Package org.rcsb.cif.schema.mm

Class PdbxEntitySrcGenClone

java.lang.Object
org.rcsb.cif.schema.DelegatingCategory
org.rcsb.cif.schema.mm.PdbxEntitySrcGenClone
All Implemented Interfaces:
Category
@Generated("org.rcsb.cif.schema.generator.SchemaGenerator")
public class PdbxEntitySrcGenClone
extends DelegatingCategory
This category contains details for the cloning steps used in the overall protein production process. Each row in PDBX_ENTITY_SRC_GEN_CLONE should have an equivalent row in either PDBX_ENTITY_SRC_GEN_CLONE_LIGATION or PDBX_ENTITY_SRC_GEN_CLONE_RECOMBINATION. If only summary information is provided data in the later two categories may be omitted.

  • Constructor Details

  • Method Details

    • createDelegate

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

    • getEntryId

      public StrColumn getEntryId()
      The value of _pdbx_entity_src_gen_clone.entry_id uniquely identifies a sample consisting of one or more proteins whose structure is to be determined. This is a pointer to _entry.id. This item may be a site dependent bar code.
      Returns:
      StrColumn

    • getEntityId

      public StrColumn getEntityId()
      The value of _pdbx_entity_src_gen_clone.entity_id uniquely identifies each protein contained in the project target protein complex whose structure is to be determined. This data item is a pointer to _entity.id in the ENTITY category. This item may be a site dependent bar code.
      Returns:
      StrColumn

    • getStepId

      public IntColumn getStepId()
      This item is the unique identifier for this cloning step.
      Returns:
      IntColumn

    • getNextStepId

      public IntColumn getNextStepId()
      This item unique identifier for the next production step. This allows a workflow to have multiple entry points leading to a single product.
      Returns:
      IntColumn

    • getEndConstructId

      public StrColumn getEndConstructId()
      This item is a pointer to pdbx_construct.id in the PDBX_CONSTRUCT category. The referenced nucleic acid sequence is that of the cloned product.
      Returns:
      StrColumn

    • getRobotId

      public StrColumn getRobotId()
      This data item is a pointer to pdbx_robot_system.id in the PDBX_ROBOT_SYSTEM category.
      Returns:
      StrColumn

    • getDate

      public StrColumn getDate()
      The date of this production step.
      Returns:
      StrColumn

    • getGeneInsertMethod

      public StrColumn getGeneInsertMethod()
      The method used to insert the gene into the vector. For 'Ligation', an PDBX_ENTITY_SRC_GEN_CLONE_LIGATION entry with matching .step_id is expected. For 'Recombination', an PDBX_ENTITY_SRC_GEN_CLONE_RECOMBINATION entry with matching .step_id is expected.
      Returns:
      StrColumn

    • getVectorName

      public StrColumn getVectorName()
      The name of the vector used in this cloning step.
      Returns:
      StrColumn

    • getVectorDetails

      public StrColumn getVectorDetails()
      Details of any modifications made to the named vector.
      Returns:
      StrColumn

    • getTransformationMethod

      public StrColumn getTransformationMethod()
      The method used to transform the expression cell line with the vector
      Returns:
      StrColumn

    • getMarker

      public StrColumn getMarker()
      The type of marker included to allow selection of transformed cells
      Returns:
      StrColumn

    • getVerificationMethod

      public StrColumn getVerificationMethod()
      The method used to verify that the incorporated gene is correct
      Returns:
      StrColumn

    • getPurificationDetails

      public StrColumn getPurificationDetails()
      Details of any purification of the product.
      Returns:
      StrColumn

    • getSummary

      public StrColumn getSummary()
      Summary of ligation or recombionation cloning used, the associated verification method and any purification of the product.
      Returns:
      StrColumn