Package org.biojava.bio.structure

Interfaces and classes for protein structure (PDB).

See:
          Description

Interface Summary
AminoAcid AminoAcid inherits most from Hetatom.
Atom simple interface of an Atom.
Chain Defines the interface for a Chain.
Group This is the datastructure for a single Group of atoms.
Structure Interface for a structure object.
 

Class Summary
AlphaCTools AlphaCTools is a collection of static convenience methods for dealing with Alpha Carbon Backbone Phi / Psi angles.
AminoAcidImpl AminoAcid inherits most from Hetatom.
AtomImpl Implementation of an Atom of a PDB file.
AtomIterator an iterator over all atoms of a structure / group.
Calc utility operations on Atoms, AminoAcids, etc.
ChainImpl A Chain in a PDB file.
GroupIterator an iterator over all groups of a structure.
HetatomImpl Generic Implementation of a Group interface.
Mutator A class that can change one amino acid to another.
NucleotideImpl A nucleotide group is almost the same as a Hetatm group.
StandardAminoAcid A class that provides a set of standard amino acids
StructureImpl Implementation of a PDB Structure.
StructureTools a class that provides some tool methods
SVDSuperimposer a class that calculates the superimposition between two sets of atoms inspired by the biopython SVDSuperimposer class...
 

Exception Summary
StructureException An exception during the parsing of a PDB file.
 

Package org.biojava.bio.structure Description

Interfaces and classes for protein structure (PDB).