Uses of Interface
org.openscience.cdk.interfaces.IAminoAcid

Packages that use IAminoAcid

Package	Description
org.openscience.cdk
org.openscience.cdk.debug
org.openscience.cdk.interfaces
org.openscience.cdk.silent
org.openscience.cdk.templates
org.openscience.cdk.tools
org.openscience.cdk.tools.manipulator

Uses of IAminoAcid in org.openscience.cdk

Classes in org.openscience.cdk that implement IAminoAcid

Modifier and Type	Class and Description
class	AminoAcid A AminoAcid is Monomer which stores additional amino acid specific informations, like the N-terminus atom.

Methods in org.openscience.cdk that return IAminoAcid

Modifier and Type	Method and Description
IAminoAcid	AminoAcid.clone() Clones this AminoAcid object.

Uses of IAminoAcid in org.openscience.cdk.debug

Classes in org.openscience.cdk.debug that implement IAminoAcid

Modifier and Type	Class and Description
class	DebugAminoAcid Debugging data class.

Methods in org.openscience.cdk.debug that return IAminoAcid

Modifier and Type	Method and Description
IAminoAcid	DebugAminoAcid.clone() Clones this AminoAcid object.

Uses of IAminoAcid in org.openscience.cdk.interfaces

Methods in org.openscience.cdk.interfaces that return IAminoAcid

Modifier and Type	Method and Description
IAminoAcid	IAminoAcid.clone() Returns a deep clone of this IChemObject.

Uses of IAminoAcid in org.openscience.cdk.silent

Methods in org.openscience.cdk.silent that return IAminoAcid

Modifier and Type	Method and Description
IAminoAcid	AminoAcid.clone() Clones this AminoAcid object.

Uses of IAminoAcid in org.openscience.cdk.templates

Methods in org.openscience.cdk.templates that return types with arguments of type IAminoAcid

Modifier and Type	Method and Description
static Map<String,IAminoAcid>	AminoAcids.getHashMapBySingleCharCode() Returns a HashMap where the key is one of G, A, V, L, I, S, T, C, M, D, N, E, Q, R, K, H, F, Y, W and P.
static Map<String,IAminoAcid>	AminoAcids.getHashMapByThreeLetterCode() Returns a HashMap where the key is one of GLY, ALA, VAL, LEU, ILE, SER, THR, CYS, MET, ASP, ASN, GLU, GLN, ARG, LYS, HIS, PHE, TYR, TRP AND PRO.

Uses of IAminoAcid in org.openscience.cdk.tools

Methods in org.openscience.cdk.tools with parameters of type IAminoAcid

Modifier and Type	Method and Description
static IBioPolymer	ProteinBuilderTool.addAminoAcidAtCTerminus(IBioPolymer protein, IAminoAcid aaToAdd, IStrand strand, IAminoAcid aaToAddTo) Builds a protein by connecting a new amino acid at the C-terminus of the given strand.
static IBioPolymer	ProteinBuilderTool.addAminoAcidAtNTerminus(IBioPolymer protein, IAminoAcid aaToAdd, IStrand strand, IAminoAcid aaToAddTo) Builds a protein by connecting a new amino acid at the N-terminus of the given strand.

Uses of IAminoAcid in org.openscience.cdk.tools.manipulator

Methods in org.openscience.cdk.tools.manipulator with parameters of type IAminoAcid

Modifier and Type	Method and Description
static void	AminoAcidManipulator.addAcidicOxygen(IAminoAcid acid) Adds the singly bonded oxygen from the acid group of the AminoAcid.
static void	AminoAcidManipulator.removeAcidicOxygen(IAminoAcid acid) Removes the singly bonded oxygen from the acid group of the AminoAcid.