Package org.rcsb.cif.schema.mm

Class NdbStructNaBasePair

java.lang.Object
org.rcsb.cif.schema.DelegatingCategory
org.rcsb.cif.schema.mm.NdbStructNaBasePair
All Implemented Interfaces:
Category
@Generated("org.rcsb.cif.schema.generator.SchemaGenerator")
public class NdbStructNaBasePair
extends DelegatingCategory
Data items in the NDB_STRUCT_NA_BASE_PAIR category record details of base pairing interactions.

  • Constructor Details

  • Method Details

    • createDelegate

      protected Column createDelegate​(String columnName, Column column)
      Overrides:
      createDelegate in class DelegatingCategory

    • getModelNumber

      public IntColumn getModelNumber()
      Describes the model number of the the base pair. This data item is a pointer to _atom_site.pdbx_PDB_model_num in the ATOM_SITE category.
      Returns:
      IntColumn

    • getPairNumber

      public IntColumn getPairNumber()
      Sequential number of pair in the pair sequence.
      Returns:
      IntColumn

    • getPairName

      public StrColumn getPairName()
      Text label for this base pair.
      Returns:
      StrColumn

    • getILabelAsymId

      public StrColumn getILabelAsymId()
      Describes the asym id of the i-th base in the base pair. This data item is a pointer to _atom_site.label_asym_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getILabelCompId

      public StrColumn getILabelCompId()
      Describes the component id of the i-th base in the base pair. This data item is a pointer to _atom_site.label_comp_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getILabelSeqId

      public IntColumn getILabelSeqId()
      Describes the sequence number of the i-th base in the base pair. This data item is a pointer to _atom_site.label_seq_id in the ATOM_SITE category.
      Returns:
      IntColumn

    • getISymmetry

      public StrColumn getISymmetry()
      Describes the symmetry operation that should be applied to the coordinates of the i-th base to generate the first partner in the base pair.
      Returns:
      StrColumn

    • getJLabelAsymId

      public StrColumn getJLabelAsymId()
      Describes the asym id of the j-th base in the base pair. This data item is a pointer to _atom_site.label_asym_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getJLabelCompId

      public StrColumn getJLabelCompId()
      Describes the component id of the j-th base in the base pair. This data item is a pointer to _atom_site.label_comp_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getJLabelSeqId

      public IntColumn getJLabelSeqId()
      Describes the sequence number of the j-th base in the base pair. This data item is a pointer to _atom_site.label_seq_id in the ATOM_SITE category.
      Returns:
      IntColumn

    • getJSymmetry

      public StrColumn getJSymmetry()
      Describes the symmetry operation that should be applied to the coordinates of the j-th base to generate the second partner in the base pair.
      Returns:
      StrColumn

    • getIAuthAsymId

      public StrColumn getIAuthAsymId()
      Describes the asym id of the i-th base in the base pair. This data item is a pointer to _atom_site.auth_asym_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getIAuthSeqId

      public StrColumn getIAuthSeqId()
      Describes the sequence number of the i-th base in the base pair. This data item is a pointer to _atom_site.auth_seq_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getIPDBInsCode

      public StrColumn getIPDBInsCode()
      Describes the PDB insertion code of the i-th base in the base pair. This data item is a pointer to _atom_site.pdbx_PDB_ins_code in the ATOM_SITE category.
      Returns:
      StrColumn

    • getJAuthAsymId

      public StrColumn getJAuthAsymId()
      Describes the asym id of the j-th base in the base pair. This data item is a pointer to _atom_site.auth_asym_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getJAuthSeqId

      public StrColumn getJAuthSeqId()
      Describes the sequence number of the j-th base in the base pair. This data item is a pointer to _atom_site.auth_seq_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getJPDBInsCode

      public StrColumn getJPDBInsCode()
      Describes the PDB insertion code of the j-th base in the base pair. This data item is a pointer to _atom_site.pdbx_PDB_ins_code in the ATOM_SITE category.
      Returns:
      StrColumn

    • getShear

      public FloatColumn getShear()
      The value of the base pair shear parameter.
      Returns:
      FloatColumn

    • getStretch

      public FloatColumn getStretch()
      The value of the base pair stretch parameter.
      Returns:
      FloatColumn

    • getStagger

      public FloatColumn getStagger()
      The value of the base pair stagger parameter.
      Returns:
      FloatColumn

    • getBuckle

      public FloatColumn getBuckle()
      The value of the base pair buckle parameter.
      Returns:
      FloatColumn

    • getPropeller

      public FloatColumn getPropeller()
      The value of the base pair propeller parameter.
      Returns:
      FloatColumn

    • getOpening

      public FloatColumn getOpening()
      The value of the base pair opening parameter.
      Returns:
      FloatColumn

    • getHbondType12

      public IntColumn getHbondType12()
      Base pair classification of Westhoff and Leontis.
      Returns:
      IntColumn

    • getHbondType28

      public IntColumn getHbondType28()
      Base pair classification of Saenger
      Returns:
      IntColumn