Package org.rcsb.cif.schema.mm

Class PdbxValidateRmsdBond

java.lang.Object
org.rcsb.cif.schema.DelegatingCategory
org.rcsb.cif.schema.mm.PdbxValidateRmsdBond
All Implemented Interfaces:
Category
@Generated("org.rcsb.cif.schema.generator.SchemaGenerator")
public class PdbxValidateRmsdBond
extends DelegatingCategory
Data items in the PDBX_VALIDATE_RMSD_BOND category list the covalent bonds that have values which deviate from expected values by more than 6*rmsd.

  • Constructor Details

  • Method Details

    • createDelegate

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

    • getId

      public IntColumn getId()
      The value of _pdbx_validate_rmsd_bond.id must uniquely identify each item in the PDBX_VALIDATE_RMSD_BOND list. This is an integer serial number.
      Returns:
      IntColumn

    • getPDBModelNum

      public IntColumn getPDBModelNum()
      The model number for the given bond
      Returns:
      IntColumn

    • getAuthAsymId1

      public StrColumn getAuthAsymId1()
      Part of the identifier of the first of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_asym_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthAtomId1

      public StrColumn getAuthAtomId1()
      Part of the identifier of the first of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_atom_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthCompId1

      public StrColumn getAuthCompId1()
      Part of the identifier of the first of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_comp_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthSeqId1

      public StrColumn getAuthSeqId1()
      Part of the identifier of the first of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_seq_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthAtomId2

      public StrColumn getAuthAtomId2()
      Part of the identifier of the second of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_atom_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthAsymId2

      public StrColumn getAuthAsymId2()
      Part of the identifier of the second of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_asym_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthCompId2

      public StrColumn getAuthCompId2()
      Part of the identifier of the second of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_comp_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getAuthSeqId2

      public StrColumn getAuthSeqId2()
      Part of the identifier of the second of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.auth_seq_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getPDBInsCode1

      public StrColumn getPDBInsCode1()
      Optional identifier of the first of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.pdbx_PDB_ins_code in the ATOM_SITE category.
      Returns:
      StrColumn

    • getPDBInsCode2

      public StrColumn getPDBInsCode2()
      Optional identifier of the second of the two atom sites that define the covalent bond. This data item is a pointer to _atom_site.pdbx_PDB_ins_code in the ATOM_SITE category.
      Returns:
      StrColumn

    • getLabelAltId1

      public StrColumn getLabelAltId1()
      An optional identifier of the first of the two atoms that define the covalent bond. This data item is a pointer to _atom_site.label_alt_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getLabelAltId2

      public StrColumn getLabelAltId2()
      An optional identifier of the second of the two atoms that define the covalent bond. This data item is a pointer to _atom_site.label_alt_id in the ATOM_SITE category.
      Returns:
      StrColumn

    • getBondDeviation

      public FloatColumn getBondDeviation()
      The value of the deviation from ideal for the defined covalent bond for the two atoms defined.
      Returns:
      FloatColumn

    • getBondValue

      public FloatColumn getBondValue()
      The value of the bond length
      Returns:
      FloatColumn

    • getBondTargetValue

      public FloatColumn getBondTargetValue()
      The target value of the bond length
      Returns:
      FloatColumn

    • getBondStandardDeviation

      public FloatColumn getBondStandardDeviation()
      The uncertaintiy in target value of the bond length expressed as a standard deviation.
      Returns:
      FloatColumn

    • getLinkerFlag

      public StrColumn getLinkerFlag()
      A flag to indicate if the bond is between two residues
      Returns:
      StrColumn