Uses of Class
org.proteinshader.structure.exceptions.MissingAtomTypeException

Packages that use MissingAtomTypeException

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.

Uses of MissingAtomTypeException in org.proteinshader.structure

Methods in org.proteinshader.structure that throw MissingAtomTypeException

Atom	AminoAcid.addNewAtom(int serialNo, AtomEnum type, String atomID, double temperature, int charge, double occupancy, String altLocation, double x, double y, double z, VisibilityEnum visibility) Creates a new Atom with the type and Atom ID given as arguments, adds the Atom to the Residue's collection of Atoms, and returns a reference to the new Atom.
Atom	Residue.addNewAtom(int serialNo, AtomEnum type, String atomID, double temperature, int charge, double occupancy, String altLocation, double x, double y, double z, VisibilityEnum visibility) Creates a new Atom with the type and Atom ID given as arguments, adds the Atom to the Residue's collection of Atoms, and returns a reference to the new Atom.
Atom	Structure.addNewAtom(int atomSerialNo, AtomEnum atomType, String atomID, String aminoAcidType, String residueID, String chainID, String modelID, double temperature, int charge, double occupancy, String altLocation, double x, double y, double z, VisibilityEnum visibility) Creates a new atom with the atomID given as an argument, adds the new Atom to the requested Model-Chain-AminoAcid, and then returns a reference to the new Atom.
Atom	Structure.addNewHetAtom(int atomSerialNo, AtomEnum atomType, String atomID, String hetName, String residueID, String chainID, String modelID, double temperature, int charge, double occupancy, String altLocation, double x, double y, double z, VisibilityEnum visibility) Creates a new atom with the atomID given as an argument, adds the new Atom to the requested Model-Chain-(Heterogen or Water), and then returns a reference to the new Atom.

Constructors in org.proteinshader.structure that throw MissingAtomTypeException

Atom(int serialNo, AtomEnum type, String atomID, String residueID, String chainID, String modelID, String structureID, double temperature, int charge, double occupancy, String altLocation, double x, double y, double z, VisibilityEnum visibility)
This constructor uses the type argument (an AtomEnum) to set the default radius and CPK color for the Atom.