- Author:
- Hanne <Hanne@hanne-nielsens-macbook.local>
- Date:
- 2009-12-09 11:37:54+13:00
- Desc:
- Added images in ai and svg format, removed non pub med references
- Permanent Source URI:
- http://models.cellml.org/workspace/korzeniewski_zoladz_2001/rawfile/53d80f1e842860cb0828af9dd9171bdcfc678380/korzeniewski_zoladz_2001.cellml
<?xml version='1.0' encoding='utf-8'?>
<!-- FILE : oxidative_phosphorylation_2001_version02.xml
CREATED : 31st May 2007
LAST MODIFIED : 31st May 2007
AUTHOR : Catherine Lloyd
Department of Engineering Science
The University of Auckland
MODEL STATUS : This model conforms to the CellML 1.1 Specification.
DESCRIPTION : This file contains a CellML description of oxidative
phosphorylation based on Korzeniewski and Froncisz's mathematical model (1991).
This model was slightly altered in a subsequent paper (1996) and I have
incorporated some of these changes.
CHANGES:
--><model xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:cellml="http://www.cellml.org/cellml/1.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" cmeta:id="korzeniewski_zoladz_2001" name="korzeniewski_zoladz_2001">
<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
<articleinfo>
<title>Oxidative Phosphorylation</title>
<author>
<firstname>Catherine</firstname>
<surname>Lloyd</surname>
<affiliation>
<shortaffil>Bioengineering Institute, University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<section id="sec_status">
<title>Model Status</title>
<para>
This model is valid CellML but is overconstrained.
</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>
Oxidative phosphorylation in mitochondria is the main process responsible for the synthesis of ATP in most animal tissues under most conditions. The energy required for ATP synthesis in the mitochondria is released by substrate dehydrogenation in the TCA cycle and in the beta-oxidation of fatty acids. These substrate dehydrogenations are coupled to the reduction of the co-enzymes NAD+ or FAD in the mitochondrial matrix. The reduced forms of these co-enzymes (NADH and FADH2) are reoxidised by molecular oxygen using a series of electron carriers on the inner membrane known as the respiratory chain (see <xref linkend="fig_pathway_diagram"/> below).
</para>
<para>
In 1991, Bernard Korzeniewski and Wojciech Froncisz published a dynamic model of oxidative phosphorylation in isolated mitochondria. This model was further modified in 1992, in 1996 it was adapted to be specific to intact hepatocytes and in 2001 a model was developed for oxidative phosphorylation in mammalian skeletal muscle.
</para>
<para>
The complete original paper references are cited below:
</para>
<para>
An extended dynamic model of oxidative phosphorylation, Bernard Korzeniewski and Wojciech Froncisz, 1991, <ulink url="http://www.elsevier.com/gej-ng/29/50/show/">
<emphasis>Biochimica et Biophysica Acta.</emphasis>
</ulink> 1060, 210-223. <ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=1657162&dopt=Abstract">PubMed ID: 1657162</ulink>
</para>
<para>
<ulink url="http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TFB-3THMT1S-1&_coverDate=02%2F08%2F1996&_alid=185463291&_rdoc=1&_fmt=&_orig=search&_qd=1&_cdi=5222&_sort=d&view=c&_acct=C000011498&_version=1&_urlVersion=0&_userid=140507&md5=0d578e972f42b3ddba0363fbeec39d28">Simulation of oxidative phosphorylation in hepatocytes</ulink>, Bernard Korzeniewski, 1996, <ulink url="http://www.sciencedirect.com/science?_ob=JournalURL&_cdi=5222&auth=y&_acct=C000011498&_version=1&_urlVersion=0&_userid=140507&md5=7d06a1ef3b4293bc0633b8269aa54192">
<emphasis>Biophysical Chemistry</emphasis>
</ulink>, 58, 215-224. (A PDF version of the article is available to subscribers on the ScienceDirect website.) <ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8820407&dopt=Abstract">PubMed ID: 8820407</ulink>
</para>
<para>
<ulink url="http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TFB-43TFW7P-2&_user=140507&_coverDate=09%2F30%2F2001&_rdoc=2&_fmt=summary&_orig=browse&_srch=%23toc%235222%232001%23999079998%23262338!&_cdi=5222&_sort=d&_docanchor=&_acct=C000011498&_version=1&_urlVersion=0&_userid=140507&md5=a88826fbcc4712498b4ad724217c7870">A model of oxidative phosphorylation in mammalian skeletal muscle</ulink>, Bernard Korzeniewski and Jerzy A. Zoladz, 2001, <ulink url="http://www.sciencedirect.com/science?_ob=JournalURL&_issn=03014622&_auth=y&_acct=C000011498&_version=1&_urlVersion=0&_userid=140507&md5=117558bb3d44f7d93b6110bc8d8d0b2d">
<emphasis>Biophysical Chemistry</emphasis>
</ulink>, 92, 17-34. (The <ulink url="http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TFB-43TFW7P-2&_user=140507&_coverDate=09%2F30%2F2001&_rdoc=2&_fmt=full&_orig=browse&_srch=%23toc%235222%232001%23999079998%23262338!&_cdi=5222&_sort=d&_acct=C000011498&_version=1&_urlVersion=0&_userid=140507&md5=579180314d91930498afe4efd30633fb">full text (HTML)</ulink> and <ulink url="http://www.sciencedirect.com/science?_ob=MImg&_imagekey=B6TFB-43TFW7P-2-1F&_cdi=5222&_orig=browse&_coverDate=09%2F30%2F2001&_sk=999079998&wchp=dGLStV-lSzBA&_acct=C000011498&_version=1&_userid=140507&md5=d7b67e936c09e132c5a3e1874d121f09&ie=f.pdf">PDF</ulink> versions of the article are available on the ScienceDirect website.) <ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11527576&dopt=Abstract">PubMed ID: 11527576</ulink>
</para>
<para>
The raw CellML description of the oxidative phosphorylation model can be downloaded in various formats as described in <xref linkend="sec_download_this_model"/>. For an example of a more complete documentation of another real reaction pathway, see <ulink url="${HTML_EXMPL_BI_EGF_INTRO}">The Bhalla Iyengar EGF Pathway Model, 1999</ulink>.
</para>
<informalfigure float="0" id="fig_pathway_diagram">
<mediaobject>
<imageobject>
<objectinfo>
<title>the conventional rendering of oxidative phosphorylation</title>
</objectinfo>
<imagedata fileref="korzeniewski_2001.png"/>
</imageobject>
</mediaobject>
<caption>A rendering of oxidative phosphorylation. Metabolites are represented by rounded rectangles, catalysts are represented by ellipses and reactions and metabolite translocations are represented by arrows.</caption>
</informalfigure>
<para>
In CellML, models are thought of as connected networks of discrete components. These components may correspond to physiologically separated regions or chemically distinct objects, or may be useful modelling abstractions. This model has 62 components representing chemically distinct objects (metabolites, enzymes and reactions) and two components defined for modeling convenience; global variables which stores the universal variable time, and cell which defines a number of cell specific features. Because this model has so many components, its CellML rendering would be complex. For an example of a CellML rendering of a reaction pathway see <ulink url="${HTML_EXMPL_BI_EGF_INTRO}">The Bhalla Iyengar EGF Pathway Model, 1999</ulink>.
</para>
</sect1>
</article>
</documentation>
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</apply>
<apply>
<times/>
<ci>u</ci>
<ci>vEX</ci>
</apply>
<apply>
<times/>
<apply>
<minus/>
<cn cellml:units="dimensionless">1.0</cn>
<ci>u</ci>
</apply>
<ci>vPI</ci>
</apply>
<ci>vLK</ci>
</apply>
</apply>
<ci>R_cm</ci>
</apply>
<ci>r_buffi</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="He" name="He">
<variable units="micromolar" public_interface="out" name="He"/>
<variable units="dimensionless" public_interface="in" name="r_buffe"/>
<variable units="dimensionless" public_interface="in" name="u"/>
<variable units="dimensionless" public_interface="in" name="nA"/>
<variable units="flux" public_interface="in" name="vC4"/>
<variable units="flux" public_interface="in" name="vC1"/>
<variable units="flux" public_interface="in" name="vC3"/>
<variable units="flux" public_interface="in" name="vCK"/>
<variable units="flux" public_interface="in" name="vEFF"/>
<variable units="flux" public_interface="in" name="vSN"/>
<variable units="flux" public_interface="in" name="vEX"/>
<variable units="flux" public_interface="in" name="vPI"/>
<variable units="flux" public_interface="in" name="vLK"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="7">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>He</ci>
</apply>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<times/>
<cn cellml:units="dimensionless">2.0</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">2.0</cn>
<apply>
<times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>u</ci>
</apply>
</apply>
<ci>vC4</ci>
</apply>
<apply>
<times/>
<apply>
<minus/>
<cn cellml:units="dimensionless">4.0</cn>
<apply>
<times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>u</ci>
</apply>
</apply>
<ci>vC3</ci>
</apply>
<apply>
<times/>
<cn cellml:units="dimensionless">4.0</cn>
<ci>vC1</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci>nA</ci>
<ci>vSN</ci>
</apply>
<apply>
<times/>
<ci>u</ci>
<ci>vEX</ci>
</apply>
<apply>
<times/>
<apply>
<minus/>
<cn cellml:units="dimensionless">1.0</cn>
<ci>u</ci>
</apply>
<ci>vPI</ci>
</apply>
<ci>vLK</ci>
<ci>vCK</ci>
<ci>vEFF</ci>
</apply>
</apply>
<ci>r_buffe</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ADP_mi" name="ADP_mi">
<variable units="micromolar" public_interface="out" name="ADP_mi"/>
<variable units="micromolar" public_interface="in" name="ADP_ti"/>
<variable units="micromolar" public_interface="in" name="ADP_fi"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="8">
<apply>
<eq/>
<ci>ADP_mi</ci>
<apply>
<minus/>
<ci>ADP_ti</ci>
<ci>ADP_fi</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ADP_fi" name="ADP_fi">
<variable units="micromolar" public_interface="out" name="ADP_fi"/>
<variable units="micromolar" name="kDDi" initial_value="282"/>
<variable units="micromolar" public_interface="in" name="ADP_ti"/>
<variable units="micromolar" public_interface="in" name="Mg_fi"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="9">
<apply>
<eq/>
<ci>ADP_fi</ci>
<apply>
<divide/>
<ci>ADP_ti</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci>Mg_fi</ci>
<ci>kDDi</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ADP_ti" name="ADP_ti">
<variable units="micromolar" public_interface="out" name="ADP_ti"/>
<variable units="micromolar" name="Ai_SUM" initial_value="16260.0"/>
<variable units="micromolar" public_interface="in" name="ATP_ti"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="10">
<apply>
<eq/>
<ci>ADP_ti</ci>
<apply>
<minus/>
<ci>Ai_SUM</ci>
<ci>ATP_ti</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ATP_mi" name="ATP_mi">
<variable units="micromolar" public_interface="out" name="ATP_mi"/>
<variable units="micromolar" public_interface="in" name="ATP_ti"/>
<variable units="micromolar" public_interface="in" name="ATP_fi"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="11">
<apply>
<eq/>
<ci>ATP_mi</ci>
<apply>
<minus/>
<ci>ATP_ti</ci>
<ci>ATP_fi</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ATP_fi" name="ATP_fi">
<variable units="micromolar" public_interface="out" name="ATP_fi"/>
<variable units="micromolar" name="kDTi" initial_value="17"/>
<variable units="micromolar" public_interface="in" name="ATP_ti"/>
<variable units="micromolar" public_interface="in" name="Mg_fi"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="12">
<apply>
<eq/>
<ci>ATP_fi</ci>
<apply>
<divide/>
<ci>ATP_ti</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci>Mg_fi</ci>
<ci>kDTi</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ATP_ti" name="ATP_ti">
<variable units="micromolar" public_interface="out" name="ATP_ti"/>
<variable units="dimensionless" public_interface="in" name="R_cm"/>
<variable units="flux" public_interface="in" name="vSN"/>
<variable units="flux" public_interface="in" name="vEX"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="13">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ATP_ti</ci>
</apply>
<apply>
<times/>
<apply>
<minus/>
<ci>vSN</ci>
<ci>vEX</ci>
</apply>
<ci>R_cm</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ADP_me" name="ADP_me">
<variable units="micromolar" public_interface="out" name="ADP_me"/>
<variable units="micromolar" public_interface="in" name="ADP_te"/>
<variable units="micromolar" public_interface="in" name="ADP_fe"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="14">
<apply>
<eq/>
<ci>ADP_me</ci>
<apply>
<minus/>
<ci>ADP_te</ci>
<ci>ADP_fe</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ADP_fe" name="ADP_fe">
<variable units="micromolar" public_interface="out" name="ADP_fe"/>
<variable units="micromolar" name="kDDe" initial_value="347"/>
<variable units="micromolar" public_interface="in" name="ADP_te"/>
<variable units="micromolar" public_interface="in" name="Mg_fe"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="15">
<apply>
<eq/>
<ci>ADP_fe</ci>
<apply>
<divide/>
<ci>ADP_te</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci>Mg_fe</ci>
<ci>kDDe</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ADP_te" name="ADP_te">
<variable units="micromolar" public_interface="out" name="ADP_te"/>
<variable units="flux" public_interface="in" name="vUT"/>
<variable units="flux" public_interface="in" name="vEX"/>
<variable units="flux" public_interface="in" name="vAK"/>
<variable units="flux" public_interface="in" name="vCK"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="16">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ADP_te</ci>
</apply>
<apply>
<minus/>
<ci>vUT</ci>
<apply>
<plus/>
<ci>vEX</ci>
<apply>
<times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>vAK</ci>
</apply>
<ci>vCK</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ATP_me" name="ATP_me">
<variable units="micromolar" public_interface="out" name="ATP_me"/>
<variable units="micromolar" public_interface="in" name="ATP_te"/>
<variable units="micromolar" public_interface="in" name="ATP_fe"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="17">
<apply>
<eq/>
<ci>ATP_me</ci>
<apply>
<minus/>
<ci>ATP_te</ci>
<ci>ATP_fe</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ATP_fe" name="ATP_fe">
<variable units="micromolar" public_interface="out" name="ATP_fe"/>
<variable units="micromolar" name="kDTe" initial_value="24"/>
<variable units="micromolar" public_interface="in" name="ATP_te"/>
<variable units="micromolar" public_interface="in" name="Mg_fe"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="18">
<apply>
<eq/>
<ci>ATP_fe</ci>
<apply>
<divide/>
<ci>ATP_te</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci>Mg_fe</ci>
<ci>kDTe</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="ATP_te" name="ATP_te">
<variable units="micromolar" public_interface="out" name="ATP_te"/>
<variable units="flux" public_interface="in" name="vUT"/>
<variable units="flux" public_interface="in" name="vEX"/>
<variable units="flux" public_interface="in" name="vAK"/>
<variable units="flux" public_interface="in" name="vCK"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="19">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ATP_te</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<ci>vEX</ci>
<ci>vAK</ci>
<ci>vCK</ci>
</apply>
<ci>vUT</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="AMP_e" name="AMP_e">
<variable units="micromolar" public_interface="out" name="AMP_e"/>
<variable units="micromolar" name="Ae_SUM" initial_value="1600.2"/>
<variable units="micromolar" public_interface="in" name="ATP_te"/>
<variable units="micromolar" public_interface="in" name="ADP_te"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="20">
<apply>
<eq/>
<ci>AMP_e</ci>
<apply>
<minus/>
<ci>Ae_SUM</ci>
<apply>
<plus/>
<ci>ATP_te</ci>
<ci>ADP_te</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="Cr" name="Cr">
<variable units="micromolar" public_interface="out" name="Cr"/>
<variable units="micromolar" name="C_SUM" initial_value="35000.0"/>
<variable units="micromolar" public_interface="in" name="PCr"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="21">
<apply>
<eq/>
<ci>Cr</ci>
<apply>
<minus/>
<ci>C_SUM</ci>
<ci>PCr</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="PCr" name="PCr">
<variable units="micromolar" public_interface="out" name="PCr"/>
<variable units="flux" public_interface="in" name="vCK"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="22">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>PCr</ci>
</apply>
<apply>
<minus/>
<ci>vCK</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="Pi_ji" name="Pi_ji">
<variable units="micromolar" public_interface="out" name="Pi_ji"/>
<variable units="micromolar" public_interface="in" name="Pi_ti"/>
<variable units="dimensionless" public_interface="in" name="pH_i"/>
<variable units="dimensionless" public_interface="in" name="pKa"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="23">
<apply>
<eq/>
<ci>Pi_ji</ci>
<apply>
<divide/>
<ci>Pi_ti</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<power/>
<cn cellml:units="dimensionless">10.0</cn>
<apply>
<minus/>
<ci>pH_i</ci>
<ci>pKa</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="Pi_je" name="Pi_je">
<variable units="micromolar" public_interface="out" name="Pi_je"/>
<variable units="micromolar" public_interface="in" name="Pi_te"/>
<variable units="dimensionless" public_interface="in" name="pH_e"/>
<variable units="dimensionless" public_interface="in" name="pKa"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="24">
<apply>
<eq/>
<ci>Pi_je</ci>
<apply>
<divide/>
<ci>Pi_te</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<power/>
<cn cellml:units="dimensionless">10.0</cn>
<apply>
<minus/>
<ci>pH_e</ci>
<ci>pKa</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="Pi_ti" name="Pi_ti">
<variable units="micromolar" public_interface="out" name="Pi_ti"/>
<variable units="flux" public_interface="in" name="vPI"/>
<variable units="flux" public_interface="in" name="vSN"/>
<variable units="dimensionless" public_interface="in" name="R_cm"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="25">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Pi_ti</ci>
</apply>
<apply>
<times/>
<apply>
<minus/>
<ci>vPI</ci>
<ci>vSN</ci>
</apply>
<ci>R_cm</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="Pi_te" name="Pi_te">
<variable units="micromolar" public_interface="out" name="Pi_te"/>
<variable units="flux" public_interface="in" name="vUT"/>
<variable units="flux" public_interface="in" name="vPI"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="26">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Pi_te</ci>
</apply>
<apply>
<minus/>
<ci>vUT</ci>
<ci>vPI</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="Mg_fe" name="Mg_fe">
<variable units="micromolar" public_interface="out" name="Mg_fe" initial_value="4000.0"/>
</component>
<component cmeta:id="Mg_fi" name="Mg_fi">
<variable units="micromolar" public_interface="out" name="Mg_fi" initial_value="380.0"/>
</component>
<component cmeta:id="P_SUM" name="P_SUM">
<variable units="micromolar" public_interface="out" name="P_SUM"/>
<variable units="micromolar" public_interface="in" name="Pi_ti"/>
<variable units="micromolar" public_interface="in" name="Pi_te"/>
<variable units="micromolar" public_interface="in" name="PCr"/>
<variable units="micromolar" public_interface="in" name="ATP_te"/>
<variable units="micromolar" public_interface="in" name="ADP_te"/>
<variable units="micromolar" public_interface="in" name="AMP_e"/>
<variable units="micromolar" public_interface="in" name="ATP_ti"/>
<variable units="micromolar" public_interface="in" name="ADP_ti"/>
<variable units="dimensionless" public_interface="in" name="R_cm"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="27">
<apply>
<eq/>
<ci>P_SUM</ci>
<apply>
<plus/>
<ci>PCr</ci>
<apply>
<times/>
<ci>ATP_te</ci>
<cn cellml:units="dimensionless">3.0</cn>
</apply>
<apply>
<times/>
<ci>ADP_te</ci>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
<ci>AMP_e</ci>
<ci>Pi_te</ci>
<apply>
<divide/>
<apply>
<plus/>
<apply>
<times/>
<ci>ATP_ti</ci>
<cn cellml:units="dimensionless">3.0</cn>
</apply>
<apply>
<times/>
<ci>ADP_ti</ci>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
<ci>Pi_ti</ci>
</apply>
<ci>R_cm</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="c_2" name="c_2">
<variable units="micromolar" public_interface="out" name="c_2"/>
<variable units="dimensionless" public_interface="in" name="R_cm"/>
<variable units="flux" public_interface="in" name="vC3"/>
<variable units="flux" public_interface="in" name="vC4"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="28">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>c_2</ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci>vC3</ci>
<apply>
<times/>
<ci>vC4</ci>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
<ci>R_cm</ci>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
</math>
</component>
<component cmeta:id="c_3" name="c_3">
<variable units="micromolar" public_interface="out" name="c_3"/>
<variable units="micromolar" name="ct" initial_value="270.0"/>
<variable units="micromolar" public_interface="in" name="c_2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="29">
<apply>
<eq/>
<ci>c_3</ci>
<apply>
<minus/>
<ci>ct</ci>
<ci>c_2</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="UQ" name="UQ">
<variable units="micromolar" public_interface="out" name="UQ"/>
<variable units="micromolar" name="Ut" initial_value="1350.0"/>
<variable units="micromolar" public_interface="in" name="UQH2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" id="30">
<apply>
<eq/>
<ci>UQ</ci>
<apply>
<minus/>
<ci>Ut</ci>
<ci>UQH2</ci>
</apply>
</apply>
</math>
</component>
<component cmeta:id="UQH2" name="UQH2">
<variable units="micromolar" public_interface="out" name="UQH2"/>
<variable units="dimensionless" public_interface="in" name="R_cm"/>
<variable units="flux" public_interface="in" name="vC1"/>
<variable units="flux" public_interface="in" name="vC3"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>UQH2</ci>
</apply>
<apply>
<times/>
<ci>R_cm</ci>
<apply>
<minus/>
<ci>vC1</ci>
<ci>vC3</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="a_2" name="a_2">
<variable units="micromolar" public_interface="out" name="a_2"/>
<variable units="dimensionless" name="A3_2"/>
<variable units="millivolt" name="Ema0" initial_value="540.0"/>
<variable units="micromolar" public_interface="out" name="at" initial_value="135.0"/>
<variable units="millivolt" public_interface="in" name="Ema"/>
<variable units="millivolt" public_interface="in" name="Z"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>a_2</ci>
</apply>
<apply>
<divide/>
<ci>at</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<ci>A3_2</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>A3_2</ci>
<apply>
<power/>
<cn cellml:units="dimensionless">10.0</cn>
<apply>
<divide/>
<apply>
<minus/>
<ci>Ema</ci>
<ci>Ema0</ci>
</apply>
<ci>Z</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="a_3" name="a_3">
<variable units="micromolar" public_interface="out" name="a_3"/>
<variable units="micromolar" public_interface="in" name="at"/>
<variable units="micromolar" public_interface="in" name="a_2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>a_3</ci>
<apply>
<minus/>
<ci>at</ci>
<ci>a_2</ci>
</apply>
</apply>
</math>
</component>
<component name="vDH">
<variable units="flux" public_interface="out" name="vDH"/>
<variable units="flux" name="kDH" initial_value="28074"/>
<variable units="micromolar" name="KmN" initial_value="100.0"/>
<variable units="dimensionless" name="pD" initial_value="0.8"/>
<variable units="micromolar" public_interface="in" name="NAD"/>
<variable units="micromolar" public_interface="in" name="NADH"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> vDH </ci>
<apply>
<times/>
<ci> kDH </ci>
<apply>
<divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<power/>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci> KmN </ci>
<apply>
<divide/>
<ci> NAD </ci>
<ci> NADH </ci>
</apply>
</apply>
</apply>
<ci> pD </ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vC1">
<variable units="flux" public_interface="out" name="vC1"/>
<variable units="flux" name="kC1" initial_value="238.95"/>
<variable units="millivolt" name="delta_GC1"/>
<variable units="millivolt" public_interface="in" name="EmN"/>
<variable units="millivolt" public_interface="in" name="EmU"/>
<variable units="millivolt" public_interface="in" name="protonmotive_force"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> vC1 </ci>
<apply>
<times/>
<ci> kC1 </ci>
<ci> delta_GC1 </ci>
</apply>
</apply>
<apply>
<eq/>
<ci>delta_GC1</ci>
<apply>
<minus/>
<ci> EmU </ci>
<apply>
<plus/>
<ci> EmN </ci>
<apply>
<times/>
<ci>protonmotive_force</ci>
<apply>
<divide/>
<cn cellml:units="dimensionless">4.0</cn>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vC3">
<variable units="flux" public_interface="out" name="vC3"/>
<variable units="flux" name="kC3" initial_value="136.41"/>
<variable units="millivolt" name="delta_GC3"/>
<variable units="millivolt" public_interface="in" name="Emc"/>
<variable units="dimensionless" public_interface="in" name="u"/>
<variable units="millivolt" public_interface="in" name="EmU"/>
<variable units="millivolt" public_interface="in" name="protonmotive_force"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> vC3 </ci>
<apply>
<times/>
<ci> kC3 </ci>
<ci> delta_GC3 </ci>
</apply>
</apply>
<apply>
<eq/>
<ci>delta_GC3</ci>
<apply>
<minus/>
<ci> Emc </ci>
<apply>
<plus/>
<ci> EmU </ci>
<apply>
<times/>
<ci>protonmotive_force</ci>
<apply>
<divide/>
<apply>
<minus/>
<cn cellml:units="dimensionless">4.0</cn>
<apply>
<times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci> u </ci>
</apply>
</apply>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vC4">
<variable units="flux" public_interface="out" name="vC4"/>
<variable units="flux" name="kC4" initial_value="136.41"/>
<variable units="micromolar" name="KmO" initial_value="120.0"/>
<variable units="micromolar" public_interface="in" name="O2"/>
<variable units="micromolar" public_interface="in" name="c_2"/>
<variable units="micromolar" public_interface="in" name="a_2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> vC4 </ci>
<apply>
<times/>
<ci> kC4 </ci>
<ci> a_2 </ci>
<ci> c_2 </ci>
<apply>
<divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci> KmO </ci>
<ci> O2 </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vSN">
<variable units="flux" public_interface="out" name="vSN"/>
<variable units="dimensionless" public_interface="out" name="nA" initial_value="2.5"/>
<variable units="flux" name="kSN" initial_value="34316.0"/>
<variable units="millivolt" name="delta_GSN"/>
<variable units="kilojoule_per_mole" name="delta_Gp"/>
<variable units="kilojoule_per_mole" name="delta_Gp0" initial_value="31.9"/>
<variable units="dimensionless" name="gamma"/>
<variable units="millivolt" public_interface="in" name="Z"/>
<variable units="millivolt" public_interface="in" name="Emc"/>
<variable units="dimensionless" public_interface="in" name="u"/>
<variable units="millivolt" public_interface="in" name="EmU"/>
<variable units="millivolt" public_interface="in" name="protonmotive_force"/>
<variable units="micromolar" public_interface="in" name="ATP_ti"/>
<variable units="micromolar" public_interface="in" name="ADP_ti"/>
<variable units="micromolar" public_interface="in" name="Pi_ti"/>
<variable units="kilojoule_per_mole_millivolt" public_interface="in" name="F"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> vSN </ci>
<apply>
<times/>
<ci> kSN </ci>
<apply>
<divide/>
<apply>
<minus/>
<ci> gamma </ci>
<cn cellml:units="dimensionless">1.0</cn>
</apply>
<apply>
<plus/>
<ci> gamma </ci>
<cn cellml:units="dimensionless">1.0</cn>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci> gamma </ci>
<apply>
<power/>
<cn cellml:units="dimensionless">10.0</cn>
<apply>
<divide/>
<ci> delta_GSN </ci>
<ci> Z </ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>delta_GSN</ci>
<apply>
<minus/>
<apply>
<times/>
<ci> nA </ci>
<ci>protonmotive_force</ci>
</apply>
<ci>delta_Gp</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>delta_Gp</ci>
<apply>
<divide/>
<ci> delta_Gp0 </ci>
<apply>
<plus/>
<ci> F </ci>
<apply>
<times/>
<ci> Z </ci>
<apply>
<log/>
<apply>
<times/>
<cn cellml:units="dimensionless">1000000.0</cn>
<apply>
<divide/>
<ci> ATP_ti </ci>
<apply>
<times/>
<ci> ADP_ti </ci>
<ci> Pi_ti </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vEX">
<variable units="flux" public_interface="out" name="vEX"/>
<variable units="millivolt" public_interface="in" name="Z"/>
<variable units="micromolar" public_interface="in" name="ATP_fi"/>
<variable units="micromolar" public_interface="in" name="ADP_fe"/>
<variable units="micromolar" public_interface="in" name="ADP_fi"/>
<variable units="micromolar" public_interface="in" name="ATP_fe"/>
<variable units="millivolt" public_interface="in" name="in_membrane_potential"/>
<variable units="flux" name="kEX" initial_value="54572"/>
<variable units="micromolar" name="km_ADP" initial_value="3.5"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vEX</ci>
<apply>
<times/>
<ci>kEX</ci>
<apply>
<minus/>
<apply>
<divide/>
<ci>ADP_fe</ci>
<apply>
<plus/>
<ci>ADP_fe</ci>
<apply>
<times/>
<ci>ATP_fe</ci>
<apply>
<power/>
<cn cellml:units="dimensionless">10.0</cn>
<apply>
<divide/>
<apply>
<minus/>
<ci>in_membrane_potential</ci>
</apply>
<ci>Z</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<divide/>
<ci>ADP_fi</ci>
<apply>
<plus/>
<ci>ADP_fi</ci>
<apply>
<times/>
<ci>ATP_fi</ci>
<apply>
<power/>
<cn cellml:units="dimensionless">10.0</cn>
<apply>
<divide/>
<apply>
<minus/>
<ci>in_membrane_potential</ci>
</apply>
<ci>Z</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci>km_ADP</ci>
<ci>ADP_fe</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vUT">
<variable units="flux" public_interface="out" name="vUT"/>
<variable units="micromolar" public_interface="in" name="ATP_te"/>
<variable units="micromolar" name="km_A" initial_value="150.0"/>
<variable units="flux" name="kUT" initial_value="686.5"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vUT</ci>
<apply>
<times/>
<ci>kUT</ci>
<apply>
<divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<divide/>
<ci>km_A</ci>
<ci>ATP_te</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vAK">
<variable units="flux" public_interface="out" name="vAK"/>
<variable units="micromolar" public_interface="in" name="ADP_fe"/>
<variable units="micromolar" public_interface="in" name="ADP_me"/>
<variable units="micromolar" public_interface="in" name="ATP_me"/>
<variable units="micromolar" public_interface="in" name="AMP_e"/>
<variable units="second_order_rate_constant" name="kf_AK" initial_value="862.10"/>
<variable units="second_order_rate_constant" name="kb_AK" initial_value="22.747"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vAK</ci>
<apply>
<minus/>
<apply>
<times/>
<ci>kf_AK</ci>
<ci>ADP_me</ci>
<ci>ADP_fe</ci>
</apply>
<apply>
<times/>
<ci>kb_AK</ci>
<ci>ATP_me</ci>
<ci>AMP_e</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vLK">
<variable units="flux" public_interface="out" name="vLK"/>
<variable units="flux" name="kL1" initial_value="2.5"/>
<variable units="per_millivolt" name="kL2" initial_value="0.038"/>
<variable units="millivolt" public_interface="in" name="protonmotive_force"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vLK</ci>
<apply>
<times/>
<ci>kL1</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<times/>
<ci>kL2</ci>
<ci>protonmotive_force</ci>
</apply>
</apply>
<cn cellml:units="dimensionless">1.0</cn>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vPI">
<variable units="flux" public_interface="out" name="vPI"/>
<variable units="micromolar" public_interface="in" name="Pi_je"/>
<variable units="micromolar" public_interface="in" name="He"/>
<variable units="micromolar" public_interface="in" name="Pi_ji"/>
<variable units="micromolar" public_interface="in" name="Hi"/>
<variable units="second_order_rate_constant" name="kPI" initial_value="69.421"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vPI</ci>
<apply>
<times/>
<ci>kPI</ci>
<apply>
<minus/>
<apply>
<times/>
<ci>He</ci>
<ci>Pi_je</ci>
</apply>
<apply>
<times/>
<ci>Hi</ci>
<ci>Pi_ji</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vCK">
<variable units="flux" public_interface="out" name="vCK"/>
<variable units="micromolar" public_interface="in" name="ATP_te"/>
<variable units="micromolar" public_interface="in" name="He"/>
<variable units="micromolar" public_interface="in" name="ADP_te"/>
<variable units="micromolar" public_interface="in" name="Cr"/>
<variable units="micromolar" public_interface="in" name="PCr"/>
<variable units="third_order_rate_constant" name="kf_CK" initial_value="1.9258"/>
<variable units="second_order_rate_constant" name="kb_CK" initial_value="0.00087538"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vCK</ci>
<apply>
<minus/>
<apply>
<times/>
<ci>kf_CK</ci>
<ci>ADP_te</ci>
<ci>PCr</ci>
<ci>He</ci>
</apply>
<apply>
<times/>
<ci>kb_CK</ci>
<ci>ATP_te</ci>
<ci>Cr</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="vEFF">
<variable units="flux" public_interface="out" name="vEFF"/>
<variable units="dimensionless" public_interface="in" name="pH_e"/>
<variable units="dimensionless" name="pH_o" initial_value="7.0"/>
<variable units="flux" name="k_EFF" initial_value="1.9258"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>vEFF</ci>
<apply>
<times/>
<ci>k_EFF</ci>
<apply>
<minus/>
<ci>pH_o</ci>
<ci>pH_e</ci>
</apply>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_2="vDH" component_1="NAD"/>
<map_variables variable_2="NAD" variable_1="NAD"/>
</connection>
<connection>
<map_components component_2="redox_potentials" component_1="NAD"/>
<map_variables variable_2="NAD" variable_1="NAD"/>
</connection>
<connection>
<map_components component_2="NADH" component_1="NAD"/>
<map_variables variable_2="NADH" variable_1="NADH"/>
</connection>
<connection>
<map_components component_2="vDH" component_1="NADH"/>
<map_variables variable_2="NADH" variable_1="NADH"/>
<map_variables variable_2="vDH" variable_1="vDH"/>
</connection>
<connection>
<map_components component_2="redox_potentials" component_1="NADH"/>
<map_variables variable_2="NADH" variable_1="NADH"/>
</connection>
<connection>
<map_components component_2="vC1" component_1="NADH"/>
<map_variables variable_2="vC1" variable_1="vC1"/>
</connection>
<connection>
<map_components component_2="cell" component_1="NADH"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
<map_variables variable_2="BN" variable_1="BN"/>
</connection>
<connection>
<map_components component_2="vC1" component_1="He"/>
<map_variables variable_2="vC1" variable_1="vC1"/>
</connection>
<connection>
<map_components component_2="vC1" component_1="Hi"/>
<map_variables variable_2="vC1" variable_1="vC1"/>
</connection>
<connection>
<map_components component_2="vC1" component_1="UQH2"/>
<map_variables variable_2="vC1" variable_1="vC1"/>
</connection>
<connection>
<map_components component_2="vC1" component_1="redox_potentials"/>
<map_variables variable_2="EmN" variable_1="EmN"/>
<map_variables variable_2="EmU" variable_1="EmU"/>
</connection>
<connection>
<map_components component_2="vC1" component_1="cell"/>
<map_variables variable_2="protonmotive_force" variable_1="protonmotive_force"/>
</connection>
<connection>
<map_components component_2="vC3" component_1="He"/>
<map_variables variable_2="vC3" variable_1="vC3"/>
</connection>
<connection>
<map_components component_2="vC3" component_1="Hi"/>
<map_variables variable_2="vC3" variable_1="vC3"/>
</connection>
<connection>
<map_components component_2="vC3" component_1="UQH2"/>
<map_variables variable_2="vC3" variable_1="vC3"/>
</connection>
<connection>
<map_components component_2="vC3" component_1="redox_potentials"/>
<map_variables variable_2="Emc" variable_1="Emc"/>
<map_variables variable_2="EmU" variable_1="EmU"/>
</connection>
<connection>
<map_components component_2="vC3" component_1="cell"/>
<map_variables variable_2="protonmotive_force" variable_1="protonmotive_force"/>
<map_variables variable_2="u" variable_1="u"/>
</connection>
<connection>
<map_components component_2="vC3" component_1="c_2"/>
<map_variables variable_2="vC3" variable_1="vC3"/>
</connection>
<connection>
<map_components component_2="vC4" component_1="He"/>
<map_variables variable_2="vC4" variable_1="vC4"/>
</connection>
<connection>
<map_components component_2="vC4" component_1="Hi"/>
<map_variables variable_2="vC4" variable_1="vC4"/>
</connection>
<connection>
<map_components component_2="vC4" component_1="c_2"/>
<map_variables variable_2="c_2" variable_1="c_2"/>
<map_variables variable_2="vC4" variable_1="vC4"/>
</connection>
<connection>
<map_components component_2="vC4" component_1="a_2"/>
<map_variables variable_2="a_2" variable_1="a_2"/>
</connection>
<connection>
<map_components component_2="vC4" component_1="O2"/>
<map_variables variable_2="O2" variable_1="O2"/>
<map_variables variable_2="vC4" variable_1="vC4"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="He"/>
<map_variables variable_2="vEX" variable_1="vEX"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="Hi"/>
<map_variables variable_2="vEX" variable_1="vEX"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ATP_fi"/>
<map_variables variable_2="ATP_fi" variable_1="ATP_fi"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ADP_fi"/>
<map_variables variable_2="ADP_fi" variable_1="ADP_fi"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="cell"/>
<map_variables variable_2="in_membrane_potential" variable_1="in_membrane_potential"/>
<map_variables variable_2="Z" variable_1="Z"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ADP_te"/>
<map_variables variable_2="vEX" variable_1="vEX"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ATP_te"/>
<map_variables variable_2="vEX" variable_1="vEX"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ATP_ti"/>
<map_variables variable_2="vEX" variable_1="vEX"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ADP_fe"/>
<map_variables variable_2="ADP_fe" variable_1="ADP_fe"/>
</connection>
<connection>
<map_components component_2="vEX" component_1="ATP_fe"/>
<map_variables variable_2="ATP_fe" variable_1="ATP_fe"/>
</connection>
<connection>
<map_components component_2="vUT" component_1="ATP_te"/>
<map_variables variable_2="ATP_te" variable_1="ATP_te"/>
<map_variables variable_2="vUT" variable_1="vUT"/>
</connection>
<connection>
<map_components component_2="vUT" component_1="ADP_te"/>
<map_variables variable_2="vUT" variable_1="vUT"/>
</connection>
<connection>
<map_components component_2="vUT" component_1="Pi_te"/>
<map_variables variable_2="vUT" variable_1="vUT"/>
</connection>
<connection>
<map_components component_2="vPI" component_1="He"/>
<map_variables variable_2="vPI" variable_1="vPI"/>
<map_variables variable_2="He" variable_1="He"/>
</connection>
<connection>
<map_components component_2="vPI" component_1="Hi"/>
<map_variables variable_2="vPI" variable_1="vPI"/>
<map_variables variable_2="Hi" variable_1="Hi"/>
</connection>
<connection>
<map_components component_2="vPI" component_1="Pi_ti"/>
<map_variables variable_2="vPI" variable_1="vPI"/>
</connection>
<connection>
<map_components component_2="vPI" component_1="Pi_te"/>
<map_variables variable_2="vPI" variable_1="vPI"/>
</connection>
<connection>
<map_components component_2="vPI" component_1="Pi_ji"/>
<map_variables variable_2="Pi_ji" variable_1="Pi_ji"/>
</connection>
<connection>
<map_components component_2="vPI" component_1="Pi_je"/>
<map_variables variable_2="Pi_je" variable_1="Pi_je"/>
</connection>
<connection>
<map_components component_2="vAK" component_1="ADP_fe"/>
<map_variables variable_2="ADP_fe" variable_1="ADP_fe"/>
</connection>
<connection>
<map_components component_2="vAK" component_1="ADP_te"/>
<map_variables variable_2="vAK" variable_1="vAK"/>
</connection>
<connection>
<map_components component_2="vAK" component_1="ATP_te"/>
<map_variables variable_2="vAK" variable_1="vAK"/>
</connection>
<connection>
<map_components component_2="vAK" component_1="ADP_me"/>
<map_variables variable_2="ADP_me" variable_1="ADP_me"/>
</connection>
<connection>
<map_components component_2="vAK" component_1="ATP_me"/>
<map_variables variable_2="ATP_me" variable_1="ATP_me"/>
</connection>
<connection>
<map_components component_2="vAK" component_1="AMP_e"/>
<map_variables variable_2="AMP_e" variable_1="AMP_e"/>
</connection>
<connection>
<map_components component_2="vLK" component_1="He"/>
<map_variables variable_2="vLK" variable_1="vLK"/>
</connection>
<connection>
<map_components component_2="vLK" component_1="Hi"/>
<map_variables variable_2="vLK" variable_1="vLK"/>
</connection>
<connection>
<map_components component_2="vLK" component_1="cell"/>
<map_variables variable_2="protonmotive_force" variable_1="protonmotive_force"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="He"/>
<map_variables variable_2="vSN" variable_1="vSN"/>
<map_variables variable_2="nA" variable_1="nA"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="Hi"/>
<map_variables variable_2="vSN" variable_1="vSN"/>
<map_variables variable_2="nA" variable_1="nA"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="ADP_ti"/>
<map_variables variable_2="ADP_ti" variable_1="ADP_ti"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="ATP_ti"/>
<map_variables variable_2="ATP_ti" variable_1="ATP_ti"/>
<map_variables variable_2="vSN" variable_1="vSN"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="Pi_ti"/>
<map_variables variable_2="Pi_ti" variable_1="Pi_ti"/>
<map_variables variable_2="vSN" variable_1="vSN"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="cell"/>
<map_variables variable_2="protonmotive_force" variable_1="protonmotive_force"/>
<map_variables variable_2="u" variable_1="u"/>
<map_variables variable_2="Z" variable_1="Z"/>
<map_variables variable_2="F" variable_1="F"/>
</connection>
<connection>
<map_components component_2="vSN" component_1="redox_potentials"/>
<map_variables variable_2="Emc" variable_1="Emc"/>
<map_variables variable_2="EmU" variable_1="EmU"/>
</connection>
<connection>
<map_components component_2="vCK" component_1="He"/>
<map_variables variable_2="vCK" variable_1="vCK"/>
<map_variables variable_2="He" variable_1="He"/>
</connection>
<connection>
<map_components component_2="vCK" component_1="ATP_te"/>
<map_variables variable_2="ATP_te" variable_1="ATP_te"/>
<map_variables variable_2="vCK" variable_1="vCK"/>
</connection>
<connection>
<map_components component_2="vCK" component_1="ADP_te"/>
<map_variables variable_2="ADP_te" variable_1="ADP_te"/>
<map_variables variable_2="vCK" variable_1="vCK"/>
</connection>
<connection>
<map_components component_2="vCK" component_1="Cr"/>
<map_variables variable_2="Cr" variable_1="Cr"/>
</connection>
<connection>
<map_components component_2="Cr" component_1="PCr"/>
<map_variables variable_2="PCr" variable_1="PCr"/>
</connection>
<connection>
<map_components component_2="vCK" component_1="PCr"/>
<map_variables variable_2="PCr" variable_1="PCr"/>
<map_variables variable_2="vCK" variable_1="vCK"/>
</connection>
<connection>
<map_components component_2="vEFF" component_1="He"/>
<map_variables variable_2="vEFF" variable_1="vEFF"/>
</connection>
<connection>
<map_components component_2="cell" component_1="ATP_ti"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
</connection>
<connection>
<map_components component_2="ATP_fi" component_1="ATP_ti"/>
<map_variables variable_2="ATP_ti" variable_1="ATP_ti"/>
</connection>
<connection>
<map_components component_2="ATP_mi" component_1="ATP_ti"/>
<map_variables variable_2="ATP_ti" variable_1="ATP_ti"/>
</connection>
<connection>
<map_components component_2="ATP_mi" component_1="ATP_fi"/>
<map_variables variable_2="ATP_fi" variable_1="ATP_fi"/>
</connection>
<connection>
<map_components component_2="ATP_fe" component_1="ATP_te"/>
<map_variables variable_2="ATP_te" variable_1="ATP_te"/>
</connection>
<connection>
<map_components component_2="AMP_e" component_1="ATP_te"/>
<map_variables variable_2="ATP_te" variable_1="ATP_te"/>
</connection>
<connection>
<map_components component_2="ATP_me" component_1="ATP_te"/>
<map_variables variable_2="ATP_te" variable_1="ATP_te"/>
</connection>
<connection>
<map_components component_2="ADP_fe" component_1="ADP_te"/>
<map_variables variable_2="ADP_te" variable_1="ADP_te"/>
</connection>
<connection>
<map_components component_2="AMP_e" component_1="ADP_te"/>
<map_variables variable_2="ADP_te" variable_1="ADP_te"/>
</connection>
<connection>
<map_components component_2="ADP_me" component_1="ADP_te"/>
<map_variables variable_2="ADP_te" variable_1="ADP_te"/>
</connection>
<connection>
<map_components component_2="ADP_ti" component_1="ATP_ti"/>
<map_variables variable_2="ATP_ti" variable_1="ATP_ti"/>
</connection>
<connection>
<map_components component_2="ADP_ti" component_1="ADP_fi"/>
<map_variables variable_2="ADP_ti" variable_1="ADP_ti"/>
</connection>
<connection>
<map_components component_2="Mg_fi" component_1="ADP_fi"/>
<map_variables variable_2="Mg_fi" variable_1="Mg_fi"/>
</connection>
<connection>
<map_components component_2="Mg_fi" component_1="ATP_fi"/>
<map_variables variable_2="Mg_fi" variable_1="Mg_fi"/>
</connection>
<connection>
<map_components component_2="Mg_fe" component_1="ADP_fe"/>
<map_variables variable_2="Mg_fe" variable_1="Mg_fe"/>
</connection>
<connection>
<map_components component_2="Mg_fe" component_1="ATP_fe"/>
<map_variables variable_2="Mg_fe" variable_1="Mg_fe"/>
</connection>
<connection>
<map_components component_2="ADP_ti" component_1="ADP_mi"/>
<map_variables variable_2="ADP_ti" variable_1="ADP_ti"/>
</connection>
<connection>
<map_components component_2="ADP_fi" component_1="ADP_mi"/>
<map_variables variable_2="ADP_fi" variable_1="ADP_fi"/>
</connection>
<connection>
<map_components component_2="ADP_fe" component_1="ADP_me"/>
<map_variables variable_2="ADP_fe" variable_1="ADP_fe"/>
</connection>
<connection>
<map_components component_2="ATP_fe" component_1="ATP_me"/>
<map_variables variable_2="ATP_fe" variable_1="ATP_fe"/>
</connection>
<connection>
<map_components component_2="cell" component_1="Pi_ti"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
</connection>
<connection>
<map_components component_2="cell" component_1="Hi"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
<map_variables variable_2="r_buffi" variable_1="r_buffi"/>
<map_variables variable_2="u" variable_1="u"/>
<map_variables variable_2="Hi" variable_1="Hi"/>
</connection>
<connection>
<map_components component_2="cell" component_1="He"/>
<map_variables variable_2="r_buffe" variable_1="r_buffe"/>
<map_variables variable_2="u" variable_1="u"/>
<map_variables variable_2="He" variable_1="He"/>
</connection>
<connection>
<map_components component_2="cell" component_1="c_2"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
</connection>
<connection>
<map_components component_2="c_2" component_1="c_3"/>
<map_variables variable_2="c_2" variable_1="c_2"/>
</connection>
<connection>
<map_components component_2="a_2" component_1="a_3"/>
<map_variables variable_2="a_2" variable_1="a_2"/>
<map_variables variable_2="at" variable_1="at"/>
</connection>
<connection>
<map_components component_2="a_2" component_1="cell"/>
<map_variables variable_2="Z" variable_1="Z"/>
</connection>
<connection>
<map_components component_2="a_2" component_1="redox_potentials"/>
<map_variables variable_2="Ema" variable_1="Ema"/>
</connection>
<connection>
<map_components component_2="cell" component_1="UQH2"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
</connection>
<connection>
<map_components component_2="UQ" component_1="UQH2"/>
<map_variables variable_2="UQH2" variable_1="UQH2"/>
</connection>
<connection>
<map_components component_2="Pi_te" component_1="P_SUM"/>
<map_variables variable_2="Pi_te" variable_1="Pi_te"/>
</connection>
<connection>
<map_components component_2="Pi_ti" component_1="P_SUM"/>
<map_variables variable_2="Pi_ti" variable_1="Pi_ti"/>
</connection>
<connection>
<map_components component_2="PCr" component_1="P_SUM"/>
<map_variables variable_2="PCr" variable_1="PCr"/>
</connection>
<connection>
<map_components component_2="ATP_te" component_1="P_SUM"/>
<map_variables variable_2="ATP_te" variable_1="ATP_te"/>
</connection>
<connection>
<map_components component_2="ADP_te" component_1="P_SUM"/>
<map_variables variable_2="ADP_te" variable_1="ADP_te"/>
</connection>
<connection>
<map_components component_2="AMP_e" component_1="P_SUM"/>
<map_variables variable_2="AMP_e" variable_1="AMP_e"/>
</connection>
<connection>
<map_components component_2="ATP_ti" component_1="P_SUM"/>
<map_variables variable_2="ATP_ti" variable_1="ATP_ti"/>
</connection>
<connection>
<map_components component_2="ADP_ti" component_1="P_SUM"/>
<map_variables variable_2="ADP_ti" variable_1="ADP_ti"/>
</connection>
<connection>
<map_components component_2="cell" component_1="P_SUM"/>
<map_variables variable_2="R_cm" variable_1="R_cm"/>
</connection>
<connection>
<map_components component_2="c_3" component_1="redox_potentials"/>
<map_variables variable_2="c_3" variable_1="c_3"/>
</connection>
<connection>
<map_components component_2="c_2" component_1="redox_potentials"/>
<map_variables variable_2="c_2" variable_1="c_2"/>
</connection>
<connection>
<map_components component_2="UQ" component_1="redox_potentials"/>
<map_variables variable_2="UQ" variable_1="UQ"/>
</connection>
<connection>
<map_components component_2="UQH2" component_1="redox_potentials"/>
<map_variables variable_2="UQH2" variable_1="UQH2"/>
</connection>
<connection>
<map_components component_2="Pi_ti" component_1="Pi_ji"/>
<map_variables variable_2="Pi_ti" variable_1="Pi_ti"/>
</connection>
<connection>
<map_components component_2="cell" component_1="Pi_ji"/>
<map_variables variable_2="pH_i" variable_1="pH_i"/>
<map_variables variable_2="pKa" variable_1="pKa"/>
</connection>
<connection>
<map_components component_2="Pi_te" component_1="Pi_je"/>
<map_variables variable_2="Pi_te" variable_1="Pi_te"/>
</connection>
<connection>
<map_components component_2="cell" component_1="Pi_je"/>
<map_variables variable_2="pH_e" variable_1="pH_e"/>
<map_variables variable_2="pKa" variable_1="pKa"/>
</connection>
<connection>
<map_components component_2="cell" component_1="redox_potentials"/>
<map_variables variable_2="Z" variable_1="Z"/>
<map_variables variable_2="u" variable_1="u"/>
<map_variables variable_2="protonmotive_force" variable_1="protonmotive_force"/>
</connection>
<connection>
<map_components component_2="cell" component_1="vEFF"/>
<map_variables variable_2="pH_e" variable_1="pH_e"/>
</connection>
<connection>
<map_components component_2="environment" component_1="NADH"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="O2"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="Hi"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="He"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="ADP_fi"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="ATP_ti"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="ADP_te"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="ATP_te"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="PCr"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="Pi_ji"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="Pi_je"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="Pi_ti"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="Pi_te"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="UQH2"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="P_SUM"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="c_2"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="a_2"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<rdf:RDF>
<rdf:Seq rdf:about="rdf:#406bebb1-5fb6-447b-8760-d44705699182">
<rdf:li rdf:resource="rdf:#885ea3be-7cfd-4728-a827-2ee20dee0e2e"/>
<rdf:li rdf:resource="rdf:#c569626e-ff10-48e6-a204-c01771c962ce"/>
</rdf:Seq>
<rdf:Description rdf:about="#Pi_je">
<dcterms:alternative>external monovalent inorganic phosphate</dcterms:alternative>
<dc:title>Pi_je</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#70791f2c-a902-44d8-ab83-98d050e92d38">
<bqs:subject_type>keyword</bqs:subject_type>
<rdf:value>
<rdf:Bag>
<rdf:li>mammalian</rdf:li>
<rdf:li>skeletal muscle</rdf:li>
<rdf:li>myocyte</rdf:li>
<rdf:li>metabolism</rdf:li>
<rdf:li>oxidative phosphorylation</rdf:li>
</rdf:Bag>
</rdf:value>
</rdf:Description>
<rdf:Description rdf:about="">
<dc:publisher>The University of Auckland, Bioengineering Institute</dc:publisher>
<cmeta:comment rdf:resource="rdf:#170ecfd4-33a2-47d7-8672-bc3b9fa4f0c7"/>
<dcterms:created rdf:resource="rdf:#8de6e6d2-fc29-4fe6-be17-c15f70d63bfe"/>
<dc:creator rdf:resource="rdf:#63adb5d6-279f-4bc0-9c92-43816511de17"/>
<cmeta:modification rdf:resource="rdf:#1b9fadcb-2a18-4d1f-b664-9be24e8de71b"/>
<cmeta:modification rdf:resource="rdf:#8b8163b2-319d-45c7-a40a-e47faa9f6aea"/>
<cmeta:modification rdf:resource="rdf:#cb4ec4f1-c2a6-412d-bda6-ba233362c0a9"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#32836ee8-de96-4743-b256-b639f37609f4">
<vCard:N rdf:resource="rdf:#59dd95fe-fab1-40a1-9c50-42ce894e1563"/>
</rdf:Description>
<rdf:Description rdf:about="#UQH2">
<dcterms:alternative>reduced ubiquinone</dcterms:alternative>
<dc:title>UQH2</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#NAD">
<dcterms:alternative>oxidised nicotinamide adenine dinucleotide</dcterms:alternative>
<dc:title>NAD</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#d77acf2c-1ede-4937-913c-07c549271b1f">
<dcterms:W3CDTF>2001-08-30</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="#Pi_ji">
<dcterms:alternative>internal monovalent inorganic phosphate</dcterms:alternative>
<dc:title>Pi_ji</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#348a6d34-b858-49cf-9034-c6320b569cbc">
<vCard:Orgname>The University of Auckland</vCard:Orgname>
<vCard:Orgunit>The Bioengineering Institute</vCard:Orgunit>
</rdf:Description>
<rdf:Description rdf:about="rdf:#1e71b557-5e57-4a50-8849-a7d75f085ed8">
<vCard:Given>Bernard</vCard:Given>
<vCard:Family>Korzeniewski</vCard:Family>
</rdf:Description>
<rdf:Description rdf:about="#Cr">
<dcterms:alternative>creatine</dcterms:alternative>
<dc:title>Cr</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#d4eacdc7-740a-42ca-8d93-6e377797852b">
<bqs:Pubmed_id>11527576</bqs:Pubmed_id>
<bqs:JournalArticle rdf:resource="rdf:#3fe0af00-986f-4636-a426-ce0807a9500b"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#c9748210-79c0-4fce-ad42-c13db98d4893">
<dc:subject rdf:resource="rdf:#70791f2c-a902-44d8-ab83-98d050e92d38"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#a0e38777-775c-4304-af9c-186101cfd4d7">
<dc:creator rdf:resource="rdf:#7f9ddd12-cfaf-4186-a0ef-50f2d9fb8817"/>
<rdf:value>This is the CellML description of Korzeniewski and Froncisz's
mathematical model of oxidative phosphorylation (1991). In 1996 they
further modified and developed the model, making it specific to liver
hepatocytes. Most recent changes (2001) have extended the model and
have made it specific to mammalian skeletal muscle. These changes
have been incorporated into the CellML description.
The model distinguishes three modes of the work of cells. The rate
equations for some reactions are slightly altered, dependent on the
mode of work. This CellML description concentrates on mode 1 only,
where;
1) Beta-oxidation of fatty acids as the source of reducing
equivalents, fatty acids as a respiratory substrate, no additional ATP
supply (glycolysis), only "basal" ATP consumption (protein synthesis,
ion transport).</rdf:value>
</rdf:Description>
<rdf:Description rdf:about="#PCr">
<dcterms:alternative>phosphocreatine</dcterms:alternative>
<dc:title>PCr</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ATP_fe">
<dcterms:alternative>free external adenosine triphosphate</dcterms:alternative>
<dc:title>ATP_fe</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#619c74da-cd28-465e-acf0-0f945ef5fd9c">
<vCard:FN/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#7f9ddd12-cfaf-4186-a0ef-50f2d9fb8817">
<vCard:FN>Catherine Lloyd</vCard:FN>
</rdf:Description>
<rdf:Description rdf:about="#ATP_fi">
<dcterms:alternative>free internal adenosine triphosphate</dcterms:alternative>
<dc:title>ATP_fi</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#c_3">
<dcterms:alternative>oxidised cytochrome C</dcterms:alternative>
<dc:title>c_3</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#d4b4f7ed-0ce1-4b1a-b6fe-4a9f3739ae88">
<vCard:Given>Catherine</vCard:Given>
<vCard:Family>Lloyd</vCard:Family>
<vCard:Other>May</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="rdf:#5d02548e-c67f-43db-be23-da37a9adafd4">
<vCard:N rdf:resource="rdf:#87030770-e8f0-444c-8261-96d91f3f887d"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#8de6e6d2-fc29-4fe6-be17-c15f70d63bfe">
<dcterms:W3CDTF>2007-05-31T00:00:00+00:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="rdf:#3fe0af00-986f-4636-a426-ce0807a9500b">
<dc:creator rdf:resource="rdf:#406bebb1-5fb6-447b-8760-d44705699182"/>
<dc:title>A model of oxidative phosphorylation in mammaliam skeletal muscle</dc:title>
<bqs:volume>92</bqs:volume>
<bqs:first_page>17</bqs:first_page>
<bqs:Journal rdf:resource="rdf:#cba17c30-fdc7-4b92-8077-09af944cf656"/>
<dcterms:issued rdf:resource="rdf:#d77acf2c-1ede-4937-913c-07c549271b1f"/>
<bqs:last_page>34</bqs:last_page>
</rdf:Description>
<rdf:Description rdf:about="rdf:#e66cbeb3-7a7e-49bb-a44e-48a53cfe2dd1">
<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Pubmed_id"/>
</rdf:Description>
<rdf:Description rdf:about="#ATP_me">
<dcterms:alternative>external magnesium-complexed adenosine triphosphate</dcterms:alternative>
<dc:title>ATP_me</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#NADH">
<dcterms:alternative>reduced nicotinamide adenine dinucleotide</dcterms:alternative>
<dc:title>NADH</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#a41a8212-05c7-479b-88cb-0698515f2879">
<dcterms:W3CDTF>2008-09-02T14:26:09+12:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="rdf:#87030770-e8f0-444c-8261-96d91f3f887d">
<vCard:Given>James</vCard:Given>
<vCard:Family>Lawson</vCard:Family>
<vCard:Other>Richard</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="#a_2">
<dcterms:alternative>reduced cytochrome a3</dcterms:alternative>
<dc:title>a_2</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#a_3">
<dcterms:alternative>oxidised cytochrome a3</dcterms:alternative>
<dc:title>a_3</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#8b8163b2-319d-45c7-a40a-e47faa9f6aea">
<dcterms:modified rdf:resource="rdf:#6e0a7b65-1ab7-41f5-8e21-ebe8ddd411d4"/>
<rdf:value>Fixed error mentioned in https://tracker.physiomeproject.org/show_bug.cgi?id=219
Model still has invalid connection to be fixed.</rdf:value>
<cmeta:modifier rdf:resource="rdf:#ac2f6db7-4dcb-4658-a3dd-cc3873cce1df"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#14762c77-053c-400d-9c3c-96f1e61ce9cb">
<dcterms:W3CDTF>2007-06-05T09:48:29+12:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="rdf:#cb4ec4f1-c2a6-412d-bda6-ba233362c0a9">
<dcterms:modified rdf:resource="rdf:#14762c77-053c-400d-9c3c-96f1e61ce9cb"/>
<rdf:value>The new version of this model has been re-coded to remove the reaction element and replace it with a simple MathML description of the model reaction kinetics. This is thought to be truer to the original publication, and information regarding the enzyme kinetics etc will later be added to the metadata through use of an ontology.
The model does not run in the PCEnv simulator because the model is overconstrained. But I can't work out which equation(s) or initial value(s) to remove. I suspect PCEnv is calculating the value of "u" itself from early equations.</rdf:value>
<cmeta:modifier rdf:resource="rdf:#32836ee8-de96-4743-b256-b639f37609f4"/>
</rdf:Description>
<rdf:Description rdf:about="#ATP_mi">
<dcterms:alternative>internal magnesium-complexed adenosine triphosphate</dcterms:alternative>
<dc:title>ATP_mi</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#59dd95fe-fab1-40a1-9c50-42ce894e1563">
<vCard:Given>Catherine</vCard:Given>
<vCard:Family>Lloyd</vCard:Family>
<vCard:Other>May</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="#O2">
<dcterms:alternative>oxygen</dcterms:alternative>
<dc:title>O2</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#Mg_fi">
<dcterms:alternative>free internal magnesium</dcterms:alternative>
<dc:title>Mg_fi</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#Pi_ti">
<dcterms:alternative>total internal inorganic phosphate</dcterms:alternative>
<dc:title>Pi_ti</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ADP_fe">
<dcterms:alternative>free external adenosine diphosphate</dcterms:alternative>
<dc:title>ADP_fe</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#UQ">
<dcterms:alternative>oxidised ubiquinone</dcterms:alternative>
<dc:title>UQ</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ADP_fi">
<dcterms:alternative>free internal adenosine diphosphate</dcterms:alternative>
<dc:title>ADP_fi</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#170ecfd4-33a2-47d7-8672-bc3b9fa4f0c7">
<dc:creator rdf:resource="rdf:#619c74da-cd28-465e-acf0-0f945ef5fd9c"/>
<rdf:value/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#6e0a7b65-1ab7-41f5-8e21-ebe8ddd411d4">
<dcterms:W3CDTF>2008-09-02T14:12:01+12:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="#korzeniewski_zoladz_2001">
<dc:title>A dynamic model of oxidative phosphorylation</dc:title>
<cmeta:bio_entity>Skeletal Myocyte</cmeta:bio_entity>
<cmeta:comment rdf:resource="rdf:#a0e38777-775c-4304-af9c-186101cfd4d7"/>
<bqs:reference rdf:resource="rdf:#c9748210-79c0-4fce-ad42-c13db98d4893"/>
<bqs:reference rdf:resource="rdf:#cb035d8c-581e-4543-94bd-b20f3dcaec98"/>
<bqs:reference rdf:resource="rdf:#d4eacdc7-740a-42ca-8d93-6e377797852b"/>
<bqs:reference rdf:resource="rdf:#e66cbeb3-7a7e-49bb-a44e-48a53cfe2dd1"/>
<cmeta:species>Mammalia</cmeta:species>
</rdf:Description>
<rdf:Description rdf:about="#Mg_fe">
<dcterms:alternative>free external magnesium</dcterms:alternative>
<dc:title>Mg_fe</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#Pi_te">
<dcterms:alternative>total external inorganic phosphate</dcterms:alternative>
<dc:title>Pi_te</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ATP_ti">
<dcterms:alternative>total internal adenosine triphosphate</dcterms:alternative>
<dc:title>ATP_ti</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#c_2">
<dcterms:alternative>reduced cytochrome C</dcterms:alternative>
<dc:title>c_2</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#1b2cdd5e-fe77-418b-8728-bc13bc9b1ae5">
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet"/>
<rdf:value>c.lloyd@auckland.ac.nz</rdf:value>
</rdf:Description>
<rdf:Description rdf:about="rdf:#c569626e-ff10-48e6-a204-c01771c962ce">
<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Person"/>
<vCard:N rdf:resource="rdf:#9e2d92a5-df73-4ffb-b2cb-6c3a948cd503"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#d7af1f77-830b-4e54-bab7-6bb57c1e8254">
<vCard:Given>James</vCard:Given>
<vCard:Family>Lawson</vCard:Family>
<vCard:Other>Richard</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="rdf:#63adb5d6-279f-4bc0-9c92-43816511de17">
<vCard:ORG rdf:resource="rdf:#348a6d34-b858-49cf-9034-c6320b569cbc"/>
<vCard:EMAIL rdf:resource="rdf:#1b2cdd5e-fe77-418b-8728-bc13bc9b1ae5"/>
<vCard:N rdf:resource="rdf:#d4b4f7ed-0ce1-4b1a-b6fe-4a9f3739ae88"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#1b9fadcb-2a18-4d1f-b664-9be24e8de71b">
<dcterms:modified rdf:resource="rdf:#a41a8212-05c7-479b-88cb-0698515f2879"/>
<rdf:value>Deleted an extraneous connection element randomly sitting within a component element. Model still overconstrained.</rdf:value>
<cmeta:modifier rdf:resource="rdf:#5d02548e-c67f-43db-be23-da37a9adafd4"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#cba17c30-fdc7-4b92-8077-09af944cf656">
<dc:title>Biophysical Chemistry</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ATP_te">
<dcterms:alternative>total external adenosine triphosphate</dcterms:alternative>
<dc:title>ATP_te</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#cb035d8c-581e-4543-94bd-b20f3dcaec98">
<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Pubmed_id"/>
</rdf:Description>
<rdf:Description rdf:about="#ADP_me">
<dcterms:alternative>external magnesium-complexed adenosine diphosphate</dcterms:alternative>
<dc:title>ADP_me</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ADP_ti">
<dcterms:alternative>total internal adenosine diphosphate</dcterms:alternative>
<dc:title>ADP_ti</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#9e2d92a5-df73-4ffb-b2cb-6c3a948cd503">
<vCard:Given>Jerzy</vCard:Given>
<vCard:Family>Zoladz</vCard:Family>
<vCard:Other>A</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="#P_SUM">
<dcterms:alternative>total phosphate pool</dcterms:alternative>
<dc:title>P_SUM</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#Hi">
<dcterms:alternative>internal protons</dcterms:alternative>
<dc:title>Hi</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#AMP_e">
<dcterms:alternative>free external adenosine monophosphate</dcterms:alternative>
<dc:title>AMP_fe</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#885ea3be-7cfd-4728-a827-2ee20dee0e2e">
<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Person"/>
<vCard:N rdf:resource="rdf:#1e71b557-5e57-4a50-8849-a7d75f085ed8"/>
</rdf:Description>
<rdf:Description rdf:about="#He">
<dcterms:alternative>external protons</dcterms:alternative>
<dc:title>He</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#ac2f6db7-4dcb-4658-a3dd-cc3873cce1df">
<vCard:N rdf:resource="rdf:#d7af1f77-830b-4e54-bab7-6bb57c1e8254"/>
</rdf:Description>
<rdf:Description rdf:about="#ADP_mi">
<dcterms:alternative>internal magnesium-complexed adenosine diphosphate</dcterms:alternative>
<dc:title>ADP_mi</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#ADP_te">
<dcterms:alternative>total external adenosine diphosphate</dcterms:alternative>
<dc:title>ADP_te</dc:title>
</rdf:Description>
</rdf:RDF>
</model>
