Uses of Package
pl.poznan.put.pdb.analysis

Packages that use pl.poznan.put.pdb.analysis

Package	Description
pl.poznan.put.pdb	Contains classes responsible for PDB/mmCIF data modelling and analysis.
pl.poznan.put.pdb.analysis	Contains classes which work on data from PDB or mmCIF files.
pl.poznan.put.protein
pl.poznan.put.rna
pl.poznan.put.structure	Package contains classes useful in describing secondary structure (base pairs, helices, etc.)
pl.poznan.put.structure.formats
pl.poznan.put.torsion	Contains classes dealing with torsion angles handling.

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.pdb

Class	Description
PdbResidue	A residue (nucleotide or amino acid).

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.pdb.analysis

Class	Description
AbstractPdbModel	A structure which detects residues from atoms alone and then chains from residues.
CifContainer	A container of one or more PDB files converted from a single mmCIF file.
CifModel	A structure parsed from an mmCIF file.
DefaultCifModel	A default implementation of a structure parsed from an mmCIF file.
DefaultPdbModel	A default implementation of a structure parsed from a PDB file.
DefaultPdbResidue	A default implementation of a residue (nucleotide or amino acid).
DefaultResidueCollection	A container for a list of residues.
ImmutableCifContainer	Immutable implementation of CifContainer.
ImmutableCifContainer.Builder	Builds instances of type ImmutableCifContainer.
ImmutableDefaultCifModel	Immutable implementation of DefaultCifModel.
ImmutableDefaultCifModel.Builder	Builds instances of type ImmutableDefaultCifModel.
ImmutableDefaultPdbModel	Immutable implementation of DefaultPdbModel.
ImmutableDefaultPdbModel.Builder	Builds instances of type ImmutableDefaultPdbModel.
ImmutableDefaultPdbResidue	Immutable implementation of DefaultPdbResidue.
ImmutableDefaultPdbResidue.Builder	Builds instances of type ImmutableDefaultPdbResidue.
ImmutableDefaultResidueCollection	Immutable implementation of DefaultResidueCollection.
ImmutableDefaultResidueCollection.Builder	Builds instances of type ImmutableDefaultResidueCollection.
ImmutablePdbChain	Immutable implementation of PdbChain.
ImmutablePdbChain.Builder	Builds instances of type ImmutablePdbChain.
ImmutablePdbCompactFragment	Immutable implementation of PdbCompactFragment.
ImmutablePdbCompactFragment.Builder	Builds instances of type ImmutablePdbCompactFragment.
ImmutableResidueTorsionAngles	Immutable implementation of ResidueTorsionAngles.
ImmutableResidueTorsionAngles.Builder	Builds instances of type ImmutableResidueTorsionAngles.
ModelContainer	A set of PDB files which all correspond to the same structure and also their chain names' mapping.
MoleculeType	A type of molecule (RNA or protein).
PdbChain	A chain in a structure.
PdbCompactFragment	A collection of residues such that (i, i+1) are connected.
PdbModel	A structure parsed from a PDB file.
PdbResidue	A residue (nucleotide or amino acid).
ResidueCollection	A collection of residues.
ResidueComponent	A fragment of a residue with a set of expected atoms and a set of possible other atoms.
ResidueInformationProvider	A provider of detailed information about a residue (its type, expected atoms, torsion angles etc).
ResidueTorsionAngles	A collection of torsion angles values for a single residue.
SingleTypedResidueCollection	A collection of residues with a common molecule type (RNA or protein).

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.protein

Class	Description
MoleculeType	A type of molecule (RNA or protein).
ResidueComponent	A fragment of a residue with a set of expected atoms and a set of possible other atoms.
ResidueInformationProvider	A provider of detailed information about a residue (its type, expected atoms, torsion angles etc).

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.rna

Class	Description
MoleculeType	A type of molecule (RNA or protein).
PdbModel	A structure parsed from a PDB file.
PdbResidue	A residue (nucleotide or amino acid).
ResidueComponent	A fragment of a residue with a set of expected atoms and a set of possible other atoms.
ResidueInformationProvider	A provider of detailed information about a residue (its type, expected atoms, torsion angles etc).

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.structure

Class	Description
PdbResidue	A residue (nucleotide or amino acid).
ResidueCollection	A collection of residues.

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.structure.formats

Class	Description
PdbModel	A structure parsed from a PDB file.

Classes in pl.poznan.put.pdb.analysis used by pl.poznan.put.torsion

Class	Description
MoleculeType	A type of molecule (RNA or protein).
PdbResidue	A residue (nucleotide or amino acid).