Uses of Package
pl.poznan.put.pdb.analysis
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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 ofCifContainer.ImmutableCifContainer.Builder Builds instances of typeImmutableCifContainer.ImmutableDefaultCifModel Immutable implementation ofDefaultCifModel.ImmutableDefaultCifModel.Builder Builds instances of typeImmutableDefaultCifModel.ImmutableDefaultPdbModel Immutable implementation ofDefaultPdbModel.ImmutableDefaultPdbModel.Builder Builds instances of typeImmutableDefaultPdbModel.ImmutableDefaultPdbResidue Immutable implementation ofDefaultPdbResidue.ImmutableDefaultPdbResidue.Builder Builds instances of typeImmutableDefaultPdbResidue.ImmutableDefaultResidueCollection Immutable implementation ofDefaultResidueCollection.ImmutableDefaultResidueCollection.Builder Builds instances of typeImmutableDefaultResidueCollection.ImmutablePdbChain Immutable implementation ofPdbChain.ImmutablePdbChain.Builder Builds instances of typeImmutablePdbChain.ImmutablePdbCompactFragment Immutable implementation ofPdbCompactFragment.ImmutablePdbCompactFragment.Builder Builds instances of typeImmutablePdbCompactFragment.ImmutableResidueTorsionAngles Immutable implementation ofResidueTorsionAngles.ImmutableResidueTorsionAngles.Builder Builds instances of typeImmutableResidueTorsionAngles.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).