de.bioforscher.singa.structure.parser.pdb.rest.cluster

Class PDBSequenceCluster

java.lang.Object

de.bioforscher.singa.core.parser.AbstractParser<ResultType>

de.bioforscher.singa.core.parser.AbstractHTMLParser<ResultType>

de.bioforscher.singa.structure.parser.pdb.rest.PDBRestEndpoint

de.bioforscher.singa.structure.parser.pdb.rest.cluster.PDBSequenceCluster

All Implemented Interfaces:

de.bioforscher.singa.core.parser.Parser

public class PDBSequenceCluster
extends PDBRestEndpoint

A PDBRestEndpoint that uses the PDB REST API to obtain the sequence cluster for a given chain.

Author:

fk

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	PDBSequenceCluster.PDBSequenceClusterIdentity

Constructor Summary

Constructors

Constructor and Description
PDBSequenceCluster(String pdbIdentifier, String chainIdentifier, PDBSequenceCluster.PDBSequenceClusterIdentity identity)

Method Summary

Modifier and Type	Method and Description
List<PDBSequenceClusterMember>	getClusterMembers()
protected String	getEndpoint()
String[]	getRepresentative() Returns the representative for this cluster as an array containing the PDB-ID and the chain-ID.
static PDBSequenceCluster	of(String pdbIdentifier, String chainIdentifier, PDBSequenceCluster.PDBSequenceClusterIdentity identity)
PDBSequenceCluster	parse()

Methods inherited from class de.bioforscher.singa.core.parser.AbstractHTMLParser

fetchResource, fetchResource, fetchWithQuery

Methods inherited from class de.bioforscher.singa.core.parser.AbstractParser

getFetchResult, getResource, setFetchResult, setResource

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

PDBSequenceCluster

public PDBSequenceCluster(String pdbIdentifier,
                          String chainIdentifier,
                          PDBSequenceCluster.PDBSequenceClusterIdentity identity)

Method Detail

of

public static PDBSequenceCluster of(String pdbIdentifier,
                                    String chainIdentifier,
                                    PDBSequenceCluster.PDBSequenceClusterIdentity identity)

getClusterMembers

public List<PDBSequenceClusterMember> getClusterMembers()

parse

public PDBSequenceCluster parse()

getEndpoint

protected String getEndpoint()

Specified by:

getEndpoint in class PDBRestEndpoint

getRepresentative

public String[] getRepresentative()

Returns the representative for this cluster as an array containing the PDB-ID and the chain-ID.

Returns:

The representative chain of this cluster.