Overview  Package   Class  Use  Tree  Deprecated  Index  Help 
 PREV CLASS   NEXT CLASS FRAMES    NO FRAMES    
SUMMARY: NESTED | FIELD | CONSTR | METHOD DETAIL: FIELD | CONSTR | METHOD

fr.curie.BiNoM.pathways.biopax
Interface kPrime

All Superinterfaces:
com.ibm.adtech.jastor.Thing, utilityClass
All Known Implementing Classes:
kPrimeImpl
public interface kPrime
extends utilityClass, com.ibm.adtech.jastor.Thing

Interface for kPrime ontology class
Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.

(URI: http://www.biopax.org/release/biopax-level2.owl#kPrime)


RDF Schema Standard Properties
comment : Definition: The apparent equilibrium constant, K', and associated values. Concentrations in the equilibrium constant equation refer to the total concentrations of all forms of particular biochemical reactants. For example, in the equilibrium constant equation for the biochemical reaction in which ATP is hydrolyzed to ADP and inorganic phosphate: K' = [ADP][Pi]/[ATP], The concentration of ATP refers to the total concentration of all of the following species: [ATP] = [ATP4-] + [HATP3-] + [H2ATP2-] + [MgATP2-] + [MgHATP-] + [Mg2ATP]. The apparent equilibrium constant is formally dimensionless, and can be kept so by inclusion of as many of the terms (1 mol/dm3) in the numerator or denominator as necessary. It is a function of temperature (T), ionic strength (I), pH, and pMg (pMg = -log10[Mg2+]). Therefore, these quantities must be specified to be precise, and values for KEQ for biochemical reactions may be represented as 5-tuples of the form (K' T I pH pMg). This property may have multiple values, representing different measurements for K' obtained under the different experimental conditions listed in the 5-tuple. (This definition adapted from EcoCyc) See http://www.chem.qmul.ac.uk/iubmb/thermod/ for a thermodynamics tutorial.^^http://www.w3.org/2001/XMLSchema#string


Field Summary
static com.hp.hpl.jena.rdf.model.Property IONIC_DASH_STRENGTHProperty
          The Jena Property for IONIC_DASH_STRENGTH
static com.hp.hpl.jena.rdf.model.Property K_DASH_PRIMEProperty
          The Jena Property for K_DASH_PRIME
static com.hp.hpl.jena.rdf.model.Property PHProperty
          The Jena Property for PH
static com.hp.hpl.jena.rdf.model.Property PMGProperty
          The Jena Property for PMG
static com.hp.hpl.jena.rdf.model.Property TEMPERATUREProperty
          The Jena Property for TEMPERATURE
static com.hp.hpl.jena.rdf.model.Resource TYPE
          The rdf:type for this ontology class
 
Fields inherited from interface fr.curie.BiNoM.pathways.biopax.utilityClass
COMMENTProperty
 
Fields inherited from interface com.ibm.adtech.jastor.Thing
copyright
 
Method Summary
 void addIONIC_DASH_STRENGTH(java.lang.Float IONIC_DASH_STRENGTH)
          Add a 'IONIC_DASH_STRENGTH' property value
 void addPH(java.lang.Float PH)
          Add a 'PH' property value
 void addPMG(java.lang.Float PMG)
          Add a 'PMG' property value
 void addTEMPERATURE(java.lang.Float TEMPERATURE)
          Add a 'TEMPERATURE' property value
 java.util.Iterator getIONIC_DASH_STRENGTH()
          Iterates through the 'IONIC_DASH_STRENGTH' property values.
 java.lang.Float getK_DASH_PRIME()
          Gets the 'K_DASH_PRIME' property value
 java.util.Iterator getPH()
          Iterates through the 'PH' property values.
 java.util.Iterator getPMG()
          Iterates through the 'PMG' property values.
 java.util.Iterator getTEMPERATURE()
          Iterates through the 'TEMPERATURE' property values.
 void removeIONIC_DASH_STRENGTH(java.lang.Float IONIC_DASH_STRENGTH)
          Remove a 'IONIC_DASH_STRENGTH' property value.
 void removePH(java.lang.Float PH)
          Remove a 'PH' property value.
 void removePMG(java.lang.Float PMG)
          Remove a 'PMG' property value.
 void removeTEMPERATURE(java.lang.Float TEMPERATURE)
          Remove a 'TEMPERATURE' property value.
 void setK_DASH_PRIME(java.lang.Float K_DASH_PRIME)
          Sets the 'K_DASH_PRIME' property value
 
Methods inherited from interface fr.curie.BiNoM.pathways.biopax.utilityClass
addCOMMENT, getCOMMENT, removeCOMMENT
 
Methods inherited from interface com.ibm.adtech.jastor.Thing
clearCache, isRDFType, listStatements, model, registerListener, removeStatements, resource, unregisterListener, uri
 

Field Detail

TYPE

static final com.hp.hpl.jena.rdf.model.Resource TYPE
The rdf:type for this ontology class

K_DASH_PRIMEProperty

static final com.hp.hpl.jena.rdf.model.Property K_DASH_PRIMEProperty
The Jena Property for K_DASH_PRIME

(URI: http://www.biopax.org/release/biopax-level2.owl#K-PRIME)



RDF Schema Standard Properties
comment : The apparent equilibrium constant K'. Concentrations in the equilibrium constant equation refer to the total concentrations of all forms of particular biochemical reactants. For example, in the equilibrium constant equation for the biochemical reaction in which ATP is hydrolyzed to ADP and inorganic phosphate: K' = [ADP][Pi]/[ATP], The concentration of ATP refers to the total concentration of all of the following species: [ATP] = [ATP4-] + [HATP3-] + [H2ATP2-] + [MgATP2-] + [MgHATP-] + [Mg2ATP]. The apparent equilibrium constant is formally dimensionless, and can be kept so by inclusion of as many of the terms (1 mol/dm3) in the numerator or denominator as necessary. It is a function of temperature (T), ionic strength (I), pH, and pMg (pMg = -log10[Mg2+]). (Definition from EcoCyc)^^http://www.w3.org/2001/XMLSchema#string

TEMPERATUREProperty

static final com.hp.hpl.jena.rdf.model.Property TEMPERATUREProperty
The Jena Property for TEMPERATURE

(URI: http://www.biopax.org/release/biopax-level2.owl#TEMPERATURE)



RDF Schema Standard Properties
comment : Temperature in Celsius^^http://www.w3.org/2001/XMLSchema#string

PHProperty

static final com.hp.hpl.jena.rdf.model.Property PHProperty
The Jena Property for PH

(URI: http://www.biopax.org/release/biopax-level2.owl#PH)



RDF Schema Standard Properties
comment : A measure of acidity and alkalinity of a solution that is a number on a scale on which a value of 7 represents neutrality and lower numbers indicate increasing acidity and higher numbers increasing alkalinity and on which each unit of change represents a tenfold change in acidity or alkalinity and that is the negative logarithm of the effective hydrogen-ion concentration or hydrogen-ion activity in gram equivalents per liter of the solution. (Definition from Merriam-Webster Dictionary)^^http://www.w3.org/2001/XMLSchema#string

IONIC_DASH_STRENGTHProperty

static final com.hp.hpl.jena.rdf.model.Property IONIC_DASH_STRENGTHProperty
The Jena Property for IONIC_DASH_STRENGTH

(URI: http://www.biopax.org/release/biopax-level2.owl#IONIC-STRENGTH)



RDF Schema Standard Properties
comment : The ionic strength is defined as half of the total sum of the concentration (ci) of every ionic species (i) in the solution times the square of its charge (zi). For example, the ionic strength of a 0.1 M solution of CaCl2 is 0.5 x (0.1 x 22 + 0.2 x 12) = 0.3 M (Definition from http://www.lsbu.ac.uk/biology/enztech/ph.html)^^http://www.w3.org/2001/XMLSchema#string

PMGProperty

static final com.hp.hpl.jena.rdf.model.Property PMGProperty
The Jena Property for PMG

(URI: http://www.biopax.org/release/biopax-level2.owl#PMG)



RDF Schema Standard Properties
comment : A measure of the concentration of magnesium (Mg) in solution. (pMg = -log10[Mg2+])^^http://www.w3.org/2001/XMLSchema#string

Method Detail

getK_DASH_PRIME

java.lang.Float getK_DASH_PRIME()
                                throws com.ibm.adtech.jastor.JastorException
Gets the 'K_DASH_PRIME' property value

Returns:
Float
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
K_DASH_PRIMEProperty

setK_DASH_PRIME

void setK_DASH_PRIME(java.lang.Float K_DASH_PRIME)
                     throws com.ibm.adtech.jastor.JastorException
Sets the 'K_DASH_PRIME' property value

Parameters:
{@link - java.lang.Float}
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
K_DASH_PRIMEProperty

getTEMPERATURE

java.util.Iterator getTEMPERATURE()
                                  throws com.ibm.adtech.jastor.JastorException
Iterates through the 'TEMPERATURE' property values. This Iteartor may be used to remove all such values.

Returns:
Iterator of Float
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
TEMPERATUREProperty

addTEMPERATURE

void addTEMPERATURE(java.lang.Float TEMPERATURE)
                    throws com.ibm.adtech.jastor.JastorException
Add a 'TEMPERATURE' property value

Parameters:
{@link - java.lang.Float}, the value to add
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
TEMPERATUREProperty

removeTEMPERATURE

void removeTEMPERATURE(java.lang.Float TEMPERATURE)
                       throws com.ibm.adtech.jastor.JastorException
Remove a 'TEMPERATURE' property value. This method should not be invoked while iterator through values. In that case, the remove() method of the Iterator itself should be used.

Parameters:
{@link - java.lang.Float}, the value to remove
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
TEMPERATUREProperty

getPH

java.util.Iterator getPH()
                         throws com.ibm.adtech.jastor.JastorException
Iterates through the 'PH' property values. This Iteartor may be used to remove all such values.

Returns:
Iterator of Float
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
PHProperty

addPH

void addPH(java.lang.Float PH)
           throws com.ibm.adtech.jastor.JastorException
Add a 'PH' property value

Parameters:
{@link - java.lang.Float}, the value to add
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
PHProperty

removePH

void removePH(java.lang.Float PH)
              throws com.ibm.adtech.jastor.JastorException
Remove a 'PH' property value. This method should not be invoked while iterator through values. In that case, the remove() method of the Iterator itself should be used.

Parameters:
{@link - java.lang.Float}, the value to remove
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
PHProperty

getIONIC_DASH_STRENGTH

java.util.Iterator getIONIC_DASH_STRENGTH()
                                          throws com.ibm.adtech.jastor.JastorException
Iterates through the 'IONIC_DASH_STRENGTH' property values. This Iteartor may be used to remove all such values.

Returns:
Iterator of Float
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
IONIC_DASH_STRENGTHProperty

addIONIC_DASH_STRENGTH

void addIONIC_DASH_STRENGTH(java.lang.Float IONIC_DASH_STRENGTH)
                            throws com.ibm.adtech.jastor.JastorException
Add a 'IONIC_DASH_STRENGTH' property value

Parameters:
{@link - java.lang.Float}, the value to add
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
IONIC_DASH_STRENGTHProperty

removeIONIC_DASH_STRENGTH

void removeIONIC_DASH_STRENGTH(java.lang.Float IONIC_DASH_STRENGTH)
                               throws com.ibm.adtech.jastor.JastorException
Remove a 'IONIC_DASH_STRENGTH' property value. This method should not be invoked while iterator through values. In that case, the remove() method of the Iterator itself should be used.

Parameters:
{@link - java.lang.Float}, the value to remove
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
IONIC_DASH_STRENGTHProperty

getPMG

java.util.Iterator getPMG()
                          throws com.ibm.adtech.jastor.JastorException
Iterates through the 'PMG' property values. This Iteartor may be used to remove all such values.

Returns:
Iterator of Float
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
PMGProperty

addPMG

void addPMG(java.lang.Float PMG)
            throws com.ibm.adtech.jastor.JastorException
Add a 'PMG' property value

Parameters:
{@link - java.lang.Float}, the value to add
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
PMGProperty

removePMG

void removePMG(java.lang.Float PMG)
               throws com.ibm.adtech.jastor.JastorException
Remove a 'PMG' property value. This method should not be invoked while iterator through values. In that case, the remove() method of the Iterator itself should be used.

Parameters:
{@link - java.lang.Float}, the value to remove
Throws:
com.ibm.adtech.jastor.JastorException
See Also:
PMGProperty
Overview  Package   Class  Use  Tree  Deprecated  Index  Help 
 PREV CLASS   NEXT CLASS FRAMES    NO FRAMES    
SUMMARY: NESTED | FIELD | CONSTR | METHOD DETAIL: FIELD | CONSTR | METHOD