- Author:
- neilstephen2001 <npar276@aucklanduni.ac.nz>
- Date:
- 2021-01-26 14:35:03+13:00
- Desc:
- modifying rdf files
- Permanent Source URI:
- https://models.cellml.org/workspace/7f1/rawfile/4d6408caaf3e7b1b86d33d53d26105360ef95347/sneyd_dufour_2002/model/sneyd_dufour_2002.cellml
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<article>
<articleinfo>
<title>A Dynamic Model Of The Type-2 Inositol Triphosphate Receptor</title>
<author>
<firstname>Catherine</firstname>
<surname>Lloyd</surname>
<affiliation>
<shortaffil>Auckland Bioengineering Institute, The University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<section id="sec_status">
<title>Model Status</title>
<para>This CellML model runs in OpenCell and COR and the units are consistent throughout. The model runs to recreate published results and is currently configured to recreate Figure 4 (Lower Plot, Trace 4), but variation of the IP3 and Calcium concentrations will allow the model to recreate different figures.</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>ABSTRACT: The dynamic properties of the inositol (1,4,5)-trisphosphate (IP(3)) receptor are crucial for the control of intracellular Ca(2+), including the generation of Ca(2+) oscillations and waves. However, many models of this receptor do not agree with recent experimental data on the dynamic responses of the receptor. We construct a model of the IP(3) receptor and fit the model to dynamic and steady-state experimental data from type-2 IP(3) receptors. Our results indicate that, (i) Ca(2+) binds to the receptor using saturating, not mass-action, kinetics; (ii) Ca(2+) decreases the rate of IP(3) binding while simultaneously increasing the steady-state sensitivity of the receptor to IP(3); (iii) the rate of Ca(2+)-induced receptor activation increases with Ca(2+) and is faster than Ca(2+)-induced receptor inactivation; and (iv) IP(3) receptors are sequentially activated and inactivated by Ca(2+) even when IP(3) is bound. Our results emphasize that measurement of steady-state properties alone is insufficient to characterize the functional properties of the receptor.</para>
<para>The original paper reference is cited below:</para>
<para>
A dynamic model of the type-2 inositol triphosphate receptor, James Sneyd and Jean-Francois Dufour, 2002,
<emphasis>Proceedings of the National Academy of Sciences</emphasis>
, 99, 2398-2403.
<ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11842185&dopt=Abstract">PubMed ID: 11842185</ulink>
</para>
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<title>A simplified diagram of the IPR model</title>
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<caption>A simplified diagram of the IPR model, where R represents the free receptor, O is the open state of the channel, A is the activated state of the channel and I1, I2, and S are three inactive states.</caption>
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</article>
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<map_variables variable_1="k_1b" variable_2="k_1b" />
<map_variables variable_1="l_2b" variable_2="l_2b" />
<map_variables variable_1="phi_2" variable_2="phi_2" />
<map_variables variable_1="phi_2b" variable_2="phi_2b" />
<map_variables variable_1="p" variable_2="p" />
</connection>
<connection>
<map_components component_1="A" component_2="O" />
<map_variables variable_1="A" variable_2="A" />
</connection>
<connection>
<map_components component_1="environment" component_2="R" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="A" component_2="open_probability" />
<map_variables variable_1="A" variable_2="A" />
</connection>
<connection>
<map_components component_1="I_1" component_2="R" />
<map_variables variable_1="I_1" variable_2="I_1" />
</connection>
<connection>
<map_components component_1="environment" component_2="A" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="A" component_2="S" />
<map_variables variable_1="A" variable_2="A" />
</connection>
<connection>
<map_components component_1="reaction_rate_constants" component_2="I_1" />
<map_variables variable_1="phi_1" variable_2="phi_1" />
<map_variables variable_1="k_1b" variable_2="k_1b" />
<map_variables variable_1="l_2b" variable_2="l_2b" />
</connection>
<connection>
<map_components component_1="R" component_2="S" />
<map_variables variable_1="R" variable_2="R" />
</connection>
<connection>
<map_components component_1="reaction_rate_constants" component_2="A" />
<map_variables variable_1="phi_5" variable_2="phi_5" />
<map_variables variable_1="k_1b" variable_2="k_1b" />
<map_variables variable_1="l_2b" variable_2="l_2b" />
<map_variables variable_1="phi_4" variable_2="phi_4" />
<map_variables variable_1="phi_4b" variable_2="phi_4b" />
</connection>
<connection>
<map_components component_1="O" component_2="R" />
<map_variables variable_1="O" variable_2="O" />
</connection>
<connection>
<map_components component_1="environment" component_2="I_1" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="I_1" component_2="S" />
<map_variables variable_1="I_1" variable_2="I_1" />
</connection>
<connection>
<map_components component_1="I_2" component_2="S" />
<map_variables variable_1="I_2" variable_2="I_2" />
</connection>
<connection>
<map_components component_1="environment" component_2="I_2" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="A" component_2="I_2" />
<map_variables variable_1="A" variable_2="A" />
</connection>
<connection>
<map_components component_1="R" component_2="O" />
<map_variables variable_1="R" variable_2="R" />
</connection>
<connection>
<map_components component_1="R" component_2="I_1" />
<map_variables variable_1="R" variable_2="R" />
</connection>
<connection>
<map_components component_1="environment" component_2="O" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="O" component_2="S" />
<map_variables variable_1="O" variable_2="O" />
</connection>
<rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:ro="http://www.obofoundry.org/ro/ro.owl#" xmlns:opb="http://bhi.washington.edu/OPB#">
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_2">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.p">
<bqbiol:isPropertyOf>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#entity_0">
<bqbiol:is rdf:resource="http://purl.obolibrary.org/obo/PR_Q14643" />
</rdf:Description>
</bqbiol:isPropertyOf>
<dcterms:description>concentration of IP3</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_1.phi_1">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#S_S">
<dcterms:description>fraction of IP3 receptors in S state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.L_1">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_2">
<semsim:physicalPropertyOf>
<rdf:Description rdf:about="#entity_1">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/chebi/CHEBI:29108" />
</rdf:Description>
</semsim:physicalPropertyOf>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>equilibrium constant</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R_R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.l_6b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.phi_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_1a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.phi_4">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#S.I_1">
<dcterms:description>fraction of IP3 receptors in inactivated I1state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#O.phi_3">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_1.R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#S.R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#I_2.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O.p">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_1">
<semsim:physicalPropertyOf>
<rdf:Description rdf:about="#entity_0">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/chebi/CHEBI:16595" />
</rdf:Description>
</semsim:physicalPropertyOf>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of IP3</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#O.phi_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_1.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.l_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.L_3">
<bqbiol:isPropertyOf>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#entity_1">
<bqbiol:is rdf:resource="https://identifiers.org/chebi/CHEBI:29108" />
</rdf:Description>
</bqbiol:isPropertyOf>
<dcterms:description>equilibrium constant</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_1">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#R.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#A.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#I_2.phi_5">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O_O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.phi_3">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#I_1_I_1">
<dcterms:description>fraction of IP3 receptors in inactivated I1state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.S">
<dcterms:description>fraction of IP3 receptors in S state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#R.phi_2">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_3a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#S.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#I_2_I_2">
<dcterms:description>fraction of IP3 receptors in inactivated I2 state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#R.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#A.I_2">
<dcterms:description>fraction of IP3 receptors in inactivated I2 state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#O.phi_4">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#R.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.l_2a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#open_probability.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A_A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#I_1.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.l_6a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.phi_2">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_4a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_3b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.p">
<bqbiol:isPropertyOf rdf:resource="sneyd_dufour_2002.cellml#entity_0" />
<dcterms:description>concentration of IP3</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#R.p">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_0">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of IP3</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_1_I_1">
<dcterms:description>fraction of IP3 receptors in inactivated I1state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.phi_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#R.phi_1">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#I_1.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.I_1">
<dcterms:description>fraction of IP3 receptors in inactivated I1state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.L_1">
<bqbiol:isPropertyOf rdf:resource="sneyd_dufour_2002.cellml#entity_1" />
<dcterms:description>equilibrium constant</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#I_2.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_2.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.l_4a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#I_1.phi_1">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.phi_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.c">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_6">
<semsim:physicalPropertyOf rdf:resource="#entity_1" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of intracellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#I_2.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_2a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#I_2.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O.phi_2">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.phi_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_3">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_2.phi_5">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O.R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#S_S">
<dcterms:description>fraction of IP3 receptors in S state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#S.I_1">
<dcterms:description>fraction of IP3 receptors in inactivated I1state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A.phi_5">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#environment_time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O_O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.l_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#R_R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.L_5">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_4">
<semsim:physicalPropertyOf rdf:resource="#entity_1" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>equilibrium constant</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#O.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#S.R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.c">
<bqbiol:isPropertyOf rdf:resource="sneyd_dufour_2002.cellml#entity_1" />
<dcterms:description>concentration of intracellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#sneyd_2002" semsim:modelName="sneyd_2002" bqmodel:isDescribedBy="11842185">
<semsim:unknown>The Sneyd-Dufour 2002 dynamic model of the type-2 inositol triphosphate receptor.@en</semsim:unknown>
<semsim:modelName>sneyd_dufour_2002</semsim:modelName>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_2.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_3a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_4">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#environment_time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_5">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O.phi_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#open_probability.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A.phi_4">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#S.I_2">
<dcterms:description>fraction of IP3 receptors in inactivated I2 state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_2.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.l_6b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#R.phi_1">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#R.I_1">
<dcterms:description>fraction of IP3 receptors in inactivated I1state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A_A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#sneyd_2002" bqmodel:isDescribedBy="11842185" />
<rdf:Description rdf:about="#I_1.R">
<dcterms:description>fraction of IP3 receptors in R state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_1a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#S.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.p">
<bqbiol:isPropertyOf rdf:resource="sneyd_dufour_2002.cellml#entity_0" />
<dcterms:description>concentration of IP3</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#O.S">
<dcterms:description>fraction of IP3 receptors in S state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_5">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_4">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_1">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_1.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_2.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#R.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.phi_4">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.l_4a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.L_3">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_3">
<semsim:physicalPropertyOf rdf:resource="#entity_1" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>equilibrium constant</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#A.phi_4b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_2_I_2">
<dcterms:description>fraction of IP3 receptors in inactivated I2 state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.phi_2">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_2a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.I_2">
<dcterms:description>fraction of IP3 receptors in inactivated I2 state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.phi_2">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.phi_3">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.p">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_5">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of IP3</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#S.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#open_probability.open_probability">
<dcterms:description>open probability of IP3 receptor channels</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#O.k_3b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.l_2a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.phi_5">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.L_5">
<bqbiol:isPropertyOf rdf:resource="sneyd_dufour_2002.cellml#entity_1" />
<dcterms:description>equilibrium constant</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#S.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.l_6a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#A.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#R.phi_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#open_probability.O">
<dcterms:description>fraction of IP3 receptors in open state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#S.I_2">
<dcterms:description>fraction of IP3 receptors in inactivated I2 state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#I_1.k_1b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#open_probability.A">
<dcterms:description>fraction of IP3 receptors in activated state</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#reaction_rate_constants.k_3b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#open_probability.open_probability">
<dcterms:description>open probability of IP3 receptor channels</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="sneyd_dufour_2002.cellml#I_1.l_2b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#reaction_rate_constants.k_4a">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
<rdf:Description rdf:about="#O.k_3b">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
</rdf:Description>
</rdf:RDF>
</model>
