Uses of Class
org.proteinshader.structure.enums.AminoAcidEnum

Packages that use AminoAcidEnum

org.proteinshader.structure	Holds the classes that store information from a Protein Data Bank file: Structure, Model, Chain, AminoAcid, Heterogen, Water, Atom, Bond, Helix, BetaStrand, Loop, etc.
org.proteinshader.structure.enums	Holds the enums needed by org.proteinshader.structure and its subpackages.
org.proteinshader.structure.visitor	Holds Visitor classes that know how to traverse the hierarchy of objects held by class Structure.

Uses of AminoAcidEnum in org.proteinshader.structure

Methods in org.proteinshader.structure that return AminoAcidEnum

AminoAcidEnum	Segment.getAminoAcidType() Returns the type of AminoAcid that this Sement represents.
AminoAcidEnum	Atom.getAminoAcidType() If the Atom belongs to an AminoAcid, this method will return the AminoAcid type.
AminoAcidEnum	AminoAcid.getType() Returns the type of amino aicd: ALA, ARG, ASN, etc. The type cannot be null because it is checked by the constructor.

Methods in org.proteinshader.structure with parameters of type AminoAcidEnum

AminoAcid	Chain.addNewAminoAcid(AminoAcidEnum type, String residueID) Creates a new AminoAcid with the type and Residue ID given as arguments, adds the AminoAcid to the Chain's collection of AminoAcids, and returns a reference to the new AminoAcid.
void	Atom.setAminoAcidType(AminoAcidEnum aminoAcidType) Marks the Atom as belonging to a particular type of AminoAcid.

Constructors in org.proteinshader.structure with parameters of type AminoAcidEnum

AminoAcid(AminoAcidEnum type, String residueID, String chainID, String modelID, String structureID)
Constructs an AminoAcid with the type and IDs given as arguments.

Uses of AminoAcidEnum in org.proteinshader.structure.enums

Methods in org.proteinshader.structure.enums that return AminoAcidEnum

static AminoAcidEnum	AminoAcidEnum.valueOf(String name) Returns the enum constant of this type with the specified name.
static AminoAcidEnum[]	AminoAcidEnum.values() Returns an array containing the constants of this enum type, in the order they're declared.

Uses of AminoAcidEnum in org.proteinshader.structure.visitor

Methods in org.proteinshader.structure.visitor with parameters of type AminoAcidEnum

boolean	BondPredictor.isDoubleBond(Atom srcAtom, Atom dstAtom, AminoAcidEnum aminoAcidType) Uses the Atom IDs (from Atom name field in a PDB record) and the AminoAcid type to determine if the Atoms should have a double Bond (assuming that they both belong to the same AminoAcid).
void	Visitor.setMode(AminoAcidEnum aminoAcidType) Restricts the traversal to a particular AminoAcid type (this mode can also be used to restrict which Segments are visited).