Package pl.poznan.put.rna

Interface Summary

Interface	Description
NucleicAcidResidueComponent	A component of a nucleotide.
Nucleobase	A nucleobase (adenine, cytosine, guanine, uracil or thymine).
Purine	A purine (adenine or guanine).
Pyrimidine	A pyrimidine (cytosine, uracil or thymine).

Class Summary

Class	Description
BasePairParameters
ChainReorderer	A set of methods to reorder chains in an RNA structure.
ImmutableBasePairParameters	Immutable implementation of BasePairParameters.
ImmutableBasePairParameters.Builder	Builds instances of type ImmutableBasePairParameters.
ImmutableInteractionType	Immutable implementation of InteractionType.
ImmutableInteractionType.Builder	Builds instances of type ImmutableInteractionType.
ImmutablePhosphate	Immutable implementation of Phosphate.
ImmutablePhosphate.Builder	Builds instances of type ImmutablePhosphate.
ImmutablePseudophasePuckerType	Immutable implementation of PseudophasePuckerType.
ImmutablePseudophasePuckerType.Builder	Builds instances of type ImmutablePseudophasePuckerType.
ImmutableRibose	Immutable implementation of Ribose.
ImmutableRibose.Builder	Builds instances of type ImmutableRibose.
ImmutableStandardReferenceFrame	Immutable implementation of StandardReferenceFrame.
ImmutableStandardReferenceFrame.Builder	Builds instances of type ImmutableStandardReferenceFrame.
InteractionType	A type of interaction between two nucleotides.
Phosphate	A phosphate, part of RNA backbone.
PseudophasePuckerType	An angle describing the pseudophase pucker.
Ribose	A ribose, part of RNA backbone.
StandardReferenceFrame

Enum Summary

Enum	Description
Chi	A glycosidic bond torsion angle (chi), which is defined differently for purines and pyrimidines.
ChiRange	A range description for chi torsion angle type as defined in Saenger's "Principles...".
Nucleotide	A nucleotide (A, C, G, U or T) with all details regarding atoms, torsion angles, etc.
NucleotideComponentType	A type of the nucleotide component.
NucleotideTorsionAngle	A torsion angle defined in a nucleotide.
Pseudorotation	A range of pseudorotation values with their descriptions.