Package org.biopax.paxtools.model.level3

Interface ProteinReference

All Superinterfaces:
BioPAXElement, Cloneable, EntityReference, Level3Element, Named, Observable, SequenceEntityReference, Serializable, UtilityClass, XReferrable
All Known Implementing Classes:
ProteinReferenceImpl
public interface ProteinReference extends SequenceEntityReference
Description: A protein reference is a grouping of several protein entities that are encoded by the same genetic sequence. Members can differ in any combination of cellular location, sequence features and bound partners. Rationale: Protein molecules, encoded by the same genetic sequence can be present in (combinatorially many) different states, as a result of post translational modifications and non-covalent bonds. Each state, chemically, is a different pool of molecules. They are, however, related to each other because:
  • They all share the same "base" genetic sequence.
  • They can only be converted to each other but not to any other protein
Comments:Most Protein databases, including UniProt would map one to one with ProteinReferences in BioPAX.