03032015122750337m0500
type: Ontology
legacy code URI: /Users/max_neal/Dropbox/Semantic Project/Annotated CellML models/asthagiri_lauffenburger_2001/asthagiri_lauffenburger_2001.cellml
sem sim version: 0.2
has cell m ldocumentation: Feedback Effects On Signal Dynamics In A Mitogen-Activated Protein Kinase (MAPK) Cascade Catherine Lloyd Bioengineering Institute, University of Auckland Model Status This model has been recoded in CellML without the use of the reaction element. The parameters and differential equations described in the original publication were used. This CellML model is known to read in both COR and PCEnv although currently it is unable to recreate the published results from the original model. ValidateCellML detects widespread unit inconsistency within this model. Model Structure In 2001, Anand Asthagiri and Douglas Lauffenburger published a mathematical model which examined the mechanisms that govern MAPK pathway dynamics (see the figure below). Their model builds upon the MAPK cascade model of Chi-Ying Huang and James Ferrell (1996). This earlier model focused on the steady-state effects of signaling, whereas more recently, it has been discovered that a signal's information content partly resides in its dynamics. In their model, Anand Asthagiri and Douglas Lauffenburger concentrate on the role of negative feedback mechanisms in the generation of signal adaptation - a term referring to the reset of a signal to prestimulation levels. They assess how different modes of feedback affect the properties of MAPK signalling dynamics. The complete original paper reference is cited below: A Computational Study of Feedback Effects on Signal Dynamics in a Mitogen-Activated Protein Kinase (MAPK) Pathway Model , Anand R. Asthagiri and Douglas A. Lauffenburger, 2001, Biotechnol. Prog , 17, 227-239. ( Full text and PDF versions are available to subscribers on the ACS Publications website. PubMed ID: 11312698 the conventional rendering of the MAPK cascade with feedback effects <imagedata fileref="asthagiri_2001.png" /> A rendering of the MAPK cascade with feedback effects. Species are represented by rounded rectangles, and reactions by arrows. The action of a catalyst on a reaction is represente…
has cell m lrdf markup: <rdf:RDF xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:j.0="http://imc.org/vCard/3.0#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/"> <rdf:Description rdf:about="http://www.cellml.org/p5"> <dc:title>p5</dc:title> <dcterms:alternative>deactivating enzyme 5</dcterms:alternative> </rdf:Description> <rdf:Description rdf:about="http://www.cellml.org/e5"> <dc:title>e5</dc:title> <dcterms:alternative>inactive signalling enzyme 5</dcterms:alternative> </rdf:Description> <rdf:Description rdf:about="http://www.cellml.org/e1_e0_star"> <dc:title>e1_e0_star</dc:title> <dcterms:alternative>transition complex between an inactive substate and its activator (1)</dcterms:alternative> </rdf:Description> <rdf:Description rdf:about="http://www.cellml.org/cellml/1.0"> <cmeta:modification> <rdf:Description rdf:about="rdf:#409f387f-9cd8-494c-88c3-0de609f3bf1f"> <cmeta:modifier> <rdf:Description rdf:about="rdf:#e8e4d40e-7077-452b-9861-a17c1d895a6b"> <vCard:N> <rdf:Description rdf:about="rdf:#dfb7b2f6-a488-4b16-a1f7-c7720d678405"> <vCard:Other>Richard</vCard:Other> <vCard:Family>Lawson</vCard:Family> <vCard:Given>James</vCard:Given> </rdf:Description> </vCard:N> </rdf:Description> </cmeta:modifier> <rdf:value>Updated curation status</rdf:value> <dcterms:modified> <rdf:Description rdf:about="rdf:#d398f452-6bcf-4dc5-923c-f57ede0a101d"> <dcterms:W3CDTF>2009-04-30T16:16:27+12:00</dcterms:W3CDTF> </rdf:Description> </dcterms:modified> </rdf:Description> </cmeta:modification> <cmeta:modification> <rdf:Description rdf:about="rdf:#4c70a99e-bdc6-401d-ae4e-aca9b19bd1e6"> <cmeta:modifier> <rdf:Description rdf:about="rdf:#569114dc-d6f2-4dd7-8e62-27e466c5085d"> <vCard:N> <rdf:Description rdf:about="rdf:#ddfadf74-23f9-431a-b0ec-05574021c9f3"> <vCard:Other>May</vCard:Other> <vCard:Family>Lloyd</vCard:Family> …
model id: asthagiri_model_2001
model name: asthagiri_model_2001

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

P28482
type: Class
label: Mitogen-activated protein kinase 1 (MAP kinase 1) (MAPK 1) (EC 2.7.11.24) (ERT1) (Extracellular signal-regulated kinase 2) (ERK-2) (MAP kinase isoform p42) (p42-MAPK) (Mitogen-activated protein kinase 2) (MAP kinase 2) (MAPK 2) (P28482)
subclass of: Reference physical entity
subclass of: Restriction
  on property: refersTo
  has value: http://identifiers.org/uniprot/P28482

Oocyte
type: Class
subclass of: Reference physical entity
subclass of: Restriction
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  has value: Oocyte

Composite physical entity
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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
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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
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subclass of: Physical dependency
disjoint with: Reference physical dependency
comment: A physical dependency defined in a specific SemSim model.

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

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

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

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

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

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

Reference physical process
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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
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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
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comment: A computational or physical element of a SemSim model.

Submodel
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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.

Oocyte
type: NamedIndividual
refers to: Oocyte
has part: P28482_0

P28482_0
type: NamedIndividual
type: P28482
label: Mitogen-activated protein kinase 1 (MAP kinase 1) (MAPK 1) (EC 2.7.11.24) (ERT1) (Extracellular signal-regulated kinase 2) (ERK-2) (MAP kinase isoform p42) (p42-MAPK) (Mitogen-activated protein kinase 2) (MAP kinase 2) (MAPK 2) (P28482)
refers to: http://identifiers.org/uniprot/P28482
part of: Oocyte
is index entity for: P28482 part of Oocyte
has physical property: Chemical concentration

UNIT cell
type: NamedIndividual
type: Unit of measurement
has computational code: cell
is fundamental unit: true
unit factor for: UNIT number per cell

UNIT first order rate constant
type: NamedIndividual
type: Unit of measurement
has computational code: first_order_rate_constant
has unit factor: UNIT minute
unit for: a1a2.kd 12
unit for: a1a2.kr
unit for: a1a2.kr 12
unit for: a2 minus.kcat x
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unit for: c.kr
unit for: c.ku
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unit for: c2.ku
unit for: c star.kc minus
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unit for: e1 star p1.kP1 minus
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unit for: e1 star p1.kr
unit for: e2 e1 star.k2 minus
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unit for: e2 minus.kcat z
unit for: e2 minus.kr
unit for: e2 star.k3 minus
unit for: e2 star.kP2 minus
unit for: e2 star.kcat 2
unit for: e2 star.kcat 3
unit for: e2 star.kr
unit for: e2 star.kz minus
unit for: e2 star e4 star.k2 minus
unit for: e2 star e4 star.kcat z
unit for: e2 star e4 star.kr
unit for: e2 star e4 star.kz minus
unit for: e2 star p2.kP2 minus
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unit for: e2 star p2.kr
unit for: e3 e2 star.k3 minus
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unit for: e3 star.k4 minus
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unit for: e3 star.kcat 4
unit for: e3 star.kr
unit for: e3 star p3.kP3 minus
unit for: e3 star p3.kcat P3
unit for: e3 star p3.kr
unit for: e4 e3 star.k4 minus
unit for: e4 e3 star.kcat 4
unit for: e4 e3 star.kr
unit for: e4 star.k5 minus
unit for: e4 star.kP4 minus

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated source: UNIT first order rate constant
annotated target: UNIT minute

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

UNIT minute
type: NamedIndividual
type: Unit of measurement
has computational code: minute
unit factor for: UNIT first order rate constant
has unit factor: UNIT second
unit factor for: UNIT second order rate constant
unit for: Time

UNIT molar
type: NamedIndividual
type: Unit of measurement
has computational code: molar
has unit factor: UNIT litre
has unit factor: UNIT mole
unit factor for: UNIT second order rate constant
unit for: a1.a1
unit for: a1.a1a2
unit for: a1.c star a1
unit for: a1.e0 star
unit for: a1.e0 star e4 star
unit for: a1.e1 e0 star
unit for: a1a2.a1
unit for: a1a2.a1a2
unit for: a1a2.a2
unit for: a1a2.c star
unit for: a1a2.e0 star
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unit for: a2.a2 minus
unit for: a2.e0 star
unit for: a2.e0 star e4 star
unit for: a2.e1 e0 star
unit for: a2 minus.a2 minus
unit for: a2 minus.e0 star e4 star
unit for: c.L0
unit for: c.c
unit for: c.c2
unit for: c2.c
unit for: c2.c2
unit for: c2.c star
unit for: c star.a1
unit for: c star.a1a2
unit for: c star.c2
unit for: c star.c star
unit for: c star.c star a1
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unit for: c star a1.a2
unit for: c star a1.c star
unit for: c star a1.c star a1
unit for: c star a1.e0 star
unit for: c star a1.e0 star e4 star
unit for: e0 star.a1a2
unit for: e0 star.a2
unit for: e0 star.c star
unit for: e0 star.c star a1
unit for: e0 star.e0 star
unit for: e0 star.e0 star e4 star
unit for: e0 star.e1
unit for: e0 star.e1 e0 star
unit for: e0 star.e4 star
unit for: e0 star e4 star.e0 star
unit for: e0 star e4 star.e0 star e4 star
unit for: e0 star e4 star.e4 star
unit for: e1.e1
unit for: e1.e1 e0 star
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unit for: e1.e1 star p1
unit for: e1.e2 e1 star
unit for: e1 e0 star.e0 star
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unit for: e1 star.e1 e0 star
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unit for: e1 star.e2
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unit for: e1 star p1.e1 star
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unit for: e2.e2
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unit for: e2 e1 star.e1 star

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT litre
annotated source: UNIT molar

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

UNIT number
type: NamedIndividual
type: Unit of measurement
has computational code: number
is fundamental unit: true
unit factor for: UNIT number per cell

UNIT number per cell
type: NamedIndividual
type: Unit of measurement
has computational code: number_per_cell
has unit factor: UNIT cell
has unit factor: UNIT number
unit for: a1.A1 T
unit for: a1.A2 T
unit for: a1.E1 T
unit for: a1.E4 T
unit for: a1a2.A1 T
unit for: a1a2.A2 T
unit for: a1a2.R0
unit for: a2.A1 T
unit for: a2.A2 T
unit for: a2.E1 T
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unit for: a2 minus.A2 T
unit for: a2 minus.E4 T
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unit for: c.r
unit for: c2.R0
unit for: c star.A1 T
unit for: c star.A2 T
unit for: c star.R0
unit for: c star a1.A1 T
unit for: c star a1.A2 T
unit for: c star a1.E4 T
unit for: c star a1.R0
unit for: e0 star.A1 T
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unit for: e1.E2 T
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unit for: e2 star.E3 T
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unit for: e3.E3 T
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unit for: e3 star.P3 T
unit for: e3 star p3.E3 T
unit for: e4.E4 T
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Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT cell
annotated source: UNIT number per cell

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

UNIT second order rate constant
type: NamedIndividual
type: Unit of measurement
has computational code: second_order_rate_constant
has unit factor: UNIT minute
has unit factor: UNIT molar
unit for: a1a2.kc 12
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Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT molar
annotated source: UNIT second order rate constant

Axiom
has unit factor exponent: -1.0
annotated property: hasUnitFactor
annotated target: UNIT minute
annotated source: UNIT second order rate constant

a1
type: NamedIndividual
type: Submodel
name: a1
has associated data structure: a1.A1 T
has associated data structure: a1.A2 T
has associated data structure: a1.E1 T
has associated data structure: a1.E4 T
has associated data structure: a1.a1
has associated data structure: a1.a1a2
has associated data structure: a1.c star a1
has associated data structure: a1.e0 star
has associated data structure: a1.e0 star e4 star
has associated data structure: a1.e1 e0 star
has computational component: a1 computation

a1.A1 T
type: NamedIndividual
type: Decimal
is solution domain: false
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is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: a1.A1 T property

a1.A2 T
type: NamedIndividual
type: Decimal
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has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: a1.A2 T property

a1.E1 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: a1.E1 T property

a1.E4 T
type: NamedIndividual
type: Decimal
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is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: a1.E4 T property

a1.a1
type: NamedIndividual
type: Decimal
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is solution domain: false
has cell m lpublic interface: out
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comment: Concentration of free first adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration
mapped to: a1a2.a1
mapped to: c star.a1
mapped to: c star a1.a1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1.a1

a1.a1a2
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type: Decimal
is solution domain: false
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has cell m lpublic interface: in
is declared: true
comment: Concentration of adaptor heterodimer
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1.a1a2

a1.c star a1
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type: Decimal
is discrete: false
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has cell m lpublic interface: in
is declared: true
comment: Concentration of active receptor-ligand dimer bound to adaptor 1 complex
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1.c star a1

a1.e0 star
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type: Decimal
is solution domain: false
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has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

a1.e0 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
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has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1.e0 star

a1.e1 e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1.e1 e0 star

a1 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> a1 <minus /> 1.0 <plus /> c_star_a1 a1a2 <times /> <divide /> A2_T A1_T e0_star <times /> <divide /> E4_T A1_T e0_star_e4_star <times /> <divide /> E1_T A1_T e1_e0_star
is computational component for: a1

a1a2
type: NamedIndividual
type: Submodel
name: a1a2
has associated data structure: a1a2.A1 T
has associated data structure: a1a2.A2 T
has associated data structure: a1a2.R0
has associated data structure: a1a2.a1
has associated data structure: a1a2.a1a2
has associated data structure: a1a2.a2
has associated data structure: a1a2.c star
has associated data structure: a1a2.e0 star
has associated data structure: a1a2.kc 12
has associated data structure: a1a2.kd 12
has associated data structure: a1a2.kf 12
has associated data structure: a1a2.kr
has associated data structure: a1a2.kr 12
has associated data structure: Time
has computational component: a1a2 computation

a1a2.A1 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: a1a2.A1 T property

a1a2.A2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: a1a2.A2 T property

a1a2.R0
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
is computational component for: a1a2.R0 property

a1a2.a1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free first adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1a2.a1

a1a2.a1a2
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of adaptor heterodimer
has unit: UNIT molar
mapped to: a1.a1a2
is computational component for: Chemical concentration
mapped to: a2.a1a2
mapped to: c star.a1a2
mapped to: e0 star.a1a2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1a2.a1a2

a1a2.a2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free second adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1a2.a2

a1a2.c star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of dimerized and activated receptor
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1a2.c star

a1a2.e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a1a2.e0 star

a1a2.kc 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association adaptor protein 1 (A1) with adaptor protein 2 (A2)
has unit: UNIT second order rate constant
is computational component for: a1a2.kc 12 property

a1a2.kd 12
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of adaptor protein 1 (A1) with adaptor protein 2 (A2)
has unit: UNIT first order rate constant
is computational component for: a1a2.kd 12 property

a1a2.kf 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT second order rate constant
is computational component for: a1a2.kf 12 property

a1a2.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: a1a2.kr property

a1a2.kr 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT first order rate constant
is computational component for: a1a2.kr 12 property

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: a1a2.time property

a1a2 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time a1a2 <minus /> <plus /> <times /> <divide /> kr_12 kr <divide /> A2_T A1_T e0_star <times /> <divide /> <times /> kc_12 A2_T kr a1 a2 <plus /> <times /> <divide /> kd_12 kr a1a2 <times /> <divide /> <times /> kf_12 R0 kr c_star a1a2
is computational component for: a1a2

a2
type: NamedIndividual
type: Submodel
name: a2
has associated data structure: a2.A1 T
has associated data structure: a2.A2 T
has associated data structure: a2.E1 T
has associated data structure: a2.E4 T
has associated data structure: a2.a1a2
has associated data structure: a2.a2
has associated data structure: a2.a2 minus
has associated data structure: a2.e0 star
has associated data structure: a2.e0 star e4 star
has associated data structure: a2.e1 e0 star
has computational component: a2 computation

a2.A1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: a2.A1 T property

a2.A2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: a2.A2 T property

a2.E1 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: a2.E1 T property

a2.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: a2.E4 T property

a2.a1a2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of adaptor heterodimer
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2.a1a2

a2.a2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of free second adaptor protein
has unit: UNIT molar
mapped to: a1a2.a2
is computational component for: Chemical concentration
mapped to: c star a1.a2
mapped to: e0 star.a2

a2.a2 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of nonfunctional second adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2.a2 minus

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2.a2

a2.e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

a2.e0 star e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2.e0 star

a2.e1 e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2.e1 e0 star

a2 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> a2 <minus /> 1.0 <plus /> <times /> <divide /> A1_T A2_T a1a2 e0_star <times /> <divide /> E4_T A2_T e0_star_e4_star <times /> <divide /> E1_T A2_T e1_e0_star a2_minus
is computational component for: a2

a2 minus
type: NamedIndividual
type: Submodel
name: a2_minus
has associated data structure: a2 minus.A2 T
has associated data structure: a2 minus.E4 T
has associated data structure: a2 minus.a2 minus
has associated data structure: a2 minus.e0 star e4 star
has associated data structure: a2 minus.kcat x
has associated data structure: a2 minus.kr
has associated data structure: Time
has computational component: a2 minus computation

a2 minus.A2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: a2 minus.A2 T property

a2 minus.E4 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: a2 minus.E4 T property

a2 minus.a2 minus
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of nonfunctional second adaptor protein
has unit: UNIT molar
mapped to: a2.a2 minus
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2 minus.a2 minus

a2 minus.e0 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: a2 minus.e0 star e4 star

a2 minus.kcat x
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: First order rate constant for dissociation of E0*E4* complex into C*A1, A2- and E4*
has unit: UNIT first order rate constant
is computational component for: a2 minus.kcat x property

a2 minus.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: a2 minus.kr property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: a2 minus.time property

a2 minus computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time a2_minus <times /> <divide /> kcat_x kr <divide /> E4_T A2_T e0_star_e4_star
is computational component for: a2 minus

http://www.bhi.washington.edu/SemSim/03032015122750337m0500#c
type: NamedIndividual
type: Submodel
name: c
has associated data structure: c.L0
has associated data structure: c.R0
has associated data structure: c.c
has associated data structure: c.c2
has associated data structure: c.kc
has associated data structure: c.kf
has associated data structure: c.kr
has associated data structure: c.ku
has associated data structure: c.r
has associated data structure: Time
has computational component: c computation

c.L0
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Initial ligand concentration
has unit: UNIT molar
is computational component for: c.L0 property

c.R0
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
is computational component for: c.R0 property

c.c
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of free ligand-bound receptor
has unit: UNIT molar
is computational component for: Chemical concentration
mapped to: c2.c
mapped to: r.c

c.c2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of ligand-bound and dimerized receptor
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c.c2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c.c

c.kc
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for dimerization of ligand-bound receptors
has unit: UNIT second order rate constant
is computational component for: c.kc property

c.kf
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand association rate constant
has unit: UNIT second order rate constant
is computational component for: c.kf property

c.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: c.kr property

c.ku
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for dissociation of dimers
has unit: UNIT first order rate constant
is computational component for: c.ku property

c.r
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Number of free receptors in cell
has unit: UNIT number per cell
is computational component for: c.r property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: c.time property

c2
type: NamedIndividual
type: Submodel
name: c2
has associated data structure: c2.R0
has associated data structure: c2.c
has associated data structure: c2.c2
has associated data structure: c2.c star
has associated data structure: c2.kc
has associated data structure: c2.kc minus
has associated data structure: c2.kc plus
has associated data structure: c2.kf
has associated data structure: c2.kr
has associated data structure: c2.ku
has associated data structure: Time
has computational component: c2 computation

c2.R0
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
is computational component for: c2.R0 property

c2.c
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free ligand-bound receptor
has unit: UNIT molar
is computational component for: Chemical concentration

c2.c2
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of ligand-bound and dimerized receptor
has unit: UNIT molar
mapped to: c.c2
is computational component for: Chemical concentration
mapped to: c star.c2
mapped to: r.c2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c2.c2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c2.c

c2.c star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of dimerized and activated receptor
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c2.c star

c2.kc
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for dimerization of ligand-bound receptors
has unit: UNIT second order rate constant
is computational component for: c2.kc property

c2.kc minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for deactivation of active receptor-ligand dimers
has unit: UNIT first order rate constant
is computational component for: c2.kc minus property

c2.kc plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for activation of dimerized receptor-ligand complexes
has unit: UNIT first order rate constant
is computational component for: c2.kc plus property

c2.kf
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand association rate constant
has unit: UNIT second order rate constant
is computational component for: c2.kf property

c2.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: c2.kr property

c2.ku
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for dissociation of dimers
has unit: UNIT first order rate constant
is computational component for: c2.ku property

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: c2.time property

c2 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time c2 <minus /> <plus /> <times /> <divide /> R0 <divide /> kr kc <power /> c 2.0 <times /> <divide /> kc_minus kr c_star <plus /> <times /> <divide /> ku kr c <times /> <divide /> kc_plus kr c2
is computational component for: c2

c computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time c <minus /> <plus /> <times /> <divide /> L0 <divide /> kr kf r <times /> 2.0 <divide /> ku kr c2 <plus /> c <times /> 2.0 <divide /> R0 <divide /> kr kc <power /> c 2.0
is computational component for: http://www.bhi.washington.edu/SemSim/03032015122750337m0500#c

c star
type: NamedIndividual
type: Submodel
name: c_star
has associated data structure: c star.A1 T
has associated data structure: c star.A2 T
has associated data structure: c star.R0
has associated data structure: c star.a1
has associated data structure: c star.a1a2
has associated data structure: c star.c2
has associated data structure: c star.c star
has associated data structure: c star.c star a1
has associated data structure: c star.e0 star
has associated data structure: c star.kc minus
has associated data structure: c star.kc plus
has associated data structure: c star.kf 1
has associated data structure: c star.kf 12
has associated data structure: c star.kr
has associated data structure: c star.kr 1
has associated data structure: c star.kr 12
has associated data structure: Time
has computational component: c star computation

c star.A1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: c star.A1 T property

c star.A2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: c star.A2 T property

c star.R0
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
is computational component for: c star.R0 property

c star.a1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free first adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star.a1

c star.a1a2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of adaptor heterodimer
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star.a1a2

c star.c2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of ligand-bound and dimerized receptor
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star.c2

c star.c star
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of dimerized and activated receptor
has unit: UNIT molar
mapped to: a1a2.c star
mapped to: c2.c star
is computational component for: Chemical concentration
mapped to: c star a1.c star
mapped to: e0 star.c star
mapped to: r.c star

c star.c star a1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active receptor-ligand dimer bound to adaptor 1 complex
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star.c star a1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star.c star

c star.e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star.e0 star

c star.kc minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for deactivation of active receptor-ligand dimers
has unit: UNIT first order rate constant
is computational component for: c star.kc minus property

c star.kc plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for activation of dimerized receptor-ligand complexes
has unit: UNIT first order rate constant
is computational component for: c star.kc plus property

c star.kf 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of activated receptor complex (C*) with adaptor protein 1 (A1)
has unit: UNIT second order rate constant
is computational component for: c star.kf 1 property

c star.kf 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT second order rate constant
is computational component for: c star.kf 12 property

c star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: c star.kr property

c star.kr 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of activated receptor complex (C*) with adaptor protein 1 (A1)
has unit: UNIT first order rate constant
is computational component for: c star.kr 1 property

c star.kr 12
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT first order rate constant
is computational component for: c star.kr 12 property

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: c star.time property

c star a1
type: NamedIndividual
type: Submodel
name: c_star_a1
has associated data structure: c star a1.A1 T
has associated data structure: c star a1.A2 T
has associated data structure: c star a1.E4 T
has associated data structure: c star a1.R0
has associated data structure: c star a1.a1
has associated data structure: c star a1.a2
has associated data structure: c star a1.c star
has associated data structure: c star a1.c star a1
has associated data structure: c star a1.e0 star
has associated data structure: c star a1.e0 star e4 star
has associated data structure: c star a1.kc minus
has associated data structure: c star a1.kc plus
has associated data structure: c star a1.kcat x
has associated data structure: c star a1.kf 1
has associated data structure: c star a1.kf 2
has associated data structure: c star a1.kr
has associated data structure: c star a1.kr 1
has associated data structure: c star a1.kr 2
has associated data structure: Time
has computational component: c star a1 computation

c star a1.A1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: c star a1.A1 T property

c star a1.A2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: c star a1.A2 T property

c star a1.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: c star a1.E4 T property

c star a1.R0
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
is computational component for: c star a1.R0 property

c star a1.a1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free first adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star a1.a1

c star a1.a2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free second adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star a1.a2

c star a1.c star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of dimerized and activated receptor
has unit: UNIT molar
is computational component for: Chemical concentration

c star a1.c star a1
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of active receptor-ligand dimer bound to adaptor 1 complex
has unit: UNIT molar
mapped to: a1.c star a1
mapped to: c star.c star a1
is computational component for: Chemical concentration
mapped to: e0 star.c star a1
mapped to: r.c star a1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star a1.c star a1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star a1.c star

c star a1.e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

c star a1.e0 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star a1.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: c star a1.e0 star

c star a1.kc minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for deactivation of active receptor-ligand dimers
has unit: UNIT first order rate constant
is computational component for: c star a1.kc minus property

c star a1.kc plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Rate constant for activation of dimerized receptor-ligand complexes
has unit: UNIT first order rate constant
is computational component for: c star a1.kc plus property

c star a1.kcat x
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: First order rate constant for dissociation of E0*E4* complex into C*A1, A2- and E4*
has unit: UNIT first order rate constant
is computational component for: c star a1.kcat x property

c star a1.kf 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of activated receptor complex (C*) with adaptor protein 1 (A1)
has unit: UNIT second order rate constant
is computational component for: c star a1.kf 1 property

c star a1.kf 2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of activated receptor complex bound to adaptor protein 1 (C*A1) and adaptor protein 2 (A2)
has unit: UNIT second order rate constant
is computational component for: c star a1.kf 2 property

c star a1.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: c star a1.kr property

c star a1.kr 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of activated receptor complex (C*) with adaptor protein 1 (A1)
has unit: UNIT first order rate constant
is computational component for: c star a1.kr 1 property

c star a1.kr 2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of activated receptor complex bound to adaptor protein 1 (C*A1) and adaptor protein 2 (A2)
has unit: UNIT first order rate constant
is computational component for: c star a1.kr 2 property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: c star a1.time property

c star a1 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time c_star_a1 <minus /> <plus /> <times /> <divide /> <times /> kf_1 R0 kr c_star a1 <times /> <divide /> kr_2 kr <divide /> A2_T A1_T e0_star <times /> <divide /> kcat_x kr <divide /> E4_T A1_T e0_star_e4_star <plus /> <times /> <divide /> kr_1 kr c_star_a1 <times /> <divide /> <times /> kf_2 A2_T kr c_star_a1 a2
is computational component for: c star a1

c star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time c_star <minus /> <plus /> <times /> <divide /> kc_plus kr c2 <times /> <divide /> kr_1 kr <divide /> A1_T R0 c_star_a1 <times /> <divide /> kr_12 kr <divide /> A2_T R0 e0_star <plus /> <times /> <divide /> kc_minus kr c_star <times /> <divide /> <times /> kf_1 A1_T kr c_star a1 <times /> <divide /> <times /> kf_12 A1_T kr c_star a1a2
is computational component for: c star

e0 star
type: NamedIndividual
type: Submodel
name: e0_star
has associated data structure: e0 star.A1 T
has associated data structure: e0 star.A2 T
has associated data structure: e0 star.E1 T
has associated data structure: e0 star.E4 T
has associated data structure: e0 star.a1a2
has associated data structure: e0 star.a2
has associated data structure: e0 star.c star
has associated data structure: e0 star.c star a1
has associated data structure: e0 star.e0 star
has associated data structure: e0 star.e0 star e4 star
has associated data structure: e0 star.e1
has associated data structure: e0 star.e1 e0 star
has associated data structure: e0 star.e4 star
has associated data structure: e0 star.k1 minus
has associated data structure: e0 star.k1 plus
has associated data structure: e0 star.kcat 1
has associated data structure: e0 star.kf 12
has associated data structure: e0 star.kf 2
has associated data structure: e0 star.kr
has associated data structure: e0 star.kr 12
has associated data structure: e0 star.kr 2
has associated data structure: e0 star.kx minus
has associated data structure: e0 star.kx plus
has associated data structure: Time
has computational component: e0 star computation

e0 star.A1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: e0 star.A1 T property

e0 star.A2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: e0 star.A2 T property

e0 star.E1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e0 star.E1 T property

e0 star.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e0 star.E4 T property

e0 star.a1a2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of adaptor heterodimer
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.a1a2

e0 star.a2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free second adaptor protein
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.a2

e0 star.c star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of dimerized and activated receptor
has unit: UNIT molar
is computational component for: Chemical concentration

e0 star.c star a1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active receptor-ligand dimer bound to adaptor 1 complex
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.c star a1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.c star

e0 star.e0 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
mapped to: a1.e0 star
mapped to: a1a2.e0 star
mapped to: a2.e0 star
mapped to: c star.e0 star
mapped to: c star a1.e0 star
is computational component for: Chemical concentration
mapped to: e0 star e4 star.e0 star
mapped to: e1 e0 star.e0 star
mapped to: e4 star.e0 star
mapped to: r.e0 star

e0 star.e0 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.e0 star

e0 star.e1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of inactive signaling enzyme 1
has unit: UNIT molar
is computational component for: Chemical concentration

e0 star.e1 e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.e1 e0 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.e1

e0 star.e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star.e4 star

e0 star.k1 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of inactive signaling enzyme 1 (E1) with receptor-ligand dimer bound to adaptors 1 and 2 (E0*)
has unit: UNIT first order rate constant
is computational component for: e0 star.k1 minus property

e0 star.k1 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E1) with receptor-ligand dimer bound to adaptors 1 and 2 (E0*)
has unit: UNIT second order rate constant
is computational component for: e0 star.k1 plus property

e0 star.kcat 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: First-order rate constant for conversion of the transition complex E1E0* into products E0* and E1*
has unit: UNIT first order rate constant
is computational component for: e0 star.kcat 1 property

e0 star.kf 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT second order rate constant
is computational component for: e0 star.kf 12 property

e0 star.kf 2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of activated receptor complex bound to adaptor protein 1 (C*A1) and adaptor protein 2 (A2)
has unit: UNIT second order rate constant
is computational component for: e0 star.kf 2 property

e0 star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e0 star.kr property

e0 star.kr 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT first order rate constant
is computational component for: e0 star.kr 12 property

e0 star.kr 2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of activated receptor complex bound to adaptor protein 1 (C*A1) and adaptor protein 2 (A2)
has unit: UNIT first order rate constant
is computational component for: e0 star.kr 2 property

e0 star.kx minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e0 star.kx minus property

e0 star.kx plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e0 star.kx plus property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e0 star.time property

e0 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e0_star <minus /> <plus /> <times /> <divide /> <times /> kf_2 A1_T kr c_star_a1 a2 <times /> <divide /> <times /> kf_12 A1_T kr c_star a1a2 <times /> <divide /> <plus /> k1_minus kcat_1 kr <divide /> E1_T A2_T e1_e0_star <times /> <divide /> kx_minus kr <divide /> E4_T A2_T e0_star_e4_star <plus /> <times /> <divide /> kr_2 kr e0_star <times /> <divide /> kr_12 kr e0_star <times /> <divide /> <times /> k1_plus E1_T kr e0_star e1 <times /> <divide /> <times /> kx_plus E4_T kr e0_star e4_star
is computational component for: e0 star

e0 star e4 star
type: NamedIndividual
type: Submodel
name: e0_star_e4_star
has associated data structure: e0 star e4 star.A2 T
has associated data structure: e0 star e4 star.e0 star
has associated data structure: e0 star e4 star.e0 star e4 star
has associated data structure: e0 star e4 star.e4 star
has associated data structure: e0 star e4 star.kcat x
has associated data structure: e0 star e4 star.kr
has associated data structure: e0 star e4 star.kx minus
has associated data structure: e0 star e4 star.kx plus
has associated data structure: Time
has computational component: e0 star e4 star computation

e0 star e4 star.A2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: e0 star e4 star.A2 T property

e0 star e4 star.e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

e0 star e4 star.e0 star e4 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
mapped to: a1.e0 star e4 star
mapped to: a2.e0 star e4 star
mapped to: a2 minus.e0 star e4 star
mapped to: c star a1.e0 star e4 star
mapped to: e0 star.e0 star e4 star
is computational component for: Chemical concentration
mapped to: e4.e0 star e4 star
mapped to: e4 star.e0 star e4 star
mapped to: r.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star e4 star.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star e4 star.e0 star

e0 star e4 star.e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e0 star e4 star.e4 star

e0 star e4 star.kcat x
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: First order rate constant for dissociation of E0*E4* complex into C*A1, A2- and E4*
has unit: UNIT first order rate constant
is computational component for: e0 star e4 star.kcat x property

e0 star e4 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e0 star e4 star.kr property

e0 star e4 star.kx minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e0 star e4 star.kx minus property

e0 star e4 star.kx plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e0 star e4 star.kx plus property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e0 star e4 star.time property

e0 star e4 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e0_star_e4_star <minus /> <times /> <divide /> <times /> kx_plus A2_T kr e4_star e0_star <times /> <plus /> <divide /> kx_minus kr <divide /> kcat_x kr e0_star_e4_star
is computational component for: e0 star e4 star

e1
type: NamedIndividual
type: Submodel
name: e1
has associated data structure: e1.E1 T
has associated data structure: e1.E2 T
has associated data structure: e1.P1 T
has associated data structure: e1.e1
has associated data structure: e1.e1 e0 star
has associated data structure: e1.e1 star
has associated data structure: e1.e1 star p1
has associated data structure: e1.e2 e1 star
has computational component: e1 computation

e1.E1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e1.E1 T property

e1.E2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e1.E2 T property

e1.P1 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of deactivating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e1.P1 T property

e1.e1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of inactive signaling enzyme 1
has unit: UNIT molar
mapped to: e0 star.e1
is computational component for: Chemical concentration
mapped to: e1 e0 star.e1

e1.e1 e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1.e1 e0 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1.e1

e1.e1 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 1
has unit: UNIT molar
is computational component for: Chemical concentration

e1.e1 star p1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E1* and deactivating enzyme P1
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1.e1 star p1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1.e1 star

e1.e2 e1 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E2 and its activator E1*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1.e2 e1 star

e1 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> e1 <minus /> 1.0 <plus /> e1_e0_star e1_star <times /> <divide /> E2_T E1_T e2_e1_star <times /> <divide /> P1_T E1_T e1_star_p1
is computational component for: e1

e1 e0 star
type: NamedIndividual
type: Submodel
name: e1_e0_star
has associated data structure: e1 e0 star.A2 T
has associated data structure: e1 e0 star.e0 star
has associated data structure: e1 e0 star.e1
has associated data structure: e1 e0 star.e1 e0 star
has associated data structure: e1 e0 star.k1 minus
has associated data structure: e1 e0 star.k1 plus
has associated data structure: e1 e0 star.kcat 1
has associated data structure: e1 e0 star.kr
has associated data structure: Time
has computational component: e1 e0 star computation

e1 e0 star.A2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: e1 e0 star.A2 T property

e1 e0 star.e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 e0 star.e0 star

e1 e0 star.e1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of inactive signaling enzyme 1
has unit: UNIT molar
is computational component for: Chemical concentration

e1 e0 star.e1 e0 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
mapped to: a1.e1 e0 star
mapped to: a2.e1 e0 star
mapped to: e0 star.e1 e0 star
mapped to: e1.e1 e0 star
is computational component for: Chemical concentration
mapped to: e1 star.e1 e0 star
mapped to: r.e1 e0 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 e0 star.e1 e0 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 e0 star.e1

e1 e0 star.k1 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Backward rate constant for association of inactive signaling enzyme 1 (E1) with receptor-ligand dimer bound to adaptors 1 and 2 (E0*)
has unit: UNIT first order rate constant
is computational component for: e1 e0 star.k1 minus property

e1 e0 star.k1 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E1) with receptor-ligand dimer bound to adaptors 1 and 2 (E0*)
has unit: UNIT second order rate constant
is computational component for: e1 e0 star.k1 plus property

e1 e0 star.kcat 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: First-order rate constant for conversion of the transition complex E1E0* into products E0* and E1*
has unit: UNIT first order rate constant
is computational component for: e1 e0 star.kcat 1 property

e1 e0 star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e1 e0 star.kr property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e1 e0 star.time property

e1 e0 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e1_e0_star <minus /> <times /> <divide /> <times /> k1_plus A2_T kr e1 e0_star <times /> <plus /> <divide /> k1_minus kr <divide /> kcat_1 kr e1_e0_star
is computational component for: e1 e0 star

e1 star
type: NamedIndividual
type: Submodel
name: e1_star
has associated data structure: e1 star.E1 T
has associated data structure: e1 star.E2 T
has associated data structure: e1 star.P1 T
has associated data structure: e1 star.e1 e0 star
has associated data structure: e1 star.e1 star
has associated data structure: e1 star.e1 star p1
has associated data structure: e1 star.e2
has associated data structure: e1 star.e2 e1 star
has associated data structure: e1 star.k2 minus
has associated data structure: e1 star.k2 plus
has associated data structure: e1 star.kP1 minus
has associated data structure: e1 star.kP1 plus
has associated data structure: e1 star.kcat 1
has associated data structure: e1 star.kcat 2
has associated data structure: e1 star.kr
has associated data structure: e1 star.p1
has associated data structure: Time
has computational component: e1 star computation

e1 star.E1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e1 star.E1 T property

e1 star.E2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e1 star.E2 T property

e1 star.P1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of deactivating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e1 star.P1 T property

e1 star.e1 e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star.e1 e0 star

e1 star.e1 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of active signaling enzyme 1
has unit: UNIT molar
mapped to: e1.e1 star
is computational component for: Chemical concentration
mapped to: e1 star p1.e1 star
mapped to: e2 e1 star.e1 star

e1 star.e1 star p1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E1* and deactivating enzyme P1
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star.e1 star p1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star.e1 star

e1 star.e2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Inactive signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration

e1 star.e2 e1 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E2 and its activator E1*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star.e2 e1 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star.e2

e1 star.k2 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e1 star.k2 minus property

e1 star.k2 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E2) with activated signaling enzyme 1 (E1*)
has unit: UNIT second order rate constant
is computational component for: e1 star.k2 plus property

e1 star.kP1 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e1 star.kP1 minus property

e1 star.kP1 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e1 star.kP1 plus property

e1 star.kcat 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: First-order rate constant for conversion of the transition complex E1E0* into products E0* and E1*
has unit: UNIT first order rate constant
is computational component for: e1 star.kcat 1 property

e1 star.kcat 2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e1 star.kcat 2 property

e1 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e1 star.kr property

e1 star.p1
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P1
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star.p1

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e1 star.time property

e1 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e1_star <minus /> <plus /> <times /> <divide /> kcat_1 kr e1_e0_star <times /> <divide /> <plus /> k2_minus kcat_2 kr <divide /> E2_T E1_T e2_e1_star <times /> <divide /> kP1_minus kr <divide /> P1_T E1_T e1_star_p1 <plus /> <times /> <divide /> <times /> k2_plus E2_T kr e1_star e2 <times /> <divide /> <times /> kP1_plus P1_T kr e1_star p1
is computational component for: e1 star

e1 star p1
type: NamedIndividual
type: Submodel
name: e1_star_p1
has associated data structure: e1 star p1.E1 T
has associated data structure: e1 star p1.e1 star
has associated data structure: e1 star p1.e1 star p1
has associated data structure: e1 star p1.kP1 minus
has associated data structure: e1 star p1.kP1 plus
has associated data structure: e1 star p1.kcat P1
has associated data structure: e1 star p1.kr
has associated data structure: e1 star p1.p1
has associated data structure: Time
has computational component: e1 star p1 computation

e1 star p1.E1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e1 star p1.E1 T property

e1 star p1.e1 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 1
has unit: UNIT molar
is computational component for: Chemical concentration

e1 star p1.e1 star p1
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between active substrate E1* and deactivating enzyme P1
has unit: UNIT molar
mapped to: e1.e1 star p1
mapped to: e1 star.e1 star p1
is computational component for: Chemical concentration
mapped to: p1.e1 star p1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star p1.e1 star p1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star p1.e1 star

e1 star p1.kP1 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e1 star p1.kP1 minus property

e1 star p1.kP1 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e1 star p1.kP1 plus property

e1 star p1.kcat P1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e1 star p1.kcat P1 property

e1 star p1.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e1 star p1.kr property

e1 star p1.p1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P1
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e1 star p1.p1

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e1 star p1.time property

e1 star p1 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e1_star_p1 <minus /> <times /> <divide /> <times /> kP1_plus E1_T kr e1_star p1 <times /> <plus /> <divide /> kP1_minus kr <divide /> kcat_P1 kr e1_star_p1
is computational component for: e1 star p1

e2
type: NamedIndividual
type: Submodel
name: e2
has associated data structure: e2.E2 T
has associated data structure: e2.E3 T
has associated data structure: e2.E4 T
has associated data structure: e2.P2 T
has associated data structure: e2.e2
has associated data structure: e2.e2 e1 star
has associated data structure: e2.e2 minus
has associated data structure: e2.e2 star e4 star
has associated data structure: e2.e2 star p2
has associated data structure: e2.e3 e2 star
has associated data structure: e2.e3 star
has computational component: e2 computation

e2.E2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2.E2 T property

e2.E3 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e2.E3 T property

e2.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e2.E4 T property

e2.P2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2.P2 T property

e2.e2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of inactive signaling enzyme 2
has unit: UNIT molar
mapped to: e1 star.e2
is computational component for: Chemical concentration
mapped to: e2 e1 star.e2

e2.e2 e1 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E2 and its activator E1*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e2 e1 star

e2.e2 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of nonfunctional second enzyme
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e2 minus

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e2

e2.e2 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E2* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e2 star e4 star

e2.e2 star p2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E2* and deactivating enzyme P2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e2 star p2

e2.e3 e2 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E3 and its activator E2*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e3 e2 star

e2.e3 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2.e3 star

e2 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> e2 <minus /> 1.0 <plus /> e3_e2_star e3_star <times /> <divide /> E3_T E2_T e3_e2_star <times /> <divide /> E4_T E2_T e2_star_e4_star <times /> <divide /> P2_T E2_T e2_star_p2
is computational component for: e2

e2 e1 star
type: NamedIndividual
type: Submodel
name: e2_e1_star
has associated data structure: e2 e1 star.E1 T
has associated data structure: e2 e1 star.e1 star
has associated data structure: e2 e1 star.e2
has associated data structure: e2 e1 star.e2 e1 star
has associated data structure: e2 e1 star.k2 minus
has associated data structure: e2 e1 star.k2 plus
has associated data structure: e2 e1 star.kcat 2
has associated data structure: e2 e1 star.kr
has associated data structure: Time
has computational component: e2 e1 star computation

e2 e1 star.E1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: e2 e1 star.E1 T property

e2 e1 star.e1 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 1
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 e1 star.e1 star

e2 e1 star.e2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Inactive signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration

e2 e1 star.e2 e1 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between inactive substrate E2 and its activator E1*
has unit: UNIT molar
mapped to: e1.e2 e1 star
mapped to: e1 star.e2 e1 star
mapped to: e2.e2 e1 star
is computational component for: Chemical concentration
mapped to: e2 star.e2 e1 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 e1 star.e2 e1 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 e1 star.e2

e2 e1 star.k2 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 e1 star.k2 minus property

e2 e1 star.k2 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E2) with activated signaling enzyme 1 (E1*)
has unit: UNIT second order rate constant
is computational component for: e2 e1 star.k2 plus property

e2 e1 star.kcat 2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 e1 star.kcat 2 property

e2 e1 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e2 e1 star.kr property

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e2 e1 star.time property

e2 e1 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e2_e1_star <minus /> <times /> <divide /> <times /> k2_plus E1_T kr e2 e1_star <times /> <plus /> <divide /> k2_minus kr <divide /> kcat_2 kr e2_e1_star
is computational component for: e2 e1 star

e2 minus
type: NamedIndividual
type: Submodel
name: e2_minus
has associated data structure: e2 minus.E2 T
has associated data structure: e2 minus.E4 T
has associated data structure: e2 minus.e2 minus
has associated data structure: e2 minus.e2 star e4 star
has associated data structure: e2 minus.kcat z
has associated data structure: e2 minus.kr
has associated data structure: Time
has computational component: e2 minus computation

e2 minus.E2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2 minus.E2 T property

e2 minus.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e2 minus.E4 T property

e2 minus.e2 minus
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of nonfunctional second enzyme
has unit: UNIT molar
mapped to: e2.e2 minus
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 minus.e2 minus

e2 minus.e2 star e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E2* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 minus.e2 star e4 star

e2 minus.kcat z
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 minus.kcat z property

e2 minus.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e2 minus.kr property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e2 minus.time property

e2 minus computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e2_minus <times /> <divide /> kcat_z kr <divide /> E4_T E2_T e2_star_e4_star
is computational component for: e2 minus

e2 star
type: NamedIndividual
type: Submodel
name: e2_star
has associated data structure: e2 star.E2 T
has associated data structure: e2 star.E3 T
has associated data structure: e2 star.E4 T
has associated data structure: e2 star.P2 T
has associated data structure: e2 star.e2 e1 star
has associated data structure: e2 star.e2 star
has associated data structure: e2 star.e2 star e4 star
has associated data structure: e2 star.e2 star p2
has associated data structure: e2 star.e3
has associated data structure: e2 star.e3 e2 star
has associated data structure: e2 star.e4 star
has associated data structure: e2 star.k3 minus
has associated data structure: e2 star.k3 plus
has associated data structure: e2 star.kP2 minus
has associated data structure: e2 star.kP2 plus
has associated data structure: e2 star.kcat 2
has associated data structure: e2 star.kcat 3
has associated data structure: e2 star.kr
has associated data structure: e2 star.kz minus
has associated data structure: e2 star.kz plus
has associated data structure: e2 star.p2
has associated data structure: Time
has computational component: e2 star computation

e2 star.E2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2 star.E2 T property

e2 star.E3 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e2 star.E3 T property

e2 star.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e2 star.E4 T property

e2 star.P2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2 star.P2 T property

e2 star.e2 e1 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E2 and its activator E1*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e2 e1 star

e2 star.e2 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of active signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration
mapped to: e2 star e4 star.e2 star
mapped to: e2 star p2.e2 star
mapped to: e3 e2 star.e2 star
mapped to: e4 star.e2 star

e2 star.e2 star e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E2* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e2 star e4 star

e2 star.e2 star p2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E2* and deactivating enzyme P2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e2 star p2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e2 star

e2 star.e3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of inactive signaling enzyme 3
has unit: UNIT molar
is computational component for: Chemical concentration

e2 star.e3 e2 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E3 and its activator E2*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e3 e2 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e3

e2 star.e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.e4 star

e2 star.k3 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star.k3 minus property

e2 star.k3 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e2 star.k3 plus property

e2 star.kP2 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star.kP2 minus property

e2 star.kP2 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e2 star.kP2 plus property

e2 star.kcat 2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star.kcat 2 property

e2 star.kcat 3
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star.kcat 3 property

e2 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e2 star.kr property

e2 star.kz minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star.kz minus property

e2 star.kz plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e2 star.kz plus property

e2 star.p2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star.p2

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e2 star.time property

e2 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e2_star <minus /> <plus /> <times /> <divide /> kcat_2 kr e2_e1_star <times /> <divide /> <plus /> k3_minus kcat_3 kr <divide /> E3_T E2_T e3_e2_star <times /> <divide /> kP2_minus kr <divide /> P2_T E2_T e2_star_p2 <times /> <divide /> kz_minus kr <divide /> E4_T E2_T e2_star_e4_star <plus /> <times /> <divide /> <times /> k3_plus E3_T kr e2_star e3 <times /> <divide /> <times /> kP2_plus P2_T kr e2_star p2 <times /> <divide /> <times /> kz_plus E4_T kr e2_star e4_star
is computational component for: e2 star

e2 star e4 star
type: NamedIndividual
type: Submodel
name: e2_star_e4_star
has associated data structure: e2 star e4 star.E2 T
has associated data structure: e2 star e4 star.e2 star
has associated data structure: e2 star e4 star.e2 star e4 star
has associated data structure: e2 star e4 star.e4 star
has associated data structure: e2 star e4 star.k2 minus
has associated data structure: e2 star e4 star.k2 plus
has associated data structure: e2 star e4 star.kcat z
has associated data structure: e2 star e4 star.kr
has associated data structure: e2 star e4 star.kz minus
has associated data structure: e2 star e4 star.kz plus
has associated data structure: Time
has computational component: e2 star e4 star computation

e2 star e4 star.E2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2 star e4 star.E2 T property

e2 star e4 star.e2 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration

e2 star e4 star.e2 star e4 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of E2* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
mapped to: e2.e2 star e4 star
mapped to: e2 minus.e2 star e4 star
mapped to: e2 star.e2 star e4 star
is computational component for: Chemical concentration
mapped to: e4.e2 star e4 star
mapped to: e4 star.e2 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star e4 star.e2 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star e4 star.e2 star

e2 star e4 star.e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star e4 star.e4 star

e2 star e4 star.k2 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star e4 star.k2 minus property

e2 star e4 star.k2 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E2) with activated signaling enzyme 1 (E1*)
has unit: UNIT second order rate constant
is computational component for: e2 star e4 star.k2 plus property

e2 star e4 star.kcat z
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star e4 star.kcat z property

e2 star e4 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e2 star e4 star.kr property

e2 star e4 star.kz minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star e4 star.kz minus property

e2 star e4 star.kz plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e2 star e4 star.kz plus property

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e2 star e4 star.time property

e2 star e4 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e2_star_e4_star <minus /> <times /> <divide /> <times /> kz_plus E2_T kr e4_star e2_star <times /> <plus /> <divide /> kz_minus kr <divide /> kcat_z kr e2_star_e4_star
is computational component for: e2 star e4 star

e2 star p2
type: NamedIndividual
type: Submodel
name: e2_star_p2
has associated data structure: e2 star p2.E2 T
has associated data structure: e2 star p2.e2 star
has associated data structure: e2 star p2.e2 star p2
has associated data structure: e2 star p2.kP2 minus
has associated data structure: e2 star p2.kP2 plus
has associated data structure: e2 star p2.kcat P2
has associated data structure: e2 star p2.kr
has associated data structure: e2 star p2.p2
has associated data structure: Time
has computational component: e2 star p2 computation

e2 star p2.E2 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e2 star p2.E2 T property

e2 star p2.e2 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration

e2 star p2.e2 star p2
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between active substrate E2* and deactivating enzyme P2
has unit: UNIT molar
mapped to: e2.e2 star p2
mapped to: e2 star.e2 star p2
is computational component for: Chemical concentration
mapped to: p2.e2 star p2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star p2.e2 star p2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star p2.e2 star

e2 star p2.kP2 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star p2.kP2 minus property

e2 star p2.kP2 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e2 star p2.kP2 plus property

e2 star p2.kcat P2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e2 star p2.kcat P2 property

e2 star p2.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e2 star p2.kr property

e2 star p2.p2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e2 star p2.p2

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e2 star p2.time property

e2 star p2 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e2_star_p2 <minus /> <times /> <divide /> <times /> kP2_plus E2_T kr e2_star p2 <times /> <plus /> <divide /> kP2_minus kr <divide /> kcat_P2 kr e2_star_p2
is computational component for: e2 star p2

e3
type: NamedIndividual
type: Submodel
name: e3
has associated data structure: e3.E3 T
has associated data structure: e3.E4 T
has associated data structure: e3.P3 T
has associated data structure: e3.e3
has associated data structure: e3.e3 e2 star
has associated data structure: e3.e3 star
has associated data structure: e3.e3 star p3
has associated data structure: e3.e4 e3 star
has computational component: e3 computation

e3.E3 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e3.E3 T property

e3.E4 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e3.E4 T property

e3.P3 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e3.P3 T property

e3.e3
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of inactive signaling enzyme 3
has unit: UNIT molar
mapped to: e2 star.e3
is computational component for: Chemical concentration
mapped to: e3 e2 star.e3

e3.e3 e2 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E3 and its activator E2*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3.e3 e2 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3.e3

e3.e3 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 3
has unit: UNIT molar
is computational component for: Chemical concentration

e3.e3 star p3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E3* and deactivating enzyme P3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3.e3 star p3

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3.e3 star

e3.e4 e3 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E4 and its activator E3*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3.e4 e3 star

e3 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> e3 <minus /> 1.0 <plus /> e3_e2_star e3_star <times /> <divide /> E4_T E3_T e4_e3_star <times /> <divide /> P3_T E3_T e3_star_p3
is computational component for: e3

e3 e2 star
type: NamedIndividual
type: Submodel
name: e3_e2_star
has associated data structure: e3 e2 star.E2 T
has associated data structure: e3 e2 star.e2 star
has associated data structure: e3 e2 star.e3
has associated data structure: e3 e2 star.e3 e2 star
has associated data structure: e3 e2 star.k3 minus
has associated data structure: e3 e2 star.k3 plus
has associated data structure: e3 e2 star.kcat 3
has associated data structure: e3 e2 star.kr
has associated data structure: Time
has computational component: e3 e2 star computation

e3 e2 star.E2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e3 e2 star.E2 T property

e3 e2 star.e2 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 e2 star.e2 star

e3 e2 star.e3
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of inactive signaling enzyme 3
has unit: UNIT molar
is computational component for: Chemical concentration

e3 e2 star.e3 e2 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between inactive substrate E3 and its activator E2*
has unit: UNIT molar
mapped to: e2.e3 e2 star
mapped to: e2 star.e3 e2 star
mapped to: e3.e3 e2 star
is computational component for: Chemical concentration
mapped to: e3 star.e3 e2 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 e2 star.e3 e2 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 e2 star.e3

e3 e2 star.k3 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 e2 star.k3 minus property

e3 e2 star.k3 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e3 e2 star.k3 plus property

e3 e2 star.kcat 3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 e2 star.kcat 3 property

e3 e2 star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e3 e2 star.kr property

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e3 e2 star.time property

e3 e2 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e3_e2_star <minus /> <times /> <divide /> <times /> k3_plus E2_T kr e3 e2_star <times /> <plus /> <divide /> k3_minus kr <divide /> kcat_3 kr e3_e2_star
is computational component for: e3 e2 star

e3 star
type: NamedIndividual
type: Submodel
name: e3_star
has associated data structure: e3 star.E3 T
has associated data structure: e3 star.E4 T
has associated data structure: e3 star.P3 T
has associated data structure: e3 star.e3 e2 star
has associated data structure: e3 star.e3 star
has associated data structure: e3 star.e3 star p3
has associated data structure: e3 star.e4
has associated data structure: e3 star.e4 e3 star
has associated data structure: e3 star.k4 minus
has associated data structure: e3 star.k4 plus
has associated data structure: e3 star.kP3 minus
has associated data structure: e3 star.kP3 plus
has associated data structure: e3 star.kcat 3
has associated data structure: e3 star.kcat 4
has associated data structure: e3 star.kr
has associated data structure: e3 star.p3
has associated data structure: Time
has computational component: e3 star computation

e3 star.E3 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e3 star.E3 T property

e3 star.E4 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e3 star.E4 T property

e3 star.P3 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e3 star.P3 T property

e3 star.e3 e2 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E3 and its activator E2*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star.e3 e2 star

e3 star.e3 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of active signaling enzyme 3
has unit: UNIT molar
mapped to: e2.e3 star
mapped to: e3.e3 star
is computational component for: Chemical concentration
mapped to: e3 star p3.e3 star
mapped to: e4 e3 star.e3 star

e3 star.e3 star p3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E3* and deactivating enzyme P3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star.e3 star p3

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star.e3 star

e3 star.e4
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of inactive signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

e3 star.e4 e3 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E4 and its activator E3*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star.e4 e3 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star.e4

e3 star.k4 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 star.k4 minus property

e3 star.k4 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e3 star.k4 plus property

e3 star.kP3 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 star.kP3 minus property

e3 star.kP3 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e3 star.kP3 plus property

e3 star.kcat 3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 star.kcat 3 property

e3 star.kcat 4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 star.kcat 4 property

e3 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e3 star.kr property

e3 star.p3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star.p3

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e3 star.time property

e3 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e3_star <minus /> <plus /> <times /> <divide /> kcat_3 kr e3_e2_star <times /> <divide /> <plus /> k4_minus kcat_4 kr <divide /> E4_T E3_T e4_e3_star <times /> <divide /> kP3_minus kr <divide /> P3_T E3_T e3_star_p3 <plus /> <times /> <divide /> <times /> k4_plus E4_T kr e3_star e4 <times /> <divide /> <times /> kP3_plus P3_T kr e3_star p3
is computational component for: e3 star

e3 star p3
type: NamedIndividual
type: Submodel
name: e3_star_p3
has associated data structure: e3 star p3.E3 T
has associated data structure: e3 star p3.e3 star
has associated data structure: e3 star p3.e3 star p3
has associated data structure: e3 star p3.kP3 minus
has associated data structure: e3 star p3.kP3 plus
has associated data structure: e3 star p3.kcat P3
has associated data structure: e3 star p3.kr
has associated data structure: e3 star p3.p3
has associated data structure: Time
has computational component: e3 star p3 computation

e3 star p3.E3 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e3 star p3.E3 T property

e3 star p3.e3 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 3
has unit: UNIT molar
is computational component for: Chemical concentration

e3 star p3.e3 star p3
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between active substrate E3* and deactivating enzyme P3
has unit: UNIT molar
mapped to: e3.e3 star p3
mapped to: e3 star.e3 star p3
is computational component for: Chemical concentration
mapped to: p3.e3 star p3

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star p3.e3 star p3

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star p3.e3 star

e3 star p3.kP3 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 star p3.kP3 minus property

e3 star p3.kP3 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e3 star p3.kP3 plus property

e3 star p3.kcat P3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e3 star p3.kcat P3 property

e3 star p3.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e3 star p3.kr property

e3 star p3.p3
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e3 star p3.p3

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e3 star p3.time property

e3 star p3 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e3_star_p3 <minus /> <times /> <divide /> <times /> kP3_plus E3_T kr e3_star p3 <times /> <plus /> <divide /> kP3_minus kr <divide /> kcat_P3 kr e3_star_p3
is computational component for: e3 star p3

e4
type: NamedIndividual
type: Submodel
name: e4
has associated data structure: e4.E4 T
has associated data structure: e4.E5 T
has associated data structure: e4.P4 T
has associated data structure: e4.e0 star e4 star
has associated data structure: e4.e2 star e4 star
has associated data structure: e4.e4
has associated data structure: e4.e4 e3 star
has associated data structure: e4.e4 star
has associated data structure: e4.e4 star p4
has associated data structure: e4.e5 e4 star
has computational component: e4 computation

e4.E4 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e4.E4 T property

e4.E5 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e4.E5 T property

e4.P4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e4.P4 T property

e4.e0 star e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e0 star e4 star

e4.e2 star e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E2* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e2 star e4 star

e4.e4
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of inactive signaling enzyme 4
has unit: UNIT molar
mapped to: e3 star.e4
is computational component for: Chemical concentration
mapped to: e4 e3 star.e4

e4.e4 e3 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E4 and its activator E3*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e4 e3 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e4

e4.e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

e4.e4 star p4
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E4* and deactivating enzyme P4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e4 star p4

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e4 star

e4.e5 e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E5 and its activator E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4.e5 e4 star

e4 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> e4 <minus /> 1.0 <plus /> e4_e3_star e4_star <times /> <divide /> E5_T E4_T e5_e4_star <times /> <divide /> P4_T E4_T e4_star_p4 e0_star_e4_star e2_star_e4_star
is computational component for: e4

e4 e3 star
type: NamedIndividual
type: Submodel
name: e4_e3_star
has associated data structure: e4 e3 star.E3 T
has associated data structure: e4 e3 star.e3 star
has associated data structure: e4 e3 star.e4
has associated data structure: e4 e3 star.e4 e3 star
has associated data structure: e4 e3 star.k4 minus
has associated data structure: e4 e3 star.k4 plus
has associated data structure: e4 e3 star.kcat 4
has associated data structure: e4 e3 star.kr
has associated data structure: Time
has computational component: e4 e3 star computation

e4 e3 star.E3 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
is computational component for: e4 e3 star.E3 T property

e4 e3 star.e3 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 e3 star.e3 star

e4 e3 star.e4
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of inactive signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

e4 e3 star.e4 e3 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between inactive substrate E4 and its activator E3*
has unit: UNIT molar
mapped to: e3.e4 e3 star
mapped to: e3 star.e4 e3 star
mapped to: e4.e4 e3 star
is computational component for: Chemical concentration
mapped to: e4 star.e4 e3 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 e3 star.e4 e3 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 e3 star.e4

e4 e3 star.k4 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 e3 star.k4 minus property

e4 e3 star.k4 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e4 e3 star.k4 plus property

e4 e3 star.kcat 4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 e3 star.kcat 4 property

e4 e3 star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e4 e3 star.kr property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e4 e3 star.time property

e4 e3 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e4_e3_star <minus /> <times /> <divide /> <times /> k4_plus E3_T kr e4 e3_star <times /> <plus /> <divide /> k4_minus kr <divide /> kcat_4 kr e4_e3_star
is computational component for: e4 e3 star

e4 star
type: NamedIndividual
type: Submodel
name: e4_star
has associated data structure: e4 star.A2 T
has associated data structure: e4 star.E2 T
has associated data structure: e4 star.E4 T
has associated data structure: e4 star.E5 T
has associated data structure: e4 star.P4 T
has associated data structure: e4 star.e0 star
has associated data structure: e4 star.e0 star e4 star
has associated data structure: e4 star.e2 star
has associated data structure: e4 star.e2 star e4 star
has associated data structure: e4 star.e4 e3 star
has associated data structure: e4 star.e4 star
has associated data structure: e4 star.e4 star p4
has associated data structure: e4 star.e5
has associated data structure: e4 star.e5 e4 star
has associated data structure: e4 star.k5 minus
has associated data structure: e4 star.k5 plus
has associated data structure: e4 star.kP4 minus
has associated data structure: e4 star.kP4 plus
has associated data structure: e4 star.kcat 4
has associated data structure: e4 star.kcat 5
has associated data structure: e4 star.kcat x
has associated data structure: e4 star.kcat z
has associated data structure: e4 star.kr
has associated data structure: e4 star.kx minus
has associated data structure: e4 star.kx plus
has associated data structure: e4 star.kz minus
has associated data structure: e4 star.kz plus
has associated data structure: e4 star.p4
has associated data structure: Time
has computational component: e4 star computation

e4 star.A2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: e4 star.A2 T property

e4 star.E2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
is computational component for: e4 star.E2 T property

e4 star.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e4 star.E4 T property

e4 star.E5 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e4 star.E5 T property

e4 star.P4 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e4 star.P4 T property

e4 star.e0 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

e4 star.e0 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e0 star

e4 star.e2 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 2
has unit: UNIT molar
is computational component for: Chemical concentration

e4 star.e2 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E2* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e2 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e2 star

e4 star.e4 e3 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E4 and its activator E3*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e4 e3 star

e4 star.e4 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
mapped to: e0 star.e4 star
mapped to: e0 star e4 star.e4 star
mapped to: e2 star.e4 star
mapped to: e2 star e4 star.e4 star
mapped to: e4.e4 star
is computational component for: Chemical concentration
mapped to: e4 star p4.e4 star
mapped to: e5 e4 star.e4 star

e4 star.e4 star p4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E4* and deactivating enzyme P4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e4 star p4

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e4 star

e4 star.e5
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Inactive signaling enzyme 5
has unit: UNIT molar
is computational component for: Chemical concentration

e4 star.e5 e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E5 and its activator E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e5 e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.e5

e4 star.k5 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.k5 minus property

e4 star.k5 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e4 star.k5 plus property

e4 star.kP4 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.kP4 minus property

e4 star.kP4 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e4 star.kP4 plus property

e4 star.kcat 4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.kcat 4 property

e4 star.kcat 5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.kcat 5 property

e4 star.kcat x
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: First order rate constant for dissociation of E0*E4* complex into C*A1, A2- and E4*
has unit: UNIT first order rate constant
is computational component for: e4 star.kcat x property

e4 star.kcat z
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.kcat z property

e4 star.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e4 star.kr property

e4 star.kx minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.kx minus property

e4 star.kx plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e4 star.kx plus property

e4 star.kz minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star.kz minus property

e4 star.kz plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e4 star.kz plus property

e4 star.p4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star.p4

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e4 star.time property

e4 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e4_star <minus /> <plus /> <times /> <divide /> kcat_4 kr e4_e3_star <times /> <divide /> <plus /> k5_minus kcat_5 kr <divide /> E5_T E4_T e5_e4_star <times /> <divide /> kP4_minus kr <divide /> P4_T E4_T e4_star_p4 <times /> <plus /> <divide /> kx_minus kr <divide /> kcat_x kr e0_star_e4_star <times /> <plus /> <divide /> kz_minus kr <divide /> kcat_z kr e2_star_e4_star <plus /> <times /> <divide /> <times /> k5_plus E5_T kr e4_star e5 <times /> <divide /> <times /> kP4_plus P4_T kr e4_star p4 <times /> <divide /> <times /> kx_plus A2_T kr e0_star e4_star <times /> <divide /> <times /> kz_plus E2_T kr e2_star e4_star
is computational component for: e4 star

e4 star p4
type: NamedIndividual
type: Submodel
name: e4_star_p4
has associated data structure: e4 star p4.E4 T
has associated data structure: e4 star p4.e4 star
has associated data structure: e4 star p4.e4 star p4
has associated data structure: e4 star p4.kP4 minus
has associated data structure: e4 star p4.kP4 plus
has associated data structure: e4 star p4.kcat P4
has associated data structure: e4 star p4.kr
has associated data structure: e4 star p4.p4
has associated data structure: Time
has computational component: e4 star p4 computation

e4 star p4.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e4 star p4.E4 T property

e4 star p4.e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

e4 star p4.e4 star p4
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between active substrate E4* and deactivating enzyme P4
has unit: UNIT molar
mapped to: e4.e4 star p4
mapped to: e4 star.e4 star p4
is computational component for: Chemical concentration
mapped to: p4.e4 star p4

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star p4.e4 star p4

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star p4.e4 star

e4 star p4.kP4 minus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star p4.kP4 minus property

e4 star p4.kP4 plus
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e4 star p4.kP4 plus property

e4 star p4.kcat P4
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e4 star p4.kcat P4 property

e4 star p4.kr
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e4 star p4.kr property

e4 star p4.p4
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e4 star p4.p4

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e4 star p4.time property

e4 star p4 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e4_star_p4 <minus /> <times /> <divide /> <times /> kP4_plus E4_T kr e4_star p4 <times /> <plus /> <divide /> kP4_minus kr <divide /> kcat_P4 kr e4_star_p4
is computational component for: e4 star p4

e5
type: NamedIndividual
type: Submodel
name: e5
has associated data structure: e5.E5 T
has associated data structure: e5.P5 T
has associated data structure: e5.e5
has associated data structure: e5.e5 e4 star
has associated data structure: e5.e5 star
has associated data structure: e5.e5 star p5
has computational component: e5 computation

e5.E5 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e5.E5 T property

e5.P5 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e5.P5 T property

e5.e5
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of inactive signaling enzyme 5
has unit: UNIT molar
mapped to: e4 star.e5
is computational component for: Chemical concentration
mapped to: e5 e4 star.e5

e5.e5 e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E5 and its activator E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5.e5 e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5.e5

e5.e5 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 5
has unit: UNIT molar
is computational component for: Chemical concentration

e5.e5 star p5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E5* and deactivating enzyme P5
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5.e5 star p5

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: P28482_0
has computational component: e5.e5 star

e5 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> e5 <minus /> 1.0 <plus /> e5_e4_star e5_star <times /> <divide /> P5_T E5_T e5_star_p5
is computational component for: e5

e5 e4 star
type: NamedIndividual
type: Submodel
name: e5_e4_star
has associated data structure: e5 e4 star.E4 T
has associated data structure: e5 e4 star.e4 star
has associated data structure: e5 e4 star.e5
has associated data structure: e5 e4 star.e5 e4 star
has associated data structure: e5 e4 star.k5 minus
has associated data structure: e5 e4 star.k5 plus
has associated data structure: e5 e4 star.kcat 5
has associated data structure: e5 e4 star.kr
has associated data structure: Time
has computational component: e5 e4 star computation

e5 e4 star.E4 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: e5 e4 star.E4 T property

e5 e4 star.e4 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 e4 star.e4 star

e5 e4 star.e5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Inactive signaling enzyme 5
has unit: UNIT molar
is computational component for: Chemical concentration

e5 e4 star.e5 e4 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between inactive substrate E5 and its activator E4*
has unit: UNIT molar
mapped to: e4.e5 e4 star
mapped to: e4 star.e5 e4 star
mapped to: e5.e5 e4 star
is computational component for: Chemical concentration
mapped to: e5 star.e5 e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 e4 star.e5 e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 e4 star.e5

e5 e4 star.k5 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e5 e4 star.k5 minus property

e5 e4 star.k5 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e5 e4 star.k5 plus property

e5 e4 star.kcat 5
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e5 e4 star.kcat 5 property

e5 e4 star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e5 e4 star.kr property

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e5 e4 star.time property

e5 e4 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e5_e4_star <minus /> <times /> <divide /> <times /> k5_plus E4_T kr e5 e4_star <times /> <plus /> <divide /> k5_minus kr <divide /> kcat_5 kr e5_e4_star
is computational component for: e5 e4 star

e5 star
type: NamedIndividual
type: Submodel
name: e5_star
has associated data structure: e5 star.E5 T
has associated data structure: e5 star.P5 T
has associated data structure: e5 star.e5 e4 star
has associated data structure: e5 star.e5 star
has associated data structure: e5 star.e5 star p5
has associated data structure: e5 star.kP5 minus
has associated data structure: e5 star.kP5 plus
has associated data structure: e5 star.kcat 5
has associated data structure: e5 star.kr
has associated data structure: e5 star.p5
has associated data structure: Time
has computational component: e5 star computation

e5 star.E5 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e5 star.E5 T property

e5 star.P5 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e5 star.P5 T property

e5 star.e5 e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between inactive substrate E5 and its activator E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 star.e5 e4 star

e5 star.e5 star
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of active signaling enzyme 5
has unit: UNIT molar
mapped to: e5.e5 star
is computational component for: Chemical concentration
mapped to: e5 star p5.e5 star

e5 star.e5 star p5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E5* and deactivating enzyme P5
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 star.e5 star p5

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: P28482_0
has computational component: e5 star.e5 star

e5 star.kP5 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e5 star.kP5 minus property

e5 star.kP5 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e5 star.kP5 plus property

e5 star.kcat 5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e5 star.kcat 5 property

e5 star.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e5 star.kr property

e5 star.p5
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P5
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 star.p5

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e5 star.time property

e5 star computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e5_star <minus /> <plus /> <times /> <divide /> kcat_5 kr e5_e4_star <times /> <divide /> kP5_minus kr <divide /> P5_T E5_T e5_star_p5 <times /> <divide /> <times /> kP5_plus P5_T kr e5_star p5
is computational component for: e5 star

e5 star p5
type: NamedIndividual
type: Submodel
name: e5_star_p5
has associated data structure: e5 star p5.E5 T
has associated data structure: e5 star p5.e5 star
has associated data structure: e5 star p5.e5 star p5
has associated data structure: e5 star p5.kP5 minus
has associated data structure: e5 star p5.kP5 plus
has associated data structure: e5 star p5.kcat P5
has associated data structure: e5 star p5.kr
has associated data structure: e5 star p5.p5
has associated data structure: Time
has computational component: e5 star p5 computation

e5 star p5.E5 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
is computational component for: e5 star p5.E5 T property

e5 star p5.e5 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active signaling enzyme 5
has unit: UNIT molar
is computational component for: Chemical concentration

e5 star p5.e5 star p5
type: NamedIndividual
type: Decimal
has start value: 0.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of transition complex between active substrate E5* and deactivating enzyme P5
has unit: UNIT molar
mapped to: e5.e5 star p5
mapped to: e5 star.e5 star p5
is computational component for: Chemical concentration
mapped to: p5.e5 star p5

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 star p5.e5 star p5

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
physical property of: P28482_0
has computational component: e5 star p5.e5 star

e5 star p5.kP5 minus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e5 star p5.kP5 minus property

e5 star p5.kP5 plus
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT second order rate constant
is computational component for: e5 star p5.kP5 plus property

e5 star p5.kcat P5
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
has unit: UNIT first order rate constant
is computational component for: e5 star p5.kcat P5 property

e5 star p5.kr
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
is computational component for: e5 star p5.kr property

e5 star p5.p5
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of deactivating enzyme P5
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: e5 star p5.p5

Time
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: in
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
is computational component for: e5 star p5.time property

e5 star p5 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> <diff /> time e5_star_p5 <minus /> <times /> <divide /> <times /> kP5_plus E5_T kr e5_star p5 <times /> <plus /> <divide /> kP5_minus kr <divide /> kcat_P5 kr e5_star_p5
is computational component for: e5 star p5

environment
type: NamedIndividual
type: Submodel
name: environment
has associated data structure: Time
has computational component: environment computation

Time
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
refers to: http://bhi.washington.edu/OPB#OPB_01023
has cell m lpublic interface: out
is declared: true
comment: Time domain for simulation
has unit: UNIT minute
mapped to: Time
is computational component for: environment.time property

model parameters
type: NamedIndividual
type: Submodel
name: model_parameters
has associated data structure: model parameters.A1 T
has associated data structure: model parameters.A2 T
has associated data structure: model parameters.E1 T
has associated data structure: model parameters.E2 T
has associated data structure: model parameters.E3 T
has associated data structure: model parameters.E4 T
has associated data structure: model parameters.E5 T
has associated data structure: model parameters.L0
has associated data structure: model parameters.P1 T
has associated data structure: model parameters.P2 T
has associated data structure: model parameters.P3 T
has associated data structure: model parameters.P4 T
has associated data structure: model parameters.P5 T
has associated data structure: model parameters.R0
has associated data structure: model parameters.k1 minus
has associated data structure: model parameters.k1 plus
has associated data structure: model parameters.k2 minus
has associated data structure: model parameters.k2 plus
has associated data structure: model parameters.k3 minus
has associated data structure: model parameters.k3 plus
has associated data structure: model parameters.k4 minus
has associated data structure: model parameters.k4 plus
has associated data structure: model parameters.k5 minus
has associated data structure: model parameters.k5 plus
has associated data structure: model parameters.kP1 minus
has associated data structure: model parameters.kP1 plus
has associated data structure: model parameters.kP2 minus
has associated data structure: model parameters.kP2 plus
has associated data structure: model parameters.kP3 minus
has associated data structure: model parameters.kP3 plus
has associated data structure: model parameters.kP4 minus
has associated data structure: model parameters.kP4 plus
has associated data structure: model parameters.kP5 minus
has associated data structure: model parameters.kP5 plus
has associated data structure: model parameters.kc
has associated data structure: model parameters.kc 12
has associated data structure: model parameters.kc minus
has associated data structure: model parameters.kc plus
has associated data structure: model parameters.kcat 1
has associated data structure: model parameters.kcat 2
has associated data structure: model parameters.kcat 3
has associated data structure: model parameters.kcat 4
has associated data structure: model parameters.kcat 5
has associated data structure: model parameters.kcat P1
has associated data structure: model parameters.kcat P2
has associated data structure: model parameters.kcat P3
has associated data structure: model parameters.kcat P4
has associated data structure: model parameters.kcat P5
has associated data structure: model parameters.kcat x
has associated data structure: model parameters.kcat z
has associated data structure: model parameters.kd 12
has associated data structure: model parameters.kf
has associated data structure: model parameters.kf 1
has associated data structure: model parameters.kf 12
has associated data structure: model parameters.kf 2
has associated data structure: model parameters.kr
has associated data structure: model parameters.kr 1
has associated data structure: model parameters.kr 12
has associated data structure: model parameters.kr 2
has associated data structure: model parameters.ku
has associated data structure: model parameters.kx minus
has associated data structure: model parameters.kx plus
has associated data structure: model parameters.kz minus
has associated data structure: model parameters.kz plus
has computational component: model parameters computation

model parameters.A1 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
mapped to: a1.A1 T
mapped to: a1a2.A1 T
mapped to: a2.A1 T
mapped to: c star.A1 T
mapped to: c star a1.A1 T
mapped to: e0 star.A1 T
is computational component for: model parameters.A1 T property
mapped to: r.A1 T

model parameters.A2 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
mapped to: a1.A2 T
mapped to: a1a2.A2 T
mapped to: a2.A2 T
mapped to: a2 minus.A2 T
mapped to: c star.A2 T
mapped to: c star a1.A2 T
mapped to: e0 star.A2 T
mapped to: e0 star e4 star.A2 T
mapped to: e1 e0 star.A2 T
mapped to: e4 star.A2 T
is computational component for: model parameters.A2 T property
mapped to: r.A2 T

model parameters.E1 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
mapped to: a1.E1 T
mapped to: a2.E1 T
mapped to: e0 star.E1 T
mapped to: e1.E1 T
mapped to: e1 star.E1 T
mapped to: e1 star p1.E1 T
mapped to: e2 e1 star.E1 T
is computational component for: model parameters.E1 T property
mapped to: r.E1 T

model parameters.E2 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
mapped to: e1.E2 T
mapped to: e1 star.E2 T
mapped to: e2.E2 T
mapped to: e2 minus.E2 T
mapped to: e2 star.E2 T
mapped to: e2 star e4 star.E2 T
mapped to: e2 star p2.E2 T
mapped to: e3 e2 star.E2 T
mapped to: e4 star.E2 T
is computational component for: model parameters.E2 T property

model parameters.E3 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
mapped to: e2.E3 T
mapped to: e2 star.E3 T
mapped to: e3.E3 T
mapped to: e3 star.E3 T
mapped to: e3 star p3.E3 T
mapped to: e4 e3 star.E3 T
is computational component for: model parameters.E3 T property

model parameters.E4 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
mapped to: a1.E4 T
mapped to: a2.E4 T
mapped to: a2 minus.E4 T
mapped to: c star a1.E4 T
mapped to: e0 star.E4 T
mapped to: e2.E4 T
mapped to: e2 minus.E4 T
mapped to: e2 star.E4 T
mapped to: e3.E4 T
mapped to: e3 star.E4 T
mapped to: e4.E4 T
mapped to: e4 star.E4 T
mapped to: e4 star p4.E4 T
mapped to: e5 e4 star.E4 T
is computational component for: model parameters.E4 T property
mapped to: r.E4 T

model parameters.E5 T
type: NamedIndividual
type: Decimal
has start value: 1E4
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
mapped to: e4.E5 T
mapped to: e4 star.E5 T
mapped to: e5.E5 T
mapped to: e5 star.E5 T
mapped to: e5 star p5.E5 T
is computational component for: model parameters.E5 T property

model parameters.L0
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Initial ligand concentration
has unit: UNIT molar
mapped to: c.L0
is computational component for: model parameters.L0 property

model parameters.P1 T
type: NamedIndividual
type: Decimal
has start value: 5E3
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of deactivating enzymes at stage 1
has unit: UNIT number per cell
mapped to: e1.P1 T
mapped to: e1 star.P1 T
is computational component for: model parameters.P1 T property

model parameters.P2 T
type: NamedIndividual
type: Decimal
has start value: 5E3
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 2
has unit: UNIT number per cell
mapped to: e2.P2 T
mapped to: e2 star.P2 T
is computational component for: model parameters.P2 T property

model parameters.P3 T
type: NamedIndividual
type: Decimal
has start value: 5E3
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 3
has unit: UNIT number per cell
mapped to: e3.P3 T
mapped to: e3 star.P3 T
is computational component for: model parameters.P3 T property

model parameters.P4 T
type: NamedIndividual
type: Decimal
has start value: 5E3
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
mapped to: e4.P4 T
mapped to: e4 star.P4 T
is computational component for: model parameters.P4 T property

model parameters.P5 T
type: NamedIndividual
type: Decimal
has start value: 5E3
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Total number of activating enzymes at stage 5
has unit: UNIT number per cell
mapped to: e5.P5 T
mapped to: e5 star.P5 T
is computational component for: model parameters.P5 T property

model parameters.R0
type: NamedIndividual
type: Decimal
has start value: 1E5
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
mapped to: a1a2.R0
mapped to: c.R0
mapped to: c2.R0
mapped to: c star.R0
mapped to: c star a1.R0
is computational component for: model parameters.R0 property
mapped to: r.R0

model parameters.k1 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Backward rate constant for association of inactive signaling enzyme 1 (E1) with receptor-ligand dimer bound to adaptors 1 and 2 (E0*)
has unit: UNIT first order rate constant
mapped to: e0 star.k1 minus
mapped to: e1 e0 star.k1 minus
is computational component for: model parameters.k1 minus property

model parameters.k1 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E1) with receptor-ligand dimer bound to adaptors 1 and 2 (E0*)
has unit: UNIT second order rate constant
mapped to: e0 star.k1 plus
mapped to: e1 e0 star.k1 plus
is computational component for: model parameters.k1 plus property

model parameters.k2 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e1 star.k2 minus
mapped to: e2 e1 star.k2 minus
mapped to: e2 star e4 star.k2 minus
is computational component for: model parameters.k2 minus property

model parameters.k2 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Forward rate constant for association of inactive signaling enzyme 1 (E2) with activated signaling enzyme 1 (E1*)
has unit: UNIT second order rate constant
mapped to: e1 star.k2 plus
mapped to: e2 e1 star.k2 plus
mapped to: e2 star e4 star.k2 plus
is computational component for: model parameters.k2 plus property

model parameters.k3 minus
type: NamedIndividual
type: Decimal
has start value: 30
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e2 star.k3 minus
mapped to: e3 e2 star.k3 minus
is computational component for: model parameters.k3 minus property

model parameters.k3 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e2 star.k3 plus
mapped to: e3 e2 star.k3 plus
is computational component for: model parameters.k3 plus property

model parameters.k4 minus
type: NamedIndividual
type: Decimal
has start value: 30
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e3 star.k4 minus
mapped to: e4 e3 star.k4 minus
is computational component for: model parameters.k4 minus property

model parameters.k4 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e3 star.k4 plus
mapped to: e4 e3 star.k4 plus
is computational component for: model parameters.k4 plus property

model parameters.k5 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e4 star.k5 minus
mapped to: e5 e4 star.k5 minus
is computational component for: model parameters.k5 minus property

model parameters.k5 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e4 star.k5 plus
mapped to: e5 e4 star.k5 plus
is computational component for: model parameters.k5 plus property

model parameters.kP1 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e1 star.kP1 minus
mapped to: e1 star p1.kP1 minus
is computational component for: model parameters.kP1 minus property

model parameters.kP1 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e1 star.kP1 plus
mapped to: e1 star p1.kP1 plus
is computational component for: model parameters.kP1 plus property

model parameters.kP2 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e2 star.kP2 minus
mapped to: e2 star p2.kP2 minus
is computational component for: model parameters.kP2 minus property

model parameters.kP2 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e2 star.kP2 plus
mapped to: e2 star p2.kP2 plus
is computational component for: model parameters.kP2 plus property

model parameters.kP3 minus
type: NamedIndividual
type: Decimal
has start value: 30
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e3 star.kP3 minus
mapped to: e3 star p3.kP3 minus
is computational component for: model parameters.kP3 minus property

model parameters.kP3 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e3 star.kP3 plus
mapped to: e3 star p3.kP3 plus
is computational component for: model parameters.kP3 plus property

model parameters.kP4 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e4 star.kP4 minus
mapped to: e4 star p4.kP4 minus
is computational component for: model parameters.kP4 minus property

model parameters.kP4 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e4 star.kP4 plus
mapped to: e4 star p4.kP4 plus
is computational component for: model parameters.kP4 plus property

model parameters.kP5 minus
type: NamedIndividual
type: Decimal
has start value: 30
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e5 star.kP5 minus
mapped to: e5 star p5.kP5 minus
is computational component for: model parameters.kP5 minus property

model parameters.kP5 plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e5 star.kP5 plus
mapped to: e5 star p5.kP5 plus
is computational component for: model parameters.kP5 plus property

model parameters.kc
type: NamedIndividual
type: Decimal
has start value: 6E7
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Rate constant for dimerization of ligand-bound receptors
has unit: UNIT second order rate constant
mapped to: c.kc
mapped to: c2.kc
is computational component for: model parameters.kc property

model parameters.kc 12
type: NamedIndividual
type: Decimal
has start value: 3E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Forward rate constant for association of adaptor protein 1 (A1) with adaptor protein 2 (A2)
has unit: UNIT second order rate constant
mapped to: a1a2.kc 12
is computational component for: model parameters.kc 12 property

model parameters.kc minus
type: NamedIndividual
type: Decimal
has start value: 5.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Rate constant for deactivation of active receptor-ligand dimers
has unit: UNIT first order rate constant
mapped to: c2.kc minus
mapped to: c star.kc minus
mapped to: c star a1.kc minus
is computational component for: model parameters.kc minus property

model parameters.kc plus
type: NamedIndividual
type: Decimal
has start value: 50.0
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Rate constant for activation of dimerized receptor-ligand complexes
has unit: UNIT first order rate constant
mapped to: c2.kc plus
mapped to: c star.kc plus
mapped to: c star a1.kc plus
is computational component for: model parameters.kc plus property

model parameters.kcat 1
type: NamedIndividual
type: Decimal
has start value: 6
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: First-order rate constant for conversion of the transition complex E1E0* into products E0* and E1*
has unit: UNIT first order rate constant
mapped to: e0 star.kcat 1
mapped to: e1 e0 star.kcat 1
mapped to: e1 star.kcat 1
is computational component for: model parameters.kcat 1 property

model parameters.kcat 2
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e1 star.kcat 2
mapped to: e2 e1 star.kcat 2
mapped to: e2 star.kcat 2
is computational component for: model parameters.kcat 2 property

model parameters.kcat 3
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e2 star.kcat 3
mapped to: e3 e2 star.kcat 3
mapped to: e3 star.kcat 3
is computational component for: model parameters.kcat 3 property

model parameters.kcat 4
type: NamedIndividual
type: Decimal
has start value: 6
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e3 star.kcat 4
mapped to: e4 e3 star.kcat 4
mapped to: e4 star.kcat 4
is computational component for: model parameters.kcat 4 property

model parameters.kcat 5
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e4 star.kcat 5
mapped to: e5 e4 star.kcat 5
mapped to: e5 star.kcat 5
is computational component for: model parameters.kcat 5 property

model parameters.kcat P1
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e1 star p1.kcat P1
is computational component for: model parameters.kcat P1 property

model parameters.kcat P2
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e2 star p2.kcat P2
is computational component for: model parameters.kcat P2 property

model parameters.kcat P3
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e3 star p3.kcat P3
is computational component for: model parameters.kcat P3 property

model parameters.kcat P4
type: NamedIndividual
type: Decimal
has start value: 6
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e4 star p4.kcat P4
is computational component for: model parameters.kcat P4 property

model parameters.kcat P5
type: NamedIndividual
type: Decimal
has start value: 6
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e5 star p5.kcat P5
is computational component for: model parameters.kcat P5 property

model parameters.kcat x
type: NamedIndividual
type: Decimal
has start value: 6
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: First order rate constant for dissociation of E0*E4* complex into C*A1, A2- and E4*
has unit: UNIT first order rate constant
mapped to: a2 minus.kcat x
mapped to: c star a1.kcat x
mapped to: e0 star e4 star.kcat x
mapped to: e4 star.kcat x
is computational component for: model parameters.kcat x property

model parameters.kcat z
type: NamedIndividual
type: Decimal
has start value: 6
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e2 minus.kcat z
mapped to: e2 star e4 star.kcat z
mapped to: e4 star.kcat z
is computational component for: model parameters.kcat z property

model parameters.kd 12
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Backward rate constant for association of adaptor protein 1 (A1) with adaptor protein 2 (A2)
has unit: UNIT first order rate constant
mapped to: a1a2.kd 12
is computational component for: model parameters.kd 12 property

model parameters.kf
type: NamedIndividual
type: Decimal
has start value: 1E7
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Receptor-ligand association rate constant
has unit: UNIT second order rate constant
mapped to: c.kf
mapped to: c2.kf
is computational component for: model parameters.kf property

model parameters.kf 1
type: NamedIndividual
type: Decimal
has start value: 3E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Forward rate constant for association of activated receptor complex (C*) with adaptor protein 1 (A1)
has unit: UNIT second order rate constant
mapped to: c star.kf 1
mapped to: c star a1.kf 1
is computational component for: model parameters.kf 1 property

model parameters.kf 12
type: NamedIndividual
type: Decimal
has start value: 3E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Forward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT second order rate constant
mapped to: a1a2.kf 12
mapped to: c star.kf 12
mapped to: e0 star.kf 12
is computational component for: model parameters.kf 12 property

model parameters.kf 2
type: NamedIndividual
type: Decimal
has start value: 3E8
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Forward rate constant for association of activated receptor complex bound to adaptor protein 1 (C*A1) and adaptor protein 2 (A2)
has unit: UNIT second order rate constant
mapped to: c star a1.kf 2
mapped to: e0 star.kf 2
is computational component for: model parameters.kf 2 property

model parameters.kr
type: NamedIndividual
type: Decimal
has start value: 0.3
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Receptor-ligand dissociation rate constant
has unit: UNIT first order rate constant
mapped to: a1a2.kr
mapped to: a2 minus.kr
mapped to: c.kr
mapped to: c2.kr
mapped to: c star.kr
mapped to: c star a1.kr
mapped to: e0 star.kr
mapped to: e0 star e4 star.kr
mapped to: e1 e0 star.kr
mapped to: e1 star.kr
mapped to: e1 star p1.kr
mapped to: e2 e1 star.kr
mapped to: e2 minus.kr
mapped to: e2 star.kr
mapped to: e2 star e4 star.kr
mapped to: e2 star p2.kr
mapped to: e3 e2 star.kr
mapped to: e3 star.kr
mapped to: e3 star p3.kr
mapped to: e4 e3 star.kr
mapped to: e4 star.kr
mapped to: e4 star p4.kr
mapped to: e5 e4 star.kr
mapped to: e5 star.kr
mapped to: e5 star p5.kr
is computational component for: model parameters.kr property

model parameters.kr 1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Backward rate constant for association of activated receptor complex (C*) with adaptor protein 1 (A1)
has unit: UNIT first order rate constant
mapped to: c star.kr 1
mapped to: c star a1.kr 1
is computational component for: model parameters.kr 1 property

model parameters.kr 12
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Backward rate constant for association of heteroadaptor complex (A1A2) with activated receptor complex (C*)
has unit: UNIT first order rate constant
mapped to: a1a2.kr 12
mapped to: c star.kr 12
mapped to: e0 star.kr 12
is computational component for: model parameters.kr 12 property

model parameters.kr 2
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Backward rate constant for association of activated receptor complex bound to adaptor protein 1 (C*A1) and adaptor protein 2 (A2)
has unit: UNIT first order rate constant
mapped to: c star a1.kr 2
mapped to: e0 star.kr 2
is computational component for: model parameters.kr 2 property

model parameters.ku
type: NamedIndividual
type: Decimal
has start value: 60.0
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Rate constant for dissociation of dimers
has unit: UNIT first order rate constant
mapped to: c.ku
mapped to: c2.ku
is computational component for: model parameters.ku property

model parameters.kx minus
type: NamedIndividual
type: Decimal
has start value: 30
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e0 star.kx minus
mapped to: e0 star e4 star.kx minus
mapped to: e4 star.kx minus
is computational component for: model parameters.kx minus property

model parameters.kx plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e0 star.kx plus
mapped to: e0 star e4 star.kx plus
mapped to: e4 star.kx plus
is computational component for: model parameters.kx plus property

model parameters.kz minus
type: NamedIndividual
type: Decimal
has start value: 30
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT first order rate constant
mapped to: e2 star.kz minus
mapped to: e2 star e4 star.kz minus
mapped to: e4 star.kz minus
is computational component for: model parameters.kz minus property

model parameters.kz plus
type: NamedIndividual
type: Decimal
has start value: 6E8
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
has unit: UNIT second order rate constant
mapped to: e2 star.kz plus
mapped to: e2 star e4 star.kz plus
mapped to: e4 star.kz plus
is computational component for: model parameters.kz plus property

model parameters computation
type: NamedIndividual
type: Computation
has math ML: <eq /> L0 <divide /> kr kf <eq /> kr_1 <times /> kf_1 1E-7 <eq /> kr_2 <times /> kf_2 1E-7 <eq /> kr_12 <times /> kf_12 1E-7 <eq /> kd_12 <times /> kc_12 1E-7
is computational component for: model parameters

p1
type: NamedIndividual
type: Submodel
name: p1
has associated data structure: p1.e1 star p1
has associated data structure: p1.p1
has computational component: p1 computation

p1.e1 star p1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E1* and deactivating enzyme P1
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p1.e1 star p1

p1.p1
type: NamedIndividual
type: Decimal
has start value: 5E3
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of deactivating enzyme P1
has unit: UNIT molar
mapped to: e1 star.p1
mapped to: e1 star p1.p1
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p1.p1

p1 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> p1 <minus /> 1.0 e1_star_p1
is computational component for: p1

p2
type: NamedIndividual
type: Submodel
name: p2
has associated data structure: p2.e2 star p2
has associated data structure: p2.p2
has computational component: p2 computation

p2.e2 star p2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E2* and deactivating enzyme P2
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p2.e2 star p2

p2.p2
type: NamedIndividual
type: Decimal
has start value: 5E3
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of deactivating enzyme P2
has unit: UNIT molar
mapped to: e2 star.p2
mapped to: e2 star p2.p2
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p2.p2

p2 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> p2 <minus /> 1.0 e2_star_p2
is computational component for: p2

p3
type: NamedIndividual
type: Submodel
name: p3
has associated data structure: p3.e3 star p3
has associated data structure: p3.p3
has computational component: p3 computation

p3.e3 star p3
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E3* and deactivating enzyme P3
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p3.e3 star p3

p3.p3
type: NamedIndividual
type: Decimal
has start value: 5E3
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of deactivating enzyme P3
has unit: UNIT molar
mapped to: e3 star.p3
mapped to: e3 star p3.p3
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p3.p3

p3 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> p3 <minus /> 1.0 e3_star_p3
is computational component for: p3

p4
type: NamedIndividual
type: Submodel
name: p4
has associated data structure: p4.e4 star p4
has associated data structure: p4.p4
has computational component: p4 computation

p4.e4 star p4
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E4* and deactivating enzyme P4
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p4.e4 star p4

p4.p4
type: NamedIndividual
type: Decimal
has start value: 5E3
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of deactivating enzyme P4
has unit: UNIT molar
mapped to: e4 star.p4
mapped to: e4 star p4.p4
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p4.p4

p4 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> p4 <minus /> 1.0 e4_star_p4
is computational component for: p4

p5
type: NamedIndividual
type: Submodel
name: p5
has associated data structure: p5.e5 star p5
has associated data structure: p5.p5
has computational component: p5 computation

p5.e5 star p5
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of transition complex between active substrate E5* and deactivating enzyme P5
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p5.e5 star p5

p5.p5
type: NamedIndividual
type: Decimal
has start value: 5E3
is solution domain: false
is discrete: false
has cell m lpublic interface: out
is declared: true
comment: Concentration of deactivating enzyme P5
has unit: UNIT molar
mapped to: e5 star.p5
mapped to: e5 star p5.p5
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: p5.p5

p5 computation
type: NamedIndividual
type: Computation
has math ML: <eq /> p5 <minus /> 1.0 e5_star_p5
is computational component for: p5

http://www.bhi.washington.edu/SemSim/03032015122750337m0500#r
type: NamedIndividual
type: Submodel
name: r
has associated data structure: r.A1 T
has associated data structure: r.A2 T
has associated data structure: r.E1 T
has associated data structure: r.E4 T
has associated data structure: r.R0
has associated data structure: r.c
has associated data structure: r.c2
has associated data structure: r.c star
has associated data structure: r.c star a1
has associated data structure: r.e0 star
has associated data structure: r.e0 star e4 star
has associated data structure: r.e1 e0 star
has associated data structure: r.r
has computational component: r computation

r.A1 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A1 molecules
has unit: UNIT number per cell
is computational component for: r.A1 T property

r.A2 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of adaptor protein A2 molecules
has unit: UNIT number per cell
is computational component for: r.A2 T property

r.E1 T
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 1
has unit: UNIT number per cell
is computational component for: r.E1 T property

r.E4 T
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Total number of activating enzymes at stage 4
has unit: UNIT number per cell
is computational component for: r.E4 T property

r.R0
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Initial number of free receptors
has unit: UNIT number per cell
is computational component for: r.R0 property

r.c
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of free ligand-bound receptor
has unit: UNIT molar
is computational component for: Chemical concentration

r.c2
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of ligand-bound and dimerized receptor
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.c2

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.c

r.c star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of dimerized and activated receptor
has unit: UNIT molar
is computational component for: Chemical concentration

r.c star a1
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of active receptor-ligand dimer bound to adaptor 1 complex
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.c star a1

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.c star

r.e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of receptor-ligand dimer bound to adaptors 1 and 2
has unit: UNIT molar
is computational component for: Chemical concentration

r.e0 star e4 star
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of E0* and E4* transition complex in feedback mediated by enzyme E4*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.e0 star e4 star

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.e0 star

r.e1 e0 star
type: NamedIndividual
type: Decimal
is solution domain: false
is discrete: false
has cell m lpublic interface: in
is declared: true
comment: Concentration of the transition complex between inactive substrate E1 and its activator E0*
has unit: UNIT molar
is computational component for: Chemical concentration

Chemical concentration
type: NamedIndividual
refers to: Chemical concentration
has computational component: r.e1 e0 star

r.r
type: NamedIndividual
type: Decimal
is discrete: false
is solution domain: false
has cell m lpublic interface: out
is declared: true
comment: Number of free receptors in cell
has unit: UNIT number per cell
mapped to: c.r
is computational component for: r.r property

r computation
type: NamedIndividual
type: Computation
has math ML: <eq /> r <minus /> 1.0 <plus /> c <times /> 2.0 <plus /> c2 c_star <times /> <divide /> A1_T R0 c_star_a1 <times /> <divide /> A2_T R0 e0_star <times /> <divide /> E4_T R0 e0_star_e4_star <times /> <divide /> E1_T R0 e1_e0_star
is computational component for: http://www.bhi.washington.edu/SemSim/03032015122750337m0500#r