Uses of Enum Class
ffx.potential.bonded.NucleicAcidUtils.NucleicAcid3
Package
Description
The Bonded package implements bonded molecular mechanics terms such as bonds, angles, torsions,
etc.
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Uses of NucleicAcidUtils.NucleicAcid3 in ffx.potential.bonded
Modifier and TypeFieldDescriptionNucleicAcidUtils.NA1toNA3
ConstantNA1toNA3
static final List
<NucleicAcidUtils.NucleicAcid3> NucleicAcidUtils.nucleicAcidList
ConstantnucleicAcidList
Modifier and TypeMethodDescriptionResidue.getNucleicAcid3()
getNucleicAcid3.Residue.getNucleicAcid3
(boolean matchShortName) Returns the NucleicAcid3 corresponding to this Residue, with additional robust checking for 1- or 2-letter names.Best-guess parse of a String to an NA3.Returns the enum constant of this class with the specified name.static NucleicAcidUtils.NucleicAcid3[]
NucleicAcidUtils.NucleicAcid3.values()
Returns an array containing the constants of this enum class, in the order they are declared.Modifier and TypeMethodDescriptionRotamer[]
RotamerLibrary.getRotamers
(NucleicAcidUtils.NucleicAcid3 name) Return an array of Rotamers for the given nucleic acid.static void
NamingUtils.renameCommonNucleicAcid
(Residue residue, NucleicAcidUtils.NucleicAcid3 na3) Renames atoms in common nucleic acids to PDB standard.static void
NamingUtils.renameCommonNucleobase
(Atom N19, Atom C1s, NucleicAcidUtils.NucleicAcid3 na3) Renames the atoms of the common nucleobases (A, C, G, T, U, and deoxy variants).ModifierConstructorDescriptionRotamer
(NucleicAcidUtils.NucleicAcid3 nucleicAcid3, double... values) Constructor for Rotamer.Rotamer
(NucleicAcidUtils.NucleicAcid3 nucleicAcid3, ResidueState residueState, double... values) Constructor for Rotamer.Rotamer
(NucleicAcidUtils.NucleicAcid3 nucleicAcid3, ResidueState residueState, TitrationUtils titrationUtils, double... values) Constructor for Rotamer.