03032015122814911m0500
type: Ontology
legacy code URI: /Users/max_neal/Dropbox/Semantic Project/Annotated CellML models/cooling_hunter_crampin_2007/cooling_hunter_crampin_2007.cellml
sem sim version: 0.2
has cell m lrdf markup: <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:j.0="http://www.cellml.org/bqs/1.0#" xmlns:j.1="http://imc.org/vCard/3.0#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:j.2="http://purl.org/dc/terms/" xmlns:j.3="http://www.cellml.org/metadata/simulation/1.0#"> <rdf:Description rdf:about="http://www.cellml.org/cellml/1.0"> <dc:creator rdf:parseType="Resource"> <ORG rdf:parseType="Resource"> <Orgunit xml:lang="en">Auckland Bioengineering Institute</Orgunit> <Orgname xml:lang="en">The University of Auckland</Orgname> </ORG> <EMAIL> <j.1:internet> <rdf:value xml:lang="en">m.cooling@auckland.ac.nz</rdf:value> </j.1:internet> </EMAIL> <N rdf:parseType="Resource"> <Given xml:lang="en">Mike</Given> <Family xml:lang="en">Cooling</Family> </N> </dc:creator> </rdf:Description> <rdf:Description rdf:about="http://www.cellml.org/cellml/1.0#cooling_2007"> <j.0:reference rdf:parseType="Resource"> <j.0:JournalArticle rdf:parseType="Resource"> <j.0:last_page xml:lang="en">3433</j.0:last_page> <j.0:first_page xml:lang="en">3421</j.0:first_page> <j.2:issued rdf:parseType="Resource"> <j.2:W3CDTF xml:lang="en">2007-00-00 00:00</j.2:W3CDTF> </j.2:issued> <j.0:Journal rdf:parseType="Resource"> <dc:title xml:lang="en">Biophysical Journal</dc:title> </j.0:Journal> <dc:title xml:lang="en">Modeling hypertrophic IP3 transients in the cardiac myocyte</dc:title> <j.0:volume xml:lang="en">93</j.0:volume> <dc:creator> <rdf:Seq> <rdf:li rdf:parseType="Resource"> <ORG rdf:parseType="Resource"> <Orgunit xml:lang="en">University of Auckland</Orgunit> <Orgname xml:lang="en">Auckland Bioengineering Institute</Orgname> </ORG> <EMAIL> <j.1:internet> <rdf:value xml:lang="en">m.cooling@auckland.ac.nz</rdf:value> </j.1:internet> </EMAIL> <N rdf:parseType="Resource"> <Given xml:lang="en">Mike</Given> <Family xml:lang="en">Cooling</Family> </N> </rdf:li> <rdf:li rdf:parseType="Resource"> <ORG rdf:parseType="Resource"> <Orgunit xml:lang="en…
model id: cooling_2007
model name: cooling_2007

Fluid volume
type: Class
subclass of: Reference physical property
subclass of: Restriction
  on property: refersTo
  has value: Fluid volume

Chemical flow rate
type: Class
subclass of: Reference physical property
subclass of: Restriction
  on property: refersTo
  has value: Chemical flow rate

Chemical concentration
type: Class
subclass of: Reference physical property
subclass of: Restriction
  on property: refersTo
  has value: Chemical concentration

1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)

1D-myo-inositol 1,4,5-trisphosphate
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: 1D-myo-inositol 1,4,5-trisphosphate

1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate

calcium(2+)
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: calcium(2+)

Extracellular space
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: Extracellular space

Plasma membrane
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: Plasma membrane

Portion of cytosol
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: Portion of cytosol

Regular atrial cardiac myocyte
type: Class
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: Regular atrial cardiac myocyte

Composite physical entity
type: Class
subclass of: Physical entity
disjoint with: Custom physical entity
disjoint with: Reference physical entity
comment: A physical entity that is defined by linking multiple physical entity terms with structural relations.

Computation
type: Class
subclass of: Computational model component
disjoint with: Data structure
comment: A mathematical and/or logical expression that determines the value of a data structure.

Computational model component
type: Class
subclass of: SemSim component
disjoint with: Physical model component
comment: An element of a SemSim model that relates to the mathematical or logical representation of physical quantities or qualities.

Custom physical dependency
type: Class
subclass of: Physical dependency
disjoint with: Reference physical dependency
comment: A physical dependency defined in a specific SemSim model.

Custom physical entity
type: Class
subclass of: Physical entity
comment: A physical entity defined in a specific SemSim model.

Custom physical process
type: Class
subclass of: Physical process
comment: A physical process defined in a specific SemSim model.

Custom physical property
type: Class
subclass of: Physical property
disjoint with: Reference physical property
comment: A physical property defined in a specific SemSim model.

Data structure
type: Class
subclass of: Computational model component
comment: A computational element that stores numerical and/or logical information related to the model.

Decimal
type: Class
subclass of: Real
disjoint with: Integer
comment: A data structure whose value is limited to decimals.

Integer
type: Class
subclass of: Real
comment: A data structure whose value is limited to the whole numbers.

MMLchoice
type: Class
subclass of: Real
comment: A data structure unique to JSim's Mathematical Modeling Language (MML) used to set one or more model input values at runtime.

Physical dependency
type: Class
subclass of: Physical model component
disjoint with: Physical entity
disjoint with: Physical process
disjoint with: Physical property
comment: A quantitative relation between values of physical properties that occurs over a span of time and that determines the time-course of a physical process.

Physical entity
type: Class
subclass of: Physical model component
disjoint with: Physical process
disjoint with: Physical property
comment: A physics analytical entity that represents the material, energy, and/or information content of material or immaterial, space-occupying continuants.

Physical model component
type: Class
subclass of: SemSim component
comment: A SemSim model element used to represent, in whole or in part, the physical meaning of a computational element.

Physical process
type: Class
subclass of: Physical model component
disjoint with: Physical property
comment: A physical processural entity that is a flow, or the control of a flow, of energy and/or information amongst physical continuants that are participants in the physical process.

Physical property
type: Class
subclass of: Physical model component
comment: A physical attribute of an instance of a physical entity, an occurrence of a physical process, or a physical dependency that has a quantitative value that is measurable by a physical device or method, or is computable from such values.

Real
type: Class
subclass of: Data structure
comment: A data structure whose value is limited to the real numbers.

Reference physical dependency
type: Class
subclass of: Physical dependency
comment: A physical dependency that is defined using a term in an external knowledge resource.

Reference physical entity
type: Class
subclass of: Physical entity
comment: A physical entity that is defined using a term from an external knowledge resource.

Reference physical process
type: Class
subclass of: Physical process
comment: A physical process that is defined using a term in an external knowledge resource.

Reference physical property
type: Class
subclass of: Physical property
comment: A physical property that is defined using a term in an external knowledge resource.

Relational constraint
type: Class
subclass of: Computational model component
comment: A logical expression that constrains, but does not define, the value of a data structure. Example: x > 0.

SemSim component
type: Class
comment: A computational or physical element of a SemSim model.

Submodel
type: Class
subclass of: Physical model component
comment: A grouping of one or more data structures that comprise a computationally or physically distinct part of a model or submodel.

Unit of measurement
type: Class
subclass of: Computational model component
comment: A physical quantity chosen as a standard in terms of which other physical quantities may be expressed.

Binding of G-alpha-GDP to receptor
type: NamedIndividual
type: Custom physical process
has source: G-alpha-GDP
has sink: Receptor bound to G-alpha-GDP
has source: Receptor not bound to G-alpha-GDP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of G-alpha-GDP to receptor
annotated target: Receptor not bound to G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of G-alpha-GDP to receptor
annotated target: Receptor bound to G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of G-alpha-GDP to receptor
annotated target: G-alpha-GDP

Binding of G-alpha-GTP to calcium-bound PLC-beta
type: NamedIndividual
type: Custom physical process
has source: G-alpha-GTP
has source: PLC-beta bound to calcium (2+)
has sink: PLC-beta bound to calcium (2+) and G-alpha-GTP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of G-alpha-GTP to calcium-bound PLC-beta
annotated target: G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of G-alpha-GTP to calcium-bound PLC-beta
annotated target: PLC-beta bound to calcium (2+)

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of G-alpha-GTP to calcium-bound PLC-beta
annotated target: PLC-beta bound to calcium (2+) and G-alpha-GTP

Binding of PLC-beta to G-alpha-GTP
type: NamedIndividual
type: Custom physical process
has source: G-alpha-GTP
has sink: PLC-beta bound to G-alpha-GTP
has source: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of PLC-beta to G-alpha-GTP
annotated target: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of PLC-beta to G-alpha-GTP
annotated target: PLC-beta bound to G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of PLC-beta to G-alpha-GTP
annotated target: G-alpha-GTP

Binding of calcium to G-alpha-GTP-bound PLC-beta
type: NamedIndividual
type: Custom physical process
has source: calcium(2+)
has source: PLC-beta bound to G-alpha-GTP
has sink: PLC-beta bound to calcium (2+) and G-alpha-GTP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of calcium to G-alpha-GTP-bound PLC-beta
annotated target: PLC-beta bound to G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of calcium to G-alpha-GTP-bound PLC-beta
annotated target: PLC-beta bound to calcium (2+) and G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of calcium to G-alpha-GTP-bound PLC-beta
annotated target: calcium(2+)

Binding of calcium to PLC-beta
type: NamedIndividual
type: Custom physical process
has source: calcium(2+)
has sink: PLC-beta bound to calcium (2+)
has source: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of calcium to PLC-beta
annotated target: calcium(2+)

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of calcium to PLC-beta
annotated target: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of calcium to PLC-beta
annotated target: PLC-beta bound to calcium (2+)

Binding of ligand and receptor to G-alpha-GDP
type: NamedIndividual
type: Custom physical process
has source: G-alpha-GDP
has source: Ligand bound to receptor
has sink: Ligand bound to receptor and G-alpha-GDP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of ligand and receptor to G-alpha-GDP
annotated target: Ligand bound to receptor

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of ligand and receptor to G-alpha-GDP
annotated target: G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of ligand and receptor to G-alpha-GDP
annotated target: Ligand bound to receptor and G-alpha-GDP

Binding of ligand to receptor
type: NamedIndividual
type: Custom physical process
has source: Ligand
has sink: Ligand bound to receptor
has source: Receptor not bound to G-alpha-GDP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of ligand to receptor
annotated target: Ligand

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of ligand to receptor
annotated target: Receptor not bound to G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of ligand to receptor
annotated target: Ligand bound to receptor

Binding of ligand to receptor and G-alpha-GDP
type: NamedIndividual
type: Custom physical process
has source: Ligand
has sink: Ligand bound to receptor and G-alpha-GDP
has source: Receptor bound to G-alpha-GDP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of ligand to receptor and G-alpha-GDP
annotated target: Receptor bound to G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Binding of ligand to receptor and G-alpha-GDP
annotated target: Ligand bound to receptor and G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Binding of ligand to receptor and G-alpha-GDP
annotated target: Ligand

1D-myo-inositol 1,4,5-trisphosphate
type: NamedIndividual
refers to: 1D-myo-inositol 1,4,5-trisphosphate
is index entity for: CHEBI 16595 part of Portion of cytosol part of Regular atrial cardiac myocyte
part of: Portion of cytosol
has physical property: Chemical concentration

1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
type: NamedIndividual
refers to: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
is index entity for: CHEBI 18348 part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

calcium(2+)
type: NamedIndividual
refers to: calcium(2+)
is index entity for: CHEBI 29108 part of Portion of cytosol part of Regular atrial cardiac myocyte
part of: Portion of cytosol
has physical property: Chemical concentration

Degradation of G-alpha-GTP
type: NamedIndividual
type: Custom physical process
has sink: G-alpha-GDP
has source: G-alpha-GTP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Degradation of G-alpha-GTP
annotated target: G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Degradation of G-alpha-GTP
annotated target: G-alpha-GTP

Degradation of free IP3
type: NamedIndividual
type: Custom physical process
has source: 1D-myo-inositol 1,4,5-trisphosphate
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated target: 1D-myo-inositol 1,4,5-trisphosphate
annotated source: Degradation of free IP3

Dissociation of G-alpha-GTP from PLC-beta and degradation
type: NamedIndividual
type: Custom physical process
has sink: G-alpha-GDP
has source: PLC-beta bound to G-alpha-GTP
has sink: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Dissociation of G-alpha-GTP from PLC-beta and degradation
annotated target: PLC-beta bound to G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Dissociation of G-alpha-GTP from PLC-beta and degradation
annotated target: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Dissociation of G-alpha-GTP from PLC-beta and degradation
annotated target: G-alpha-GDP

Dissociation of G-alpha-GTP from activated receptor
type: NamedIndividual
type: Custom physical process
has sink: G-alpha-GTP
has sink: Ligand bound to receptor
has source: Ligand bound to receptor and G-alpha-GDP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Dissociation of G-alpha-GTP from activated receptor
annotated target: Ligand bound to receptor and G-alpha-GDP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Dissociation of G-alpha-GTP from activated receptor
annotated target: Ligand bound to receptor

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Dissociation of G-alpha-GTP from activated receptor
annotated target: G-alpha-GTP

Dissociation of G-alpha-GTP from calcium-bound PLC-beta and degradation
type: NamedIndividual
type: Custom physical process
has sink: G-alpha-GDP
has sink: PLC-beta bound to calcium (2+)
has source: PLC-beta bound to calcium (2+) and G-alpha-GTP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Dissociation of G-alpha-GTP from calcium-bound PLC-beta and degradation
annotated target: PLC-beta bound to calcium (2+)

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated source: Dissociation of G-alpha-GTP from calcium-bound PLC-beta and degradation
annotated target: PLC-beta bound to calcium (2+) and G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated source: Dissociation of G-alpha-GTP from calcium-bound PLC-beta and degradation
annotated target: G-alpha-GDP

Extracellular space
type: NamedIndividual
refers to: Extracellular space
has part: Ligand

G-alpha-GDP
type: NamedIndividual
type: Custom physical entity
is index entity for: G-alpha-GDP part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

G-alpha-GTP
type: NamedIndividual
type: Custom physical entity
is index entity for: G-alpha-GTP part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

Hydrolysis of PIP2 by calcium-bound PLC-beta
type: NamedIndividual
type: Custom physical process
has sink: 1D-myo-inositol 1,4,5-trisphosphate
has source: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
has mediator: PLC-beta bound to calcium (2+)
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated target: 1D-myo-inositol 1,4,5-trisphosphate
annotated source: Hydrolysis of PIP2 by calcium-bound PLC-beta

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated target: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
annotated source: Hydrolysis of PIP2 by calcium-bound PLC-beta

Axiom
has multiplier: 1.0
annotated property: hasMediator
annotated source: Hydrolysis of PIP2 by calcium-bound PLC-beta
annotated target: PLC-beta bound to calcium (2+)

Hydrolysis of PIP2 by calcium-bound PLC-beta and G-alpha-GTP complex
type: NamedIndividual
type: Custom physical process
has sink: 1D-myo-inositol 1,4,5-trisphosphate
has source: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
has mediator: PLC-beta bound to calcium (2+) and G-alpha-GTP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasMediator
annotated source: Hydrolysis of PIP2 by calcium-bound PLC-beta and G-alpha-GTP complex
annotated target: PLC-beta bound to calcium (2+) and G-alpha-GTP

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated target: 1D-myo-inositol 1,4,5-trisphosphate
annotated source: Hydrolysis of PIP2 by calcium-bound PLC-beta and G-alpha-GTP complex

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated target: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
annotated source: Hydrolysis of PIP2 by calcium-bound PLC-beta and G-alpha-GTP complex

Ligand
type: NamedIndividual
type: Custom physical entity
part of: Extracellular space
is index entity for: Ligand part of Extracellular space
has physical property: Chemical concentration

Ligand bound to phosphorylated receptor and G-alpha-GDP
type: NamedIndividual
type: Custom physical entity
is index entity for: Ligand bound to phosphorylated receptor and G-alpha-GDP part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

Ligand bound to receptor
type: NamedIndividual
type: Custom physical entity
is index entity for: Ligand bound to receptor part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

Ligand bound to receptor and G-alpha-GDP
type: NamedIndividual
type: Custom physical entity
is index entity for: Ligand bound to receptor and G-alpha-GDP part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

PLC-beta bound to G-alpha-GTP
type: NamedIndividual
type: Custom physical entity
is index entity for: PLC-beta bound to G-alpha-GTP part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

PLC-beta bound to calcium (2+)
type: NamedIndividual
type: Custom physical entity
is index entity for: PLC-beta bound to calcium (2+) part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

PLC-beta bound to calcium (2+) and G-alpha-GTP
type: NamedIndividual
type: Custom physical entity
is index entity for: PLC-beta bound to calcium (2+) and G-alpha-GTP part of Plasma membrane part of Regular atrial cardiac myocyte
part of: Plasma membrane
has physical property: Chemical concentration

Phosphorylation of ligand-bound receptor
type: NamedIndividual
type: Custom physical process
has sink: Ligand bound to phosphorylated receptor and G-alpha-GDP
has source: Ligand bound to receptor and G-alpha-GDP
has physical property: Chemical flow rate

Axiom
has multiplier: 1.0
annotated property: hasSource
annotated target: Ligand bound to receptor and G-alpha-GDP
annotated source: Phosphorylation of ligand-bound receptor

Axiom
has multiplier: 1.0
annotated property: hasSink
annotated target: Ligand bound to phosphorylated receptor and G-alpha-GDP
annotated source: Phosphorylation of ligand-bound receptor

Plasma membrane
type: NamedIndividual
refers to: Plasma membrane
has part: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
has part: G-alpha-GDP
has part: G-alpha-GTP
has part: Ligand bound to phosphorylated receptor and G-alpha-GDP
has part: Ligand bound to receptor
has part: Ligand bound to receptor and G-alpha-GDP
has part: PLC-beta bound to G-alpha-GTP
has part: PLC-beta bound to calcium (2+)
has part: PLC-beta bound to calcium (2+) and G-alpha-GTP
is index entity for: Plasma membrane part of Regular atrial cardiac myocyte
has part: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
has part: Receptor bound to G-alpha-GDP
has part: Receptor not bound to G-alpha-GDP
part of: Regular atrial cardiac myocyte

Portion of cytosol
type: NamedIndividual
refers to: Portion of cytosol
has part: 1D-myo-inositol 1,4,5-trisphosphate
has part: calcium(2+)
is index entity for: Portion of cytosol part of Regular atrial cardiac myocyte
part of: Regular atrial cardiac myocyte
has physical property: Fluid volume

1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
type: NamedIndividual
refers to: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
part of: Plasma membrane
is index entity for: Q9Z1B3 part of Plasma membrane part of Regular atrial cardiac myocyte
has physical property: Chemical concentration

Receptor bound to G-alpha-GDP
type: NamedIndividual
type: Custom physical entity
part of: Plasma membrane
is index entity for: Receptor bound to G-alpha-GDP part of Plasma membrane part of Regular atrial cardiac myocyte
has physical property: Chemical concentration

Receptor not bound to G-alpha-GDP
type: NamedIndividual
type: Custom physical entity
part of: Plasma membrane
is index entity for: Receptor not bound to G-alpha-GDP part of Plasma membrane part of Regular atrial cardiac myocyte
has physical property: Chemical concentration

Regular atrial cardiac myocyte
type: NamedIndividual
refers to: Regular atrial cardiac myocyte
has part: Plasma membrane
has part: Portion of cytosol

UNIT liter
type: NamedIndividual
type: Unit of measurement
has computational code: liter
is fundamental unit: true
unit factor for: UNIT uM

UNIT meter
type: NamedIndividual
type: Unit of measurement
has computational code: meter
is fundamental unit: true
unit factor for: UNIT per um
unit factor for: UNIT um2
unit factor for: UNIT um3

UNIT mole
type: NamedIndividual
type: Unit of measurement
has computational code: mole
is fundamental unit: true
unit factor for: UNIT uM

UNIT per s
type: NamedIndividual
type: Unit of measurement
has computational code: per_s
has unit factor: UNIT s
unit for: all.kf12
unit for: all.kf13
unit for: all.kf14
unit for: all.kf15
unit for: all.kf16
unit for: all.kf5
unit for: all.kf6
unit for: all.kf7
unit for: all.kr1
unit for: all.kr10
unit for: all.kr11
unit for: all.kr2
unit for: all.kr3
unit for: all.kr4
unit for: all.kr8
unit for: all.kr9

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT per s
annotated target: UNIT s

UNIT per uM per s
type: NamedIndividual
type: Unit of measurement
has computational code: per_uM_per_s
has unit factor: UNIT s
has unit factor: UNIT uM
unit for: all.kf1
unit for: all.kf11
unit for: all.kf4
unit for: all.kf8

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT per uM per s
annotated target: UNIT s

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT per uM per s
annotated target: UNIT uM

UNIT per um
type: NamedIndividual
type: Unit of measurement
has computational code: per_um
has unit factor: UNIT meter
unit for: all.Rpc

Axiom
has unit factor exponent: -1.0
has unit factor prefix: micro
annotated property: hasUnitFactor
annotated target: UNIT meter
annotated source: UNIT per um

UNIT per um2
type: NamedIndividual
type: Unit of measurement
has computational code: per_um2
has unit factor: UNIT um2
unit for: all.Cp
unit for: all.Gd
unit for: all.Gt
unit for: all.Kd2
unit for: all.P
unit for: all.PIP2
unit for: all.Pc
unit for: all.Pcg
unit for: all.Pg
unit for: all.R
unit for: all.Rg
unit for: all.Rl
unit for: all.Rlg
unit for: all.Rlgp

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT per um2
annotated target: UNIT um2

UNIT per um2 per s
type: NamedIndividual
type: Unit of measurement
has computational code: per_um2_per_s
has unit factor: UNIT s
has unit factor: UNIT um2
unit for: all.J1
unit for: all.J10
unit for: all.J11
unit for: all.J12
unit for: all.J13
unit for: all.J14
unit for: all.J15
unit for: all.J2
unit for: all.J3
unit for: all.J4
unit for: all.J5
unit for: all.J6
unit for: all.J7
unit for: all.J8
unit for: all.J9

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT per um2 per s
annotated target: UNIT s

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT per um2 per s
annotated target: UNIT um2

UNIT s
type: NamedIndividual
type: Unit of measurement
has computational code: s
unit factor for: UNIT per s
unit factor for: UNIT per uM per s
unit factor for: UNIT per um2 per s
has unit factor: UNIT second
unit factor for: UNIT uM per s
unit factor for: UNIT um2 per s
unit for: Time
unit for: all.ts

UNIT second
type: NamedIndividual
type: Unit of measurement
has computational code: second
is fundamental unit: true
unit factor for: UNIT s

UNIT uM
type: NamedIndividual
type: Unit of measurement
has computational code: uM
has unit factor: UNIT liter
has unit factor: UNIT mole
unit factor for: UNIT per uM per s
unit factor for: UNIT uM per s
unit factor for: UNIT uM um2
unit for: all.Ca
unit for: all.Cc
unit for: all.IP3
unit for: all.Kd1
unit for: all.Kd11
unit for: all.Kd4
unit for: all.Km14
unit for: all.Km15
unit for: all.L
unit for: all.Ls

Axiom
has unit factor prefix: micro
annotated property: hasUnitFactor
annotated target: UNIT mole
annotated source: UNIT uM

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT liter
annotated source: UNIT uM

UNIT uM per s
type: NamedIndividual
type: Unit of measurement
has computational code: uM_per_s
has unit factor: UNIT s
has unit factor: UNIT uM
unit for: all.J16

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT s
annotated source: UNIT uM per s

UNIT uM um2
type: NamedIndividual
type: Unit of measurement
has computational code: uM_um2
has unit factor: UNIT uM
has unit factor: UNIT um2
unit for: all.Cpc

UNIT um2
type: NamedIndividual
type: Unit of measurement
has computational code: um2
has unit factor: UNIT meter
unit factor for: UNIT per um2
unit factor for: UNIT per um2 per s
unit factor for: UNIT uM um2
unit factor for: UNIT um2 per s

Axiom
has unit factor exponent: 2.0
has unit factor prefix: micro
annotated property: hasUnitFactor
annotated target: UNIT meter
annotated source: UNIT um2

UNIT um2 per s
type: NamedIndividual
type: Unit of measurement
has computational code: um2_per_s
has unit factor: UNIT s
has unit factor: UNIT um2
unit for: all.kf10
unit for: all.kf2
unit for: all.kf3
unit for: all.kf9

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT s
annotated source: UNIT um2 per s

UNIT um3
type: NamedIndividual
type: Unit of measurement
has computational code: um3
has unit factor: UNIT meter
unit for: all.Vc

Axiom
has unit factor exponent: 3.0
has unit factor prefix: micro
annotated property: hasUnitFactor
annotated target: UNIT meter
annotated source: UNIT um3

all
type: NamedIndividual
type: Submodel
name: all
has associated data structure: all.Ca
has associated data structure: all.Cc
has associated data structure: all.Cp
has associated data structure: all.Cpc
has associated data structure: all.Gd
has associated data structure: all.Gt
has associated data structure: all.IP3
has associated data structure: all.J1
has associated data structure: all.J10
has associated data structure: all.J11
has associated data structure: all.J12
has associated data structure: all.J13
has associated data structure: all.J14
has associated data structure: all.J15
has associated data structure: all.J16
has associated data structure: all.J2
has associated data structure: all.J3
has associated data structure: all.J4
has associated data structure: all.J5
has associated data structure: all.J6
has associated data structure: all.J7
has associated data structure: all.J8
has associated data structure: all.J9
has associated data structure: all.Kd1
has associated data structure: all.Kd11
has associated data structure: all.Kd2
has associated data structure: all.Kd4
has associated data structure: all.Km14
has associated data structure: all.Km15
has associated data structure: all.L
has associated data structure: all.Ls
has associated data structure: all.P
has associated data structure: all.PIP2
has associated data structure: all.Pc
has associated data structure: all.Pcg
has associated data structure: all.Pg
has associated data structure: all.R
has associated data structure: all.Rg
has associated data structure: all.Rl
has associated data structure: all.Rlg
has associated data structure: all.Rlgp
has associated data structure: all.Rpc
has associated data structure: all.Vc
has associated data structure: all.kf1
has associated data structure: all.kf10
has associated data structure: all.kf11
has associated data structure: all.kf12
has associated data structure: all.kf13
has associated data structure: all.kf14
has associated data structure: all.kf15
has associated data structure: all.kf16
has associated data structure: all.kf2
has associated data structure: all.kf3
has associated data structure: all.kf4
has associated data structure: all.kf5
has associated data structure: all.kf6
has associated data structure: all.kf7
has associated data structure: all.kf8
has associated data structure: all.kf9
has associated data structure: all.kr1
has associated data structure: all.kr10
has associated data structure: all.kr11
has associated data structure: all.kr2
has associated data structure: all.kr3
has associated data structure: all.kr4
has associated data structure: all.kr8
has associated data structure: all.kr9
has associated data structure: Time
has associated data structure: all.ts
has computational component: all computation

all.Ca
type: NamedIndividual
type: Decimal
has start value: 0.1
metadata ID: all_Ca
is discrete: false
is solution domain: false
is declared: true
comment: Cytosolic calcium (2+) concentration
has unit: UNIT uM
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: calcium(2+)
has computational component: all.Ca

all.Cc
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Factor for converting from number of particles to cytosolic concentration
has unit: UNIT uM
is computational component for: all.Cc property

all.Cp
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Factor for converting number of particles to a density on the cell’s plasma membrane
has unit: UNIT per um2
is computational component for: all.Cp property

all.Cpc
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Factor for converting between density fluxes and concentration fluxes
has unit: UNIT uM um2
is computational component for: all.Cpc property

all.Gd
type: NamedIndividual
type: Decimal
has start value: 10000
metadata ID: all_Gd
is solution domain: false
is discrete: false
is declared: true
comment: Area density of free inactive G-protein. "...represents the densities of a species required to form that mobile messenger—the amount of free G-alpha-GDP."
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: G-alpha-GDP
has computational component: all.Gd

all.Gt
type: NamedIndividual
type: Decimal
has start value: 0
metadata ID: all_Gt
is solution domain: false
is discrete: false
is declared: true
comment: G-alpha-GTP density
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: G-alpha-GTP
has computational component: all.Gt

all.IP3
type: NamedIndividual
type: Decimal
has start value: 0.015
metadata ID: all_IP3
is solution domain: false
is discrete: false
is declared: true
comment: IP3 concentration in cytosol
has unit: UNIT uM
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: 1D-myo-inositol 1,4,5-trisphosphate
has computational component: all.IP3

all.J1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R1 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

all.J10
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Reaction R10 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of G-alpha-GTP to calcium-bound PLC-beta
has computational component: all.J10

all.J11
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Reaction R11 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of calcium to G-alpha-GTP-bound PLC-beta
has computational component: all.J11

all.J12
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R12 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Dissociation of G-alpha-GTP from calcium-bound PLC-beta and degradation
has computational component: all.J12

all.J13
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R13 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Dissociation of G-alpha-GTP from PLC-beta and degradation
has computational component: all.J13

all.J14
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R14 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Hydrolysis of PIP2 by calcium-bound PLC-beta
has computational component: all.J14

all.J15
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R15 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Hydrolysis of PIP2 by calcium-bound PLC-beta and G-alpha-GTP complex
has computational component: all.J15

all.J16
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R16 flux
has unit: UNIT uM per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Degradation of free IP3
has computational component: all.J16

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of ligand to receptor
has computational component: all.J1

all.J2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R2 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of G-alpha-GDP to receptor
has computational component: all.J2

all.J3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R3 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of ligand and receptor to G-alpha-GDP
has computational component: all.J3

all.J4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R4 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of ligand to receptor and G-alpha-GDP
has computational component: all.J4

all.J5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R5 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Phosphorylation of ligand-bound receptor
has computational component: all.J5

all.J6
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R6 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Dissociation of G-alpha-GTP from activated receptor
has computational component: all.J6

all.J7
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R7 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Degradation of G-alpha-GTP
has computational component: all.J7

all.J8
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R8 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of calcium to PLC-beta
has computational component: all.J8

all.J9
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R9 flux
has unit: UNIT per um2 per s
is computational component for: Chemical flow rate

Chemical flow rate
type: NamedIndividual
refers to: Chemical flow rate
physical property of: Binding of PLC-beta to G-alpha-GTP
has computational component: all.J9

all.Kd1
type: NamedIndividual
type: Decimal
has start value: 3e-5
is solution domain: false
is discrete: false
is declared: true
comment: Dissociation constant for the binding of ligand to the receptor with no attached G-protein
has unit: UNIT uM
is computational component for: all.Kd1 property

all.Kd11
type: NamedIndividual
type: Decimal
has start value: 0.1
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R11 dissociation rate constant
has unit: UNIT uM
is computational component for: all.Kd11 property

all.Kd2
type: NamedIndividual
type: Decimal
has start value: 27500
is discrete: false
is solution domain: false
is declared: true
comment: Dissociation constant for the binding of unbound receptor to G-protein
has unit: UNIT per um2
is computational component for: all.Kd2 property

all.Kd4
type: NamedIndividual
type: Decimal
has start value: 3e-5
is solution domain: false
is discrete: false
is declared: true
comment: Dissociation constant for the binding of ligand to the receptor with attached G-protein
has unit: UNIT uM
is computational component for: all.Kd4 property

all.Km14
type: NamedIndividual
type: Decimal
has start value: 19.8
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R14 Km value
has unit: UNIT uM
is computational component for: all.Km14 property

all.Km15
type: NamedIndividual
type: Decimal
has start value: 5
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R15 Km value
has unit: UNIT uM
is computational component for: all.Km15 property

all.L
type: NamedIndividual
type: Decimal
metadata ID: all_L
is discrete: false
is solution domain: false
is declared: true
comment: Extracellular ligand concentration for unstimulated condition
has unit: UNIT uM
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Ligand
has computational component: all.L

all.Ls
type: NamedIndividual
type: Decimal
has start value: 0.1
is solution domain: false
is discrete: false
is declared: true
comment: Full-strength ligand concentration during stimulation
has unit: UNIT uM
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Ligand
has computational component: all.Ls

all.P
type: NamedIndividual
type: Decimal
has start value: 90.9
metadata ID: all_P
is discrete: false
is solution domain: false
is declared: true
comment: PLC-beta density
has unit: UNIT per um2
is computational component for: Chemical concentration

all.PIP2
type: NamedIndividual
type: Decimal
has start value: 4000
metadata ID: all_PIP2
is discrete: false
is solution domain: false
is declared: true
comment: PIP2 density
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate
has computational component: all.PIP2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-1 (EC 3.1.4.11) (PLC-154) (Phosphoinositide phospholipase C-beta-1) (Phospholipase C-beta-1) (PLC-beta-1)
has computational component: all.P

all.Pc
type: NamedIndividual
type: Decimal
has start value: 9.09
metadata ID: all_Pc
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Density of PLC-beta bound to calcium (2+)
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: PLC-beta bound to calcium (2+)
has computational component: all.Pc

all.Pcg
type: NamedIndividual
type: Decimal
has start value: 0
metadata ID: all_Pcg
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Density of PLC-beta bound to calcium (2+) and G-alpha-GTP
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: PLC-beta bound to calcium (2+) and G-alpha-GTP
has computational component: all.Pcg

all.Pg
type: NamedIndividual
type: Decimal
has start value: 0
metadata ID: all_Pg
is solution domain: false
is discrete: false
is declared: true
comment: Density of PLC-beta bound to G-alpha-GTP
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: PLC-beta bound to G-alpha-GTP
has computational component: all.Pg

all.R
type: NamedIndividual
type: Decimal
has start value: 13.9
metadata ID: all_R
is discrete: false
is solution domain: false
is declared: true
comment: Area density of noncoupled receptors
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Receptor not bound to G-alpha-GDP
has computational component: all.R

all.Rg
type: NamedIndividual
type: Decimal
has start value: 5.06
metadata ID: all_Rg
is discrete: false
is solution domain: false
is declared: true
comment: Density of receptors coupled with G-proteins
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Receptor bound to G-alpha-GDP
has computational component: all.Rg

all.Rl
type: NamedIndividual
type: Decimal
has start value: 0
metadata ID: all_Rl
is discrete: false
is solution domain: false
is declared: true
comment: Ligand-bound receptor density
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Ligand bound to receptor
has computational component: all.Rl

all.Rlg
type: NamedIndividual
type: Decimal
has start value: 0
metadata ID: all_Rlg
is discrete: false
is solution domain: false
is declared: true
comment: Active receptor density
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Ligand bound to receptor and G-alpha-GDP
has computational component: all.Rlg

all.Rlgp
type: NamedIndividual
type: Decimal
has start value: 0
metadata ID: all_Rlgp
is discrete: false
is solution domain: false
is declared: true
comment: Phosphorylated receptor density
has unit: UNIT per um2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: Ligand bound to phosphorylated receptor and G-alpha-GDP
has computational component: all.Rlgp

all.Rpc
type: NamedIndividual
type: Decimal
has start value: 4.61
is solution domain: false
is discrete: false
is declared: true
comment: Ratio of plasma membrane surface area to cytosolic volume
has unit: UNIT per um
is computational component for: all.Rpc property

all.Vc
type: NamedIndividual
type: Decimal
has start value: 2550
is discrete: false
is solution domain: false
is declared: true
comment: Cytosolic volume
has unit: UNIT um3
is computational component for: Fluid volume

Fluid volume
type: NamedIndividual
refers to: Fluid volume
physical property of: Portion of cytosol
has computational component: all.Vc

all.kf1
type: NamedIndividual
type: Decimal
has start value: 0.0003
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R1 forward rate constant
has unit: UNIT per uM per s
is computational component for: all.kf1 property

all.kf10
type: NamedIndividual
type: Decimal
has start value: 0.042
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R10 forward rate constant
has unit: UNIT um2 per s
is computational component for: all.kf10 property

all.kf11
type: NamedIndividual
type: Decimal
has start value: 0.0334
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R11 forward rate constant
has unit: UNIT per uM per s
is computational component for: all.kf11 property

all.kf12
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R12 forward rate constant
has unit: UNIT per s
is computational component for: all.kf12 property

all.kf13
type: NamedIndividual
type: Decimal
has start value: 6
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R13 forward rate constant
has unit: UNIT per s
is computational component for: all.kf13 property

all.kf14
type: NamedIndividual
type: Decimal
has start value: 0.444
is solution domain: false
is discrete: false
is declared: true
comment: Rate constant for the nonstimulated IP3 production reaction
has unit: UNIT per s
is computational component for: all.kf14 property

all.kf15
type: NamedIndividual
type: Decimal
has start value: 3.8
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R15 forward rate constant
has unit: UNIT per s
is computational component for: all.kf15 property

all.kf16
type: NamedIndividual
type: Decimal
has start value: 1.25
is discrete: false
is solution domain: false
is declared: true
comment: Rate constant for the degradation of IP3
has unit: UNIT per s
is computational component for: all.kf16 property

all.kf2
type: NamedIndividual
type: Decimal
has start value: 2.75e-4
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R2 forward rate constant
has unit: UNIT um2 per s
is computational component for: all.kf2 property

all.kf3
type: NamedIndividual
type: Decimal
has start value: 1
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R3 forward rate constant
has unit: UNIT um2 per s
is computational component for: all.kf3 property

all.kf4
type: NamedIndividual
type: Decimal
has start value: 0.3
is solution domain: false
is discrete: false
is declared: true
comment: Forward rate for the binding of ligand to precoupled receptor
has unit: UNIT per uM per s
is computational component for: all.kf4 property

all.kf5
type: NamedIndividual
type: Decimal
has start value: 0.0004
is discrete: false
is solution domain: false
is declared: true
comment: Rate constant for the phosphorylation of active receptor
has unit: UNIT per s
is computational component for: all.kf5 property

all.kf6
type: NamedIndividual
type: Decimal
has start value: 1
is discrete: false
is solution domain: false
is declared: true
comment: G-protein dissociation rate from the activated receptor
has unit: UNIT per s
is computational component for: all.kf6 property

all.kf7
type: NamedIndividual
type: Decimal
has start value: 0.15
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R7 forward rate constant
has unit: UNIT per s
is computational component for: all.kf7 property

all.kf8
type: NamedIndividual
type: Decimal
has start value: 0.0167
is discrete: false
is solution domain: false
is declared: true
comment: Forward rate constant for the binding of calcium to PLC-beta
has unit: UNIT per uM per s
is computational component for: all.kf8 property

all.kf9
type: NamedIndividual
type: Decimal
has start value: 0.0042
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R9 forward rate constant
has unit: UNIT um2 per s
is computational component for: all.kf9 property

all.kr1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R1 reverse rate constant
has unit: UNIT per s
is computational component for: all.kr1 property

all.kr10
type: NamedIndividual
type: Decimal
has start value: 1
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R10 reverse rate constant
has unit: UNIT per s
is computational component for: all.kr10 property

all.kr11
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R11 reverse rate constant
has unit: UNIT per s
is computational component for: all.kr11 property

all.kr2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R2 reverse rate constant
has unit: UNIT per s
is computational component for: all.kr2 property

all.kr3
type: NamedIndividual
type: Decimal
has start value: 0.001
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R3 reverse rate constant
has unit: UNIT per s
is computational component for: all.kr3 property

all.kr4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
is declared: true
comment: Reaction R2 reverse rate constant
has unit: UNIT per s
is computational component for: all.kr4 property

all.kr8
type: NamedIndividual
type: Decimal
has start value: 0.0167
is discrete: false
is solution domain: false
is declared: true
comment: Reverse rate constant for the binding of calcium to PLC-beta
has unit: UNIT per s
is computational component for: all.kr8 property

all.kr9
type: NamedIndividual
type: Decimal
has start value: 1
is solution domain: false
is discrete: false
is declared: true
comment: Reaction R9 forward rate constant
has unit: UNIT per s
is computational component for: all.kr9 property

Time
type: NamedIndividual
type: Decimal
metadata ID: all_t
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
is declared: true
comment: Time domain
has unit: UNIT s
is computational component for: all.t property

all.ts
type: NamedIndividual
type: Decimal
has start value: 10
is solution domain: false
is discrete: false
is declared: true
comment: Time of ligand stimulation
has unit: UNIT s
is computational component for: all.ts property

all computation
type: NamedIndividual
type: Computation
has math ML: <apply> <eq /> <ci>Cc</ci> <apply> <divide /> <cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">1</cn> <apply> <times /> <ci>Vc</ci> <cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" type="e-notation" cellml:units="per_uM_per_um3"> 6.022 <sep /> 2 </cn> </apply> </apply> </apply> <apply> <eq /> <ci>Cp</ci> <apply> <divide /> <cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">1</cn> <apply> <times /> <ci>Vc</ci> <ci>Rpc</ci> </apply> </apply> </apply> <apply> <eq /> <ci>Cpc</ci> <apply> <divide /> <ci>Cc</ci> <ci>Cp</ci> </apply> </apply> <apply> <eq /> <apply> <diff /> <bvar> <ci>t</ci> </bvar> <ci>P</ci> </apply> <apply> <minus /> <ci>J13</ci> <apply> <plus /> <ci>J9</ci> <ci>J8</ci> </apply> </apply> </apply> <apply> <eq /> <apply> <diff /> <bvar> <ci>t</ci> </bvar> <ci>Pg</ci> </apply> <apply> <minus /> <ci>J9</ci> <apply> <plus /> <ci>J11</ci> <ci>J13</ci> </apply> </apply> </apply> <apply> <eq /> <apply> <diff /> <bvar> <ci>t</ci> </bvar> <ci>Pc</ci> </apply> <apply> <minus /> <apply> <plus /> <ci>J8</ci> <ci>J12</ci> </apply> <ci>J10</ci> </apply> </apply> <apply> <eq /> <apply> <diff /> <bvar> <ci>t</ci> </bvar> <ci>Pcg</ci> </apply> <apply> <minus /> <apply> <plus /> <ci>J10</ci> <ci>J11</ci> </apply> <ci>J12</ci> </apply> </apply> <apply> <eq /> <ci>J13</ci> <apply> <times /> <ci>kf13</ci> <ci>Pg</ci> </apply> </apply> <apply> <eq /> <ci>J12</ci> <apply> <times /> <ci>kf12</ci> <ci>Pcg</ci> </apply> </apply> <apply> <eq /> <ci>kr11</ci> <apply> <times /> <ci>kf11</ci> <ci>Kd11</ci> </apply> </apply> <apply> <eq /> <ci>J11</ci> <apply> <minus /> <apply> <times /> <ci>kf11</ci> <ci>Pg</ci> <ci>Ca</ci> </apply> <apply> <times /> <ci>kr11</ci> <ci>Pcg</ci> </apply> </apply> </apply> <apply> <eq /> <ci>J10</ci> <apply> <minus /> <apply> <times /> <ci>kf10</ci> <ci>Pc</ci> <ci>Gt</ci> </apply> <apply> <times /> <ci>kr10</ci> <ci>Pcg</ci> </apply> </apply> </apply> <apply> <eq /> <ci>J8</ci> <apply>…
is computational component for: all