Package de.bioforscher.singa.structure.model.oak

Interface Summary

Interface	Description
Exchangeable<FamilyType extends StructuralFamily>	Exchangeable defines an entity that is exchangeable in terms of mapping another label or a set of other labels to that entity.

Class Summary

Class	Description
AminoAcids	Utility methods for AminoAcids.
LeafSubstructureFactory	The residue factory is used to create residues from a set of AtomFilter with their AtomNames.
OakAminoAcid
OakAtom
OakBond
OakChain
OakLeafSubstructure<FamilyType extends StructuralFamily>
OakLigand
OakModel
OakNucleotide
OakStructure
StructuralEntityFilter	This static class bundles filters for LeafSubstructures and Atoms that can be concatenated by using the Predicate interface.
StructuralEntityFilter.AtomFilter	Filters for Atoms.
StructuralEntityFilter.ChainFilter	Filters for Chains.
StructuralEntityFilter.LeafFilter	Filters for LeafSubstructures.
StructuralMotif
StructuralMotifs	Utility methods that deal with StructuralMotifs.
Structures	Methods to use for structures...

Enum Summary

Enum	Description
AtomName	Most (some) of the AtomNames in the PDB.
BondType
StructuralEntityFilter.AtomFilterType	Simple StructuralEntityFilter.AtomFilter representation as functional Enum class.
StructuralEntityFilter.LeafFilterType	Simple StructuralEntityFilter.LeafFilter representation as functional Enum class.
StructuralMotif.Type	The type of a StructuralMotif, representing inter (across multiple protein chains) and intra (within one protein chain) StructuralMotifs.