Package pl.poznan.put.pdb.analysis

Enum MoleculeType

    • Method Detail

      • values

        public static MoleculeType[] values()
        Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows: 
        for (MoleculeType c : MoleculeType.values())
    System.out.println(c);
        Returns:
        an array containing the constants of this enum type, in the order they are declared

      • valueOf

        public static MoleculeType valueOf​(String name)
        Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)
        Parameters:
        name - the name of the enum constant to be returned.
        Returns:
        the enum constant with the specified name
        Throws:
        IllegalArgumentException - if this enum type has no constant with the specified name
        NullPointerException - if the argument is null

      • areConnected

        public boolean areConnected​(PdbResidue r1,
                            PdbResidue r2)
        Checks if two residues are connected. For nucleotides, the check is on O3'-P bond. For amino acids, the check is on C-N bond.
        Parameters:
        r1 - The first residue.
        r2 - The second residue.
        Returns:
        True if residues are connected.

      • allAngleTypes

        public List<MasterTorsionAngleType> allAngleTypes()
        Generates a list of all atom-based torsion angle types for this molecule type.
        Returns:
        A list of atom-based torsion angle types.

      • mainAngleTypes

        public List<MasterTorsionAngleType> mainAngleTypes()
        Generates a list of main atom-based torsion angle types for this molecule type.
        Returns:
        A list of atom-based torsion angle types.