoa_c + dtdp4addg_c --> coa_c + dtdp4aaddg_c + h_c
dtdp4d6dg_c + glu__L_c --> akg_c + dtdp4addg_c
dtdp4d6dg_c --> dtdp4d6dm_c
dtdp4d6dm_c + h_c + nadph_c --> dtdprmn_c + nadp_c
dtdpglu_c --> dtdp4d6dg_c + h2o_c
atp_c + lipidAds_c --> adp_c + h_c + lipidA_c
dsbcox_p + dsbdrd_c --> dsbcrd_p + dsbdox_c
dsbdrd_c + dsbgox_p --> dsbdox_c + dsbgrd_p
tagdp__D_c <=> dhap_c + g3p_c
2.0 h_p + nadh_c + nadp_c --> 2.0 h_c + nad_c + nadph_c
h2o_c + succoa_c + thdp_c --> coa_c + sl2a6o_c
h2o_c + methf_c --> 5fthf_c + h_c
h2o2_c + trdrd_c --> 2.0 h2o_c + trdox_c
h_p + thymd_p --> h_c + thymd_c
h_p + thymd_p <=> h_c + thymd_c
thymd_e <=> thymd_p
atp_c + h2o_c + thm_p --> adp_c + h_c + pi_c + thm_c
thm_e <=> thm_p
athr__L_c --> acald_c + gly_c
thr__L_c --> acald_c + gly_c
nad_c + thr__L_c --> 2aobut_c + h_c + nadh_c
thr__L_c --> 2obut_c + nh4_c
thrp_e <=> thrp_p
h2o_c + phom_c --> pi_c + thr__L_c
atp_c + thr__L_c + trnathr_c --> amp_c + ppi_c + thrtrna_c
atp_c + h2o_c + thr__L_p --> adp_c + h_c + pi_c + thr__L_c
h_p + thr__L_c --> h_c + thr__L_p
h_p + thr__L_p <=> h_c + thr__L_c
na1_p + thr__L_p --> na1_c + thr__L_c
thr__L_e <=> thr__L_p
h_p + thym_c --> h_c + thym_p
thym_e <=> thym_p
atp_c + dhgly_c + dxyl5p_c + h_c + iscssh_c + nadph_c --> 4mpetz_c + amp_c + co2_c + 2.0 h2o_c + iscs_c + nadp_c + ppi_c
r5p_c + xu5p__D_c <=> g3p_c + s7p_c
e4p_c + xu5p__D_c <=> f6p_c + g3p_c
h_c + mql8_c + tmao_c --> h2o_c + mqn8_c + tma_c
h_p + mql8_c + tmao_p --> h2o_p + mqn8_c + tma_p
2dmmql8_c + h_c + tmao_c --> 2dmmq8_c + h2o_c + tma_c
2dmmql8_c + h_p + tmao_p --> 2dmmq8_c + h2o_p + tma_p
tmao_e <=> tmao_p
tma_e <=> tma_p
atp_c + thymd_c --> adp_c + dtmp_c + h_c
pi_c + thymd_c <=> 2dr1p_c + thym_c
dump_c + mlthf_c --> dhf_c + dtmp_c
atp_c + thm_c --> adp_c + h_c + thmmp_c
atp_c + thmmp_c --> adp_c + thmpp_c
2mahmp_c + 4mpetz_c + h_c --> ppi_c + thmmp_c
dhap_c <=> g3p_c
atp_c + dpcoa_c --> 2tpr3dpcoa_c + ade_c
h_c + nadph_c + trdox_c --> nadp_c + trdrd_c
h2o_c + tre6p_c --> g6p_c + glc__D_c
h2o_c + tre6p_c --> pi_c + tre_c
g6p_c + udpg_c --> h_c + tre6p_c + udp_c
h2o_c + tre_c --> 2.0 glc__D_c
h2o_p + tre_p --> 2.0 glc__D_p
pep_c + tre_p --> pyr_c + tre6p_c
tre_e <=> tre_p
h2o_c + trp__L_c <=> indole_c + nh4_c + pyr_c
3ig3p_c + ser__L_c --> g3p_c + h2o_c + trp__L_c
indole_c + ser__L_c --> h2o_c + trp__L_c
3ig3p_c --> g3p_c + indole_c
atp_c + trnatrp_c + trp__L_c --> amp_c + ppi_c + trptrna_c
h_p + trp__L_p <=> h_c + trp__L_c
trp__L_e <=> trp__L_p
2h3oppan_c + h_c + nadh_c <=> glyc__R_c + nad_c
atp_c + h2o_c + tsul_p --> adp_c + h_c + pi_c + tsul_c
tsul_e <=> tsul_p
ttdca_e --> ttdca_p
ttdcea_e --> ttdcea_p
ttrcyc_e <=> ttrcyc_p
h_p + ttrcyc_p --> h_c + ttrcyc_e
atp_c + h2o_c + tungs_p --> adp_c + h_c + pi_c + tungs_c
tungs_e <=> tungs_p
tym_e <=> tym_p
amet_c + nadph_c + tyr__L_c --> 4crsol_c + dad_5_c + dhgly_c + h_c + met__L_c + nadp_c
h2o_p + o2_p + tym_p --> 4hoxpacd_p + h2o2_p + nh4_p
h2o_p + tyrp_p --> pi_p + tyr__L_p
tyrp_e <=> tyrp_p
akg_c + tyr__L_c <=> 34hpp_c + glu__L_c
atp_c + trnatyr_c + tyr__L_c --> amp_c + ppi_c + tyrtrna_c
h_p + tyr__L_p <=> h_c + tyr__L_c
tyr__L_e <=> tyr__L_p
adp_c + h_c + thmpp_c --> athtp_c + pi_c
3hmrsACP_c + u3hga_c --> ACP_c + h_c + u23ga_c
26dap__M_c + atp_c + uamag_c --> adp_c + h_c + pi_c + ugmd_c
h2o_p + udpacgal_p --> acgal1p_p + 2.0 h_p + ump_p
h2o_p + uacgam_p --> acgam1p_p + 2.0 h_p + ump_p
uacgam_e <=> uacgam_p
h2o_c + 2.0 nad_c + uacmam_c --> 3.0 h_c + 2.0 nadh_c + uacmamu_c
uacgam_c <=> uacmam_c
3hmrsACP_c + uacgam_c <=> ACP_c + u3aga_c
pep_c + uacgam_c --> pi_c + uaccg_c
acgam1p_c + h_c + utp_c --> ppi_c + uacgam_c
uacgam_c + uagmda_c --> h_c + uaagmda_c + udp_c
atp_c + glu__D_c + uama_c --> adp_c + h_c + pi_c + uamag_c
ala__L_c + atp_c + uamr_c --> adp_c + h_c + pi_c + uama_c
h_c + nadph_c + uaccg_c --> nadp_c + uamr_c
h2o_c + udcpdp_c --> h_c + pi_c + udcpp_c
frdp_c + 8.0 ipdp_c --> 8.0 ppi_c + udcpdp_c
h2o_p + udcpdp_p --> h_p + pi_p + udcpp_p
udcpp_p --> udcpp_c
udpacgal_e <=> udpacgal_p
udpg_c <=> udpgal_c
udpgal_c --> udpgalfur_c
h2o_p + udpgal_p --> gal1p_p + 2.0 h_p + ump_p
udpgal_e <=> udpgal_p
h2o_c + 2.0 nad_c + udpg_c --> 3.0 h_c + 2.0 nadh_c + udpglcur_c
nad_c + udpglcur_c --> co2_c + nadh_c + udpLa4o_c
udpglcur_e <=> udpglcur_p
h2o_p + udpg_p --> g1p_p + 2.0 h_p + ump_p
udpg_e <=> udpg_p
glu__L_c + udpLa4o_c <=> akg_c + udpLa4n_c
h2o_p + udpglcur_p --> glcur1p_p + 2.0 h_p + ump_p
gal1p_c + udpg_c <=> g1p_c + udpgal_c
h2o_c + 2.0 h_c + urdglyc_c --> co2_c + glx_c + 2.0 nh4_c
alaala_c + atp_c + ugmd_c --> adp_c + h_c + pi_c + ugmda_c
h2o_c + u3aga_c --> ac_c + u3hga_c
10fthf_c + udpLa4n_c --> h_c + thf_c + udpLa4fn_c
uLa4n_c --> uLa4n_p
LalaDgluMdap_c + atp_c + uamr_c --> adp_c + h_c + pi_c + ugmd_c
h2o_c + um4p_c --> ala__D_c + ugmd_c
LalaDgluMdapDala_c + atp_c + uamr_c --> adp_c + h_c + pi_c + um4p_c
atp_c + ump_c <=> adp_c + udp_c
ump_e <=> ump_p
h2o_c + uLa4fn_c --> for_c + uLa4n_c
udcpp_c + udpLa4fn_c --> uLa4fn_c + udp_c
2.0 amet_c + uppg3_c --> 2.0 ahcys_c + dscl_c + h_c
hmbil_c --> h2o_c + uppg3_c
4.0 h_c + uppg3_c --> 4.0 co2_c + cpppg3_c
prpp_c + ura_c --> ppi_c + ump_c
h2o_c + uracp_c --> cbm_c + h_c + poaac_c
h_p + ura_p --> h_c + ura_c
h_p + ura_p <=> h_c + ura_c
ura_e <=> ura_p
nad_c + urdglyc_c --> h_c + nadh_c + oxur_c
urea_e <=> urea_p
urea_p <=> urea_c
2.0 h2o_c + o2_c + urate_c --> alltn_c + co2_c + h2o2_c
h2o_c + uri_c --> rib__D_c + ura_c
gtp_c + uri_c --> gdp_c + h_c + ump_c
h_p + uri_p --> h_c + uri_c
h_p + uri_p <=> h_c + uri_c
uri_e <=> uri_p
h2o_c + u23ga_c --> 2.0 h_c + lipidX_c + ump_c
akg_c + val__L_c <=> 3mob_c + glu__L_c
atp_c + trnaval_c + val__L_c --> amp_c + ppi_c + valtrna_c
atp_c + h2o_c + val__L_p --> adp_c + h_c + pi_c + val__L_c
h_p + val__L_p <=> h_c + val__L_c
val__L_e <=> val__L_p
3mob_c + ala__L_c <=> pyr_c + val__L_c
2.0 h_c + mptamp_c + tungs_c --> amp_c + cu2_c + h2o_c + wco_c
xu5p__L_c --> ru5p__L_c
h2o_c + nad_c + xan_c --> h_c + nadh_c + urate_c
h_p + xan_p --> h_c + xan_c
xan_e <=> xan_p
xan_p <=> xan_c
xmp_e <=> xmp_p
prpp_c + xan_c --> ppi_c + xmp_c
h2o_c + xtsn_c --> rib__D_c + xan_c
h_p + xtsn_p <=> h_c + xtsn_c
xtsn_e <=> xtsn_p
xyl__D_c <=> xylu__D_c
glc__D_c <=> fru_c
atp_c + xylu__D_c --> adp_c + h_c + xu5p__D_c
atp_c + xylu__L_c --> adp_c + h_c + xu5p__L_c
h_p + xylu__L_p --> h_c + xylu__L_c
xylu__L_e <=> xylu__L_p
atp_c + h2o_c + xyl__D_p --> adp_c + h_c + pi_c + xyl__D_c
h_p + xyl__D_p --> h_c + xyl__D_c
xyl__D_e <=> xyl__D_p
atp_c + h2o_c + zn2_c --> adp_c + h_c + pi_c + zn2_p
h_p + zn2_c --> h_c + zn2_p
zn2_p --> zn2_c
atp_c + h2o_c + zn2_p --> adp_c + h_c + pi_c + zn2_c
zn2_e <=> zn2_p
" ], "text/plain": [ "" ] }, "execution_count": 3, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "## Step 2: Simulate a model\n", "\n", "The model can be simulated by executing `~cameo.core.solver_based_model.SolverBasedModel.solve`." ] }, { "cell_type": "code", "execution_count": 4, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [], "source": [ "solution = model.solve()" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "A quick overview of the solution can be obtained in form of a pandas [DataFrame](http://pandas.pydata.org/pandas-docs/stable/generated/pandas.DataFrame.html) (all solution objects in cameo provide access to data frames through a `data_frame` attribute)." ] }, { "cell_type": "code", "execution_count": 5, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "
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fluxesreduced_costs
DM_4crsol_c0.0002190.000000
DM_5drib_c0.0002210.000000
DM_aacald_c-0.0000000.000000
DM_amob_c0.0000020.000000
.........
ZN2t3pp0.000000-0.002074
ZN2tpp0.0003350.000000
ZNabcpp0.000000-0.008295
Zn2tex0.000335-0.000000
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2583 rows × 2 columns

\n", "
" ], "text/plain": [ "" ] }, "execution_count": 5, "metadata": {}, "output_type": "execute_result" } ], "source": [ "solution" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "The data frame is accessible through `solution.data_frame`." ] }, { "cell_type": "code", "execution_count": 6, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "
\n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
fluxesreduced_costs
DM_4crsol_c0.0002190.000000
DM_5drib_c0.0002210.000000
DM_aacald_c-0.0000000.000000
DM_amob_c0.0000020.000000
.........
ZN2t3pp0.000000-0.002074
ZN2tpp0.0003350.000000
ZNabcpp0.000000-0.008295
Zn2tex0.000335-0.000000
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2583 rows × 2 columns

\n", "
" ], "text/plain": [ " fluxes reduced_costs\n", "DM_4crsol_c 0.000219 0.000000\n", "DM_5drib_c 0.000221 0.000000\n", "DM_aacald_c -0.000000 0.000000\n", "DM_amob_c 0.000002 0.000000\n", "... ... ...\n", "ZN2t3pp 0.000000 -0.002074\n", "ZN2tpp 0.000335 0.000000\n", "ZNabcpp 0.000000 -0.008295\n", "Zn2tex 0.000335 -0.000000\n", "\n", "[2583 rows x 2 columns]" ] }, "execution_count": 6, "metadata": {}, "output_type": "execute_result" } ], "source": [ "solution.data_frame" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "Data frames make it very easy to process results. For example, let's take a look at reactions with flux != 0" ] }, { "cell_type": "code", "execution_count": 7, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "
\n", "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
fluxesreduced_costs
DM_4crsol_c0.0002190.0
DM_5drib_c0.0002210.0
DM_amob_c0.0000020.0
DM_mththf_c0.0004400.0
.........
USHD0.0191130.0
VALTA-0.4157020.0
ZN2tpp0.0003350.0
Zn2tex0.000335-0.0
\n", "

438 rows × 2 columns

\n", "
" ], "text/plain": [ " fluxes reduced_costs\n", "DM_4crsol_c 0.000219 0.0\n", "DM_5drib_c 0.000221 0.0\n", "DM_amob_c 0.000002 0.0\n", "DM_mththf_c 0.000440 0.0\n", "... ... ...\n", "USHD 0.019113 0.0\n", "VALTA -0.415702 0.0\n", "ZN2tpp 0.000335 0.0\n", "Zn2tex 0.000335 -0.0\n", "\n", "[438 rows x 2 columns]" ] }, "execution_count": 7, "metadata": {}, "output_type": "execute_result" } ], "source": [ "solution.data_frame.query('fluxes != 0')" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "## Step 3: Exploring a model\n", "\n", "Objects—models, reactions, metabolites, genes—can easily be explored in the Jupyter notebook, taking advantage of tab completion. For example, place your cursor after the period in `model.reactions.` and press the TAB key. A dialog will appear that allows you to navigate the list of reactions encoded in the model. " ] }, { "cell_type": "code", "execution_count": 8, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
IdPGK
NamePhosphoglycerate kinase
Stoichiometry3pg_c + atp_c <=> 13dpg_c + adp_c
GPRb2926
Lower bound-1000.000000
Upper bound1000.000000
\n", " " ], "text/plain": [ "" ] }, "execution_count": 8, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.reactions.PGK # delete PGK, place your cursor after the period and press the TAB key." ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "For example, you can access the E4PD (_Erythrose 4-phosphate dehydrogenase_) reaction in the model." ] }, { "cell_type": "code", "execution_count": 9, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
IdE4PD
NameErythrose 4-phosphate dehydrogenase
Stoichiometrye4p_c + h2o_c + nad_c <=> 4per_c + 2.0 h_c + nadh_c
GPRb2927 or b1779
Lower bound-1000.000000
Upper bound1000.000000
\n", " " ], "text/plain": [ "" ] }, "execution_count": 9, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.reactions.E4PD" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "Be aware though that due variable naming restrictions in Python dot notation access to reactions (and other objects) might not work in some cases." ] }, { "cell_type": "code", "execution_count": 10, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [], "source": [ "# model.reactions.12DGR120tipp # uncommenting and running this cell will produce a syntax error" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "In these cases you need to use the `model.reactions.get_by_id`." ] }, { "cell_type": "code", "execution_count": 11, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
Id12DGR120tipp
Name1,2 diacylglycerol transport via flipping (periplasm to cytoplasm, n-C12:0)
Stoichiometry12dgr120_p --> 12dgr120_c
GPR
Lower bound0.000000
Upper bound1000.000000
\n", " " ], "text/plain": [ "" ] }, "execution_count": 11, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.reactions.get_by_id('12DGR120tipp')" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "Metabolites are accessible through `model.metabolites`. For example, D-glucose in the cytosolic compartment." ] }, { "cell_type": "code", "execution_count": 12, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "\n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", " \n", "
Idglc__D_c
NameD-Glucose
FormulaC6H12O6
" ], "text/plain": [ "" ] }, "execution_count": 12, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.metabolites.glc__D_c" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "And it is easy to find the associated reactions" ] }, { "cell_type": "code", "execution_count": 13, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/plain": [ "frozenset({,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " })" ] }, "execution_count": 13, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.metabolites.glc__D_c.reactions" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "A list of the genes encoded in the model can be accessed via `model.genes`." ] }, { "cell_type": "code", "execution_count": 14, "metadata": { "collapsed": false, "deletable": true, "editable": true, "scrolled": true }, "outputs": [ { "data": { "text/plain": [ "[,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ]" ] }, "execution_count": 14, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.genes[0:10]" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "A few additional attributes have been added that are not available in a [cobrapy](https://opencobra.github.io/cobrapy/) model. For example, exchange reactions that allow certain metabolites to enter or leave the model can be accessed through `model.exchanges`." ] }, { "cell_type": "code", "execution_count": 15, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/plain": [ "[,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ]" ] }, "execution_count": 15, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.exchanges[0:10]" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "Or, the current medium can be accessed through `model.medium`." ] }, { "cell_type": "code", "execution_count": 16, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/html": [ "
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reaction_idreaction_namelower_boundupper_bound
0EX_ca2_eCalcium exchange-1000.001000.0
1EX_cbl1_eCob(I)alamin exchange-0.011000.0
2EX_cl_eChloride exchange-1000.001000.0
3EX_co2_eCO2 exchange-1000.001000.0
...............
21EX_slnt_eSelenite exchange-1000.001000.0
22EX_so4_eSulfate exchange-1000.001000.0
23EX_tungs_eTungstate exchange-1000.001000.0
24EX_zn2_eZinc exchange-1000.001000.0
\n", "

25 rows × 4 columns

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" ], "text/plain": [ " reaction_id reaction_name lower_bound upper_bound\n", "0 EX_ca2_e Calcium exchange -1000.00 1000.0\n", "1 EX_cbl1_e Cob(I)alamin exchange -0.01 1000.0\n", "2 EX_cl_e Chloride exchange -1000.00 1000.0\n", "3 EX_co2_e CO2 exchange -1000.00 1000.0\n", ".. ... ... ... ...\n", "21 EX_slnt_e Selenite exchange -1000.00 1000.0\n", "22 EX_so4_e Sulfate exchange -1000.00 1000.0\n", "23 EX_tungs_e Tungstate exchange -1000.00 1000.0\n", "24 EX_zn2_e Zinc exchange -1000.00 1000.0\n", "\n", "[25 rows x 4 columns]" ] }, "execution_count": 16, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.medium" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "It is also possible to get a list of essential reactions ..." ] }, { "cell_type": "code", "execution_count": 17, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/plain": [ "[,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ]" ] }, "execution_count": 17, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.essential_reactions()[0:10]" ] }, { "cell_type": "markdown", "metadata": { "deletable": true, "editable": true }, "source": [ "... and essential genes." ] }, { "cell_type": "code", "execution_count": 18, "metadata": { "collapsed": false, "deletable": true, "editable": true }, "outputs": [ { "data": { "text/plain": [ "[,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ,\n", " ]" ] }, "execution_count": 18, "metadata": {}, "output_type": "execute_result" } ], "source": [ "model.essential_genes()[0:10]" ] } ], "metadata": { "anaconda-cloud": {}, "kernelspec": { "display_name": "Python 3", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.5.0" } }, "nbformat": 4, "nbformat_minor": 0 }