Package org.biojava.nbio.structure.chem

Enum PolymerType

java.lang.Object

java.lang.Enum<PolymerType>

org.biojava.nbio.structure.chem.PolymerType

All Implemented Interfaces:

Serializable, Comparable<PolymerType>

public enum PolymerType
extends Enum<PolymerType>
implements Serializable

Enumerates the classification of polymers. This information is derived from the mmcif dictionary

Since:

1.7

Author:

mulvaney, Andreas Prlic

See Also:

link into mmCIF dictionary

Enum Constant Summary

Enum Constants

Enum Constant	Description
cyclicPeptide	cyclic peptides
dna	polydeoxyribonucleotide
dnarna	polydeoxyribonucleotide/polyribonucleotide hybrid
dpeptide	polypeptide(D)
lpolysaccharide	polysaccharide(L)
otherPolymer	other
peptide	polypeptide(L)
peptideNucleicAcid	Peptide nucleic acids
polysaccharide	polysaccharide(D)
rna	polyribonucleotide
unknown	if all else fails...

Field Summary

Fields

Modifier and Type	Field	Description
static Set<PolymerType>	ALL_POLYMER_TYPES	Convenience Set of all polymer types.
static Set<PolymerType>	DNA_ONLY	Convenience Set of polymer types classified as DNA.
String	entity_poly_type
static Set<PolymerType>	POLYNUCLEOTIDE_ONLY	Convenience Set of polymer types classified as DNA.
static Set<PolymerType>	PROTEIN_ONLY	Convenience Set of polymer types classified as protein.
static Set<PolymerType>	RNA_ONLY	Convenience Set of polymer types classified as RNA.

Method Summary

Modifier and Type	Method	Description
static PolymerType	polymerTypeFromString(String polymerTypeString)
static PolymerType	valueOf(String name)	Returns the enum constant of this type with the specified name.
static PolymerType[]	values()	Returns an array containing the constants of this enum type, in the order they are declared.

Methods inherited from class java.lang.Enum

clone, compareTo, equals, finalize, getDeclaringClass, hashCode, name, ordinal, toString, valueOf

Methods inherited from class java.lang.Object

getClass, notify, notifyAll, wait, wait, wait

Enum Constant Detail

peptide

public static final PolymerType peptide

polypeptide(L)

dpeptide

public static final PolymerType dpeptide

polypeptide(D)

dna

public static final PolymerType dna

polydeoxyribonucleotide

rna

public static final PolymerType rna

polyribonucleotide

dnarna

public static final PolymerType dnarna

polydeoxyribonucleotide/polyribonucleotide hybrid

polysaccharide

public static final PolymerType polysaccharide

polysaccharide(D)

lpolysaccharide

public static final PolymerType lpolysaccharide

polysaccharide(L)

otherPolymer

public static final PolymerType otherPolymer

other

cyclicPeptide

public static final PolymerType cyclicPeptide

cyclic peptides

peptideNucleicAcid

public static final PolymerType peptideNucleicAcid

Peptide nucleic acids

unknown

public static final PolymerType unknown

if all else fails...

Field Detail

entity_poly_type

public final String entity_poly_type

PROTEIN_ONLY

public static final Set<PolymerType> PROTEIN_ONLY

Convenience Set of polymer types classified as protein. This only contains peptide

DNA_ONLY

public static final Set<PolymerType> DNA_ONLY

Convenience Set of polymer types classified as DNA. This only contains dna

RNA_ONLY

public static final Set<PolymerType> RNA_ONLY

Convenience Set of polymer types classified as RNA. This only contains rna

POLYNUCLEOTIDE_ONLY

public static final Set<PolymerType> POLYNUCLEOTIDE_ONLY

Convenience Set of polymer types classified as DNA. This contains:

• dna
• rna
• dnarna

ALL_POLYMER_TYPES

public static final Set<PolymerType> ALL_POLYMER_TYPES

Convenience Set of all polymer types.

Method Detail

values

public static PolymerType[] 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 (PolymerType c : PolymerType.values())
    System.out.println(c);

Returns:

an array containing the constants of this enum type, in the order they are declared

valueOf

public static PolymerType 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

polymerTypeFromString

public static PolymerType polymerTypeFromString(String polymerTypeString)