Package biotransformer.biomolecule
Class Enzyme
- java.lang.Object
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- biotransformer.biomolecule.Enzyme
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public class Enzyme extends java.lang.Object
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Nested Class Summary
Nested Classes Modifier and Type Class Description static class
Enzyme.EnzymeName
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Constructor Summary
Constructors Constructor Description Enzyme(Enzyme.EnzymeName enzName)
Enzyme(java.lang.String enzName, java.lang.String description, java.lang.String uniprot_id, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions)
Enzyme(java.lang.String enzName, java.lang.String description, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions)
Enzyme(java.lang.String enzName, java.lang.String description, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions, java.lang.String systematicName)
Enzyme(java.lang.String enzName, java.util.ArrayList<MetabolicReaction> reactionSet)
Enzyme(java.lang.String enzName, java.util.ArrayList<MetabolicReaction> reactionSet, ambit2.smarts.SMIRKSManager smrkMan)
Enzyme(java.lang.String enzName, java.util.ArrayList<MetabolicReaction> reactionSet, java.util.ArrayList<java.lang.String> cellLocations)
Enzyme(java.lang.String enzName, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions)
Enzyme(java.lang.String enzName, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions, java.lang.String acceptedcName)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
addReaction(MetabolicReaction reaction)
void
display()
java.lang.String
getName()
java.lang.String
getPrimaryUniprotId()
java.util.ArrayList<MetabolicReaction>
getReactionSet()
java.util.ArrayList<java.lang.String>
getReactionsNames()
java.util.ArrayList<java.lang.String>
getUniprotIds()
void
setprimaryUniprotId(java.lang.String uniprotID)
void
setUniprotIds(java.util.ArrayList<java.lang.String> uniprotIds)
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Constructor Detail
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Enzyme
public Enzyme(Enzyme.EnzymeName enzName)
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Enzyme
public Enzyme(java.lang.String enzName, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions)
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Enzyme
public Enzyme(java.lang.String enzName, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions, java.lang.String acceptedcName)
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Enzyme
public Enzyme(java.lang.String enzName, java.lang.String description, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions)
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Enzyme
public Enzyme(java.lang.String enzName, java.lang.String description, java.util.ArrayList<java.lang.String> uniprot_ids, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions, java.lang.String systematicName)
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Enzyme
public Enzyme(java.lang.String enzName, java.lang.String description, java.lang.String uniprot_id, java.util.ArrayList<java.lang.String> cellularLocations, java.util.ArrayList<MetabolicReaction> reactions)
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Enzyme
public Enzyme(java.lang.String enzName, java.util.ArrayList<MetabolicReaction> reactionSet, java.util.ArrayList<java.lang.String> cellLocations)
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Enzyme
public Enzyme(java.lang.String enzName, java.util.ArrayList<MetabolicReaction> reactionSet, ambit2.smarts.SMIRKSManager smrkMan)
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Enzyme
public Enzyme(java.lang.String enzName, java.util.ArrayList<MetabolicReaction> reactionSet)
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Method Detail
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addReaction
public void addReaction(MetabolicReaction reaction)
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getName
public java.lang.String getName()
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getPrimaryUniprotId
public java.lang.String getPrimaryUniprotId()
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getUniprotIds
public java.util.ArrayList<java.lang.String> getUniprotIds()
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getReactionSet
public java.util.ArrayList<MetabolicReaction> getReactionSet()
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setprimaryUniprotId
public void setprimaryUniprotId(java.lang.String uniprotID)
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setUniprotIds
public void setUniprotIds(java.util.ArrayList<java.lang.String> uniprotIds)
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getReactionsNames
public java.util.ArrayList<java.lang.String> getReactionsNames()
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display
public void display()
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