Package org.rcsb.cif.model.generated

Class PdbxEntitySrcSyn

java.lang.Object

org.rcsb.cif.model.BaseCategory

org.rcsb.cif.model.generated.PdbxEntitySrcSyn

All Implemented Interfaces:

Category

@Generated("org.rcsb.cif.generator.SchemaGenerator")
public class PdbxEntitySrcSyn
extends BaseCategory

The data items in category PDBX_ENTITY_SRC_SYN record the source details about chemically synthesized molecules.

Field Summary

Fields inherited from class org.rcsb.cif.model.BaseCategory

isText, textFields

Constructor Summary

Constructors

Constructor	Description
PdbxEntitySrcSyn(String name)
PdbxEntitySrcSyn(String name, int rowCount, Object[] encodedColumns)
PdbxEntitySrcSyn(String name, Map<String,Column> columns)

Method Summary

Modifier and Type	Method	Description
StrColumn	getDetails()	A description of special aspects of the source for the synthetic entity.
StrColumn	getEntityId()	This data item is a pointer to _entity.id in the ENTITY category.
StrColumn	getNcbiTaxonomyId()	NCBI Taxonomy identifier of the organism from which the sequence of the synthetic entity was derived.
StrColumn	getOrganismCommonName()	The common name of the organism from which the sequence of the synthetic entity was derived.
StrColumn	getOrganismScientific()	The scientific name of the organism from which the sequence of the synthetic entity was derived.
StrColumn	getPdbxAltSourceFlag()	This data item identifies cases in which an alternative source modeled.
IntColumn	getPdbxBegSeqNum()	The beginning polymer sequence position for the polymer section corresponding to this source.
IntColumn	getPdbxEndSeqNum()	The ending polymer sequence position for the polymer section corresponding to this source.
IntColumn	getPdbxSrcId()	This data item is an ordinal identifier for pdbx_entity_src_syn data records.
StrColumn	getStrain()	The strain of the organism from which the sequence of the synthetic entity was derived.

Methods inherited from class org.rcsb.cif.model.BaseCategory

getBinaryColumn, getCategoryName, getColumn, getColumnNames, getRowCount, isDefined

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.rcsb.cif.model.Category

columnNames, columns, get

Constructor Detail

PdbxEntitySrcSyn

public PdbxEntitySrcSyn(String name,
                        Map<String,Column> columns)

PdbxEntitySrcSyn

public PdbxEntitySrcSyn(String name,
                        int rowCount,
                        Object[] encodedColumns)

PdbxEntitySrcSyn

public PdbxEntitySrcSyn(String name)

Method Detail

getDetails

public StrColumn getDetails()

A description of special aspects of the source for the synthetic entity.

Returns:

StrColumn

getOrganismScientific

public StrColumn getOrganismScientific()

The scientific name of the organism from which the sequence of the synthetic entity was derived.

Returns:

StrColumn

getOrganismCommonName

public StrColumn getOrganismCommonName()

The common name of the organism from which the sequence of the synthetic entity was derived.

Returns:

StrColumn

getStrain

public StrColumn getStrain()

The strain of the organism from which the sequence of the synthetic entity was derived.

Returns:

StrColumn

getNcbiTaxonomyId

public StrColumn getNcbiTaxonomyId()

NCBI Taxonomy identifier of the organism from which the sequence of the synthetic entity was derived. Reference: Wheeler DL, Chappey C, Lash AE, Leipe DD, Madden TL, Schuler GD, Tatusova TA, Rapp BA (2000). Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2000 Jan 1;28(1):10-4 Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Rapp BA, Wheeler DL (2000). GenBank. Nucleic Acids Res 2000 Jan 1;28(1):15-18.

Returns:

StrColumn

getEntityId

public StrColumn getEntityId()

This data item is a pointer to _entity.id in the ENTITY category.

Returns:

StrColumn

getPdbxSrcId

public IntColumn getPdbxSrcId()

This data item is an ordinal identifier for pdbx_entity_src_syn data records.

Returns:

IntColumn

getPdbxAltSourceFlag

public StrColumn getPdbxAltSourceFlag()

This data item identifies cases in which an alternative source modeled.

Returns:

StrColumn

getPdbxBegSeqNum

public IntColumn getPdbxBegSeqNum()

The beginning polymer sequence position for the polymer section corresponding to this source. A reference to the sequence position in the entity_poly category.

Returns:

IntColumn

getPdbxEndSeqNum

public IntColumn getPdbxEndSeqNum()

The ending polymer sequence position for the polymer section corresponding to this source. A reference to the sequence position in the entity_poly category.

Returns:

IntColumn