Package org.rcsb.cif.model.generated

Class PdbxReferenceEntityPolyLink

java.lang.Object

org.rcsb.cif.model.BaseCategory

org.rcsb.cif.model.generated.PdbxReferenceEntityPolyLink

All Implemented Interfaces:

Category

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

Data items in the PDBX_REFERENCE_ENTITY_POLY_LINK category give details about polymer linkages including both standard and non-standard linkages between polymer componnents.

Field Summary

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

isText, textFields

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
StrColumn	getAtomId1()	The atom identifier/name in the first of the two components making the linkage.
StrColumn	getAtomId2()	The atom identifier/name in the second of the two components making the linkage.
StrColumn	getCompId1()	The component identifier in the first of the two components making the linkage.
StrColumn	getCompId2()	The component identifier in the second of the two components making the linkage.
IntColumn	getComponentId()	The entity component identifier entity containing the linkage.
StrColumn	getDetails()	A description of special aspects of this linkage.
IntColumn	getEntitySeqNum1()	For a polymer entity, the sequence number in the first of the two components making the linkage.
IntColumn	getEntitySeqNum2()	For a polymer entity, the sequence number in the second of the two components making the linkage.
StrColumn	getInsertCode1()	The residue insertion code for the first of the two components making the non-standard linkage.
StrColumn	getInsertCode2()	The residue insertion code for the second of the two components making the non-standard linkage.
IntColumn	getLinkId()	The value of _pdbx_reference_entity_poly_link.link_id uniquely identifies a linkage within a polymer entity.
StrColumn	getPrdId()	The value of _pdbx_reference_entity_poly_link.prd_id is a reference _pdbx_reference_entity_list.prd_id in the PDBX_REFERENCE_ENTITY_POLY category.
StrColumn	getRefEntityId()	The reference entity id of the polymer entity containing the linkage.
StrColumn	getValueOrder()	The bond order target for the non-standard linkage.

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

PdbxReferenceEntityPolyLink

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

PdbxReferenceEntityPolyLink

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

PdbxReferenceEntityPolyLink

public PdbxReferenceEntityPolyLink(String name)

Method Detail

getLinkId

public IntColumn getLinkId()

The value of _pdbx_reference_entity_poly_link.link_id uniquely identifies a linkage within a polymer entity.

Returns:

IntColumn

getPrdId

public StrColumn getPrdId()

The value of _pdbx_reference_entity_poly_link.prd_id is a reference _pdbx_reference_entity_list.prd_id in the PDBX_REFERENCE_ENTITY_POLY category.

Returns:

StrColumn

getDetails

public StrColumn getDetails()

A description of special aspects of this linkage.

Returns:

StrColumn

getRefEntityId

public StrColumn getRefEntityId()

The reference entity id of the polymer entity containing the linkage. This data item is a pointer to _pdbx_reference_entity_poly.ref_entity_id in the PDBX_REFERENCE_ENTITY_POLY category.

Returns:

StrColumn

getComponentId

public IntColumn getComponentId()

The entity component identifier entity containing the linkage.

Returns:

IntColumn

getEntitySeqNum1

public IntColumn getEntitySeqNum1()

For a polymer entity, the sequence number in the first of the two components making the linkage. This data item is a pointer to _pdbx_reference_entity_poly_seq.num in the PDBX_REFERENCE_ENTITY_POLY_SEQ category.

Returns:

IntColumn

getEntitySeqNum2

public IntColumn getEntitySeqNum2()

For a polymer entity, the sequence number in the second of the two components making the linkage. This data item is a pointer to _pdbx_reference_entity_poly_seq.num in the PDBX_REFERENCE_ENTITY_POLY_SEQ category.

Returns:

IntColumn

getCompId1

public StrColumn getCompId1()

The component identifier in the first of the two components making the linkage. This data item is a pointer to _pdbx_reference_entity_poly_seq.mon_id in the PDBX_REFERENCE_ENTITY_POLY_SEQ category.

Returns:

StrColumn

getCompId2

public StrColumn getCompId2()

The component identifier in the second of the two components making the linkage. This data item is a pointer to _pdbx_reference_entity_poly_seq.mon_id in the PDBX_REFERENCE_ENTITY_POLY_SEQ category.

Returns:

StrColumn

getAtomId1

public StrColumn getAtomId1()

The atom identifier/name in the first of the two components making the linkage.

Returns:

StrColumn

getAtomId2

public StrColumn getAtomId2()

The atom identifier/name in the second of the two components making the linkage.

Returns:

StrColumn

getInsertCode1

public StrColumn getInsertCode1()

The residue insertion code for the first of the two components making the non-standard linkage.

Returns:

StrColumn

getInsertCode2

public StrColumn getInsertCode2()

The residue insertion code for the second of the two components making the non-standard linkage.

Returns:

StrColumn

getValueOrder

public StrColumn getValueOrder()

The bond order target for the non-standard linkage.

Returns:

StrColumn