Uses of Interface
pl.poznan.put.pdb.ChainNumberICode

Packages that use ChainNumberICode

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.structure.formats

Uses of ChainNumberICode in pl.poznan.put.pdb

Classes in pl.poznan.put.pdb that implement ChainNumberICode

Modifier and Type	Class	Description
class	ImmutablePdbAtomLine	Immutable implementation of PdbAtomLine.
class	ImmutablePdbModresLine	Immutable implementation of PdbModresLine.
class	ImmutablePdbNamedResidueIdentifier	Immutable implementation of PdbNamedResidueIdentifier.
class	ImmutablePdbRemark465Line	Immutable implementation of PdbRemark465Line.
class	ImmutablePdbResidueIdentifier	Immutable implementation of PdbResidueIdentifier.
class	PdbAtomLine	Representation of ATOM and HETATM lines in both PDB and mmCIF files.
class	PdbModresLine	A representation of MODRES line in PDB format.
class	PdbNamedResidueIdentifier	Class that represents a residue identifier with a known name.
class	PdbRemark465Line	A representation of REMARK 465 in PDB format which describes missing residues.
class	PdbResidueIdentifier	A residue identifier is used only to address a residue in the structure.

Methods in pl.poznan.put.pdb with parameters of type ChainNumberICode

Modifier and Type	Method	Description
default int	ChainNumberICode.compareTo(ChainNumberICode t)
ImmutablePdbAtomLine.Builder	ImmutablePdbAtomLine.Builder.from(ChainNumberICode instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.ChainNumberICode instance.
ImmutablePdbModresLine.Builder	ImmutablePdbModresLine.Builder.from(ChainNumberICode instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.ChainNumberICode instance.
ImmutablePdbNamedResidueIdentifier.Builder	ImmutablePdbNamedResidueIdentifier.Builder.from(ChainNumberICode instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.ChainNumberICode instance.
ImmutablePdbRemark465Line.Builder	ImmutablePdbRemark465Line.Builder.from(ChainNumberICode instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.ChainNumberICode instance.
ImmutablePdbResidueIdentifier.Builder	ImmutablePdbResidueIdentifier.Builder.from(ChainNumberICode instance)	Fill a builder with attribute values from the provided pl.poznan.put.pdb.ChainNumberICode instance.
static PdbResidueIdentifier	PdbResidueIdentifier.from(ChainNumberICode chainNumberICode)	Creates an instance of this class from any implementation of ChainNumberICode.

Uses of ChainNumberICode in pl.poznan.put.pdb.analysis

Subinterfaces of ChainNumberICode in pl.poznan.put.pdb.analysis

Modifier and Type	Interface	Description
interface	PdbResidue	A residue (nucleotide or amino acid).

Classes in pl.poznan.put.pdb.analysis that implement ChainNumberICode

Modifier and Type	Class	Description
class	DefaultPdbResidue	A default implementation of a residue (nucleotide or amino acid).
class	ImmutableDefaultPdbResidue	Immutable implementation of DefaultPdbResidue.

Methods in pl.poznan.put.pdb.analysis with parameters of type ChainNumberICode

Modifier and Type	Method	Description
default SingleTypedResidueCollection	PdbModel.findChainContainingResidue(ChainNumberICode query)	Finds a chain which has a given residue.
default PdbResidue	ResidueCollection.findResidue(ChainNumberICode query)	Finds a residue by a triplet (chain, number, icode).
default boolean	ResidueCollection.hasResidue(ChainNumberICode query)	Checks if a given (chain, number, icode) is present in this collection of residues.
default int	ResidueCollection.indexOf(ChainNumberICode query)	Finds a residue by a triplet (chain, number, icode).

Uses of ChainNumberICode in pl.poznan.put.structure.formats

Methods in pl.poznan.put.structure.formats with parameters of type ChainNumberICode

Modifier and Type	Method	Description
static Ct.ExtendedEntry	Ct.ExtendedEntry.fromEntryAndPdbResidue(BpSeq.Entry entry, ChainNumberICode residue, PdbModel model)	Converts a BPSEQ entry into an instance of this class using information from a parsed 3D data.