Triple

T8482534
Position Surface form Disambiguated ID Type / Status
Subject Protein Data Bank E200553 entity
Predicate memberOrganization P10218 FINISHED
Object PDBj
PDBj (Protein Data Bank Japan) is a Japanese organization that curates, archives, and provides access to three-dimensional biomolecular structure data as part of the worldwide Protein Data Bank consortium.
 E200553 NE FINISHED

How this triple was built (4 steps)

Every LLM step that produced this triple, in pipeline order — named-entity classification, the disambiguation choices (the exact options shown, with the pick highlighted), and the generated description. The batch + timestamp of each is in the Provenance table below.

NER Named-entity recognition gpt-5-mini
Instruction
Given a phrase, classify it is english named entity (e.g., persons, organizations, works of art) in Latin script, or not (e.g., literals, dates, URLs, verbose phrases). For disambiguation, the statement where the phrase occurs as object is also given. Please return a JSON object with `phrase` (string, the phrase being analyzed) and `is_ne` (boolean, indicating whether the phrase is a Named Entity).
Input
Phrase: PDBj | Statement: [Protein Data Bank, memberOrganization, PDBj]
NED1 Entity disambiguation (via context triple) gpt-5-mini-2025-08-07 
Target entity: PDBj
Context triple: [Protein Data Bank, memberOrganization, PDBj]
  • A. PDB
    PDB (Program Database) is a file format used by Microsoft development tools to store debugging and project state information for compiled programs.
  • B. Protein Data Bank
    The Protein Data Bank is a global repository that archives and provides open access to 3D structural data of biological macromolecules such as proteins and nucleic acids.
  • C. pdb
    pdb is Python’s built-in interactive debugger, used to inspect and control the execution of Python programs for troubleshooting and development.
  • D. EMBL-EBI AlphaFold Protein Structure Database
    The EMBL-EBI AlphaFold Protein Structure Database is a publicly accessible resource providing predicted 3D structures of proteins generated by DeepMind’s AlphaFold system.
  • E. UniParc
    UniParc is a comprehensive, non-redundant archive that stores and tracks all known unique protein sequences from multiple sources over time.
  • F. None of above. chosen
  • G. Unsure - the case is ambiguous/there is not enough information to decide.
NEDg Description generation gpt-5.1
Instruction
Generate a one-sentence description of the target entity. 
You are given a context triple in the form (subject, predicate, object), where the object is the target entity. 
# Instructions
Use the triple to infer relevant information about the entity. Describe the entity based on what is most defining, well-known. 
Avoid repeating the information from the triple, unless really essential.
# Response Format
Return only the sentence: "Description: [one-sentence description of the target entity]"
Input
Entity: PDBj
Triple: [Protein Data Bank, memberOrganization, PDBj]
Generated description
PDBj (Protein Data Bank Japan) is a Japanese organization that curates, archives, and provides access to three-dimensional biomolecular structure data as part of the worldwide Protein Data Bank consortium.
NED2 Entity disambiguation (via description) gpt-5-mini-2025-08-07 
Target entity: PDBj
Target entity description: PDBj (Protein Data Bank Japan) is a Japanese organization that curates, archives, and provides access to three-dimensional biomolecular structure data as part of the worldwide Protein Data Bank consortium.
  • A. PDB
    PDB (Program Database) is a file format used by Microsoft development tools to store debugging and project state information for compiled programs.
  • B. Protein Data Bank chosen
    The Protein Data Bank is a global repository that archives and provides open access to 3D structural data of biological macromolecules such as proteins and nucleic acids.
  • C. pdb
    pdb is Python’s built-in interactive debugger, used to inspect and control the execution of Python programs for troubleshooting and development.
  • D. EMBL-EBI AlphaFold Protein Structure Database
    The EMBL-EBI AlphaFold Protein Structure Database is a publicly accessible resource providing predicted 3D structures of proteins generated by DeepMind’s AlphaFold system.
  • E. UniParc
    UniParc is a comprehensive, non-redundant archive that stores and tracks all known unique protein sequences from multiple sources over time.
  • F. None of above.

Provenance (5 batches)

The batch behind each pipeline step, in order, with when it ran. Timestamps are batch-level — stages were processed in waves, so the object chain (NER → NED1 → NEDg → NED2) reads in order, but predicate / elicitation batches can sit in a different wave.

Step Stage Batch ID Status When
creating Elicitation batch_69ca831b17988190a1f3f3413d57b820 completed March 30, 2026, 2:05 p.m.
NER Named-entity recognition batch_69cbe53638c48190b742fc51d1b4442a completed March 31, 2026, 3:16 p.m.
NED1 Entity disambiguation (via context triple) batch_69ce4de95e3081908277c65598f3884a completed April 2, 2026, 11:07 a.m.
NEDg Description generation batch_69ce5028c38c81908e81390d0be21387 completed April 2, 2026, 11:16 a.m.
NED2 Entity disambiguation (via description) batch_69ce517fea7c819098d0343fd2c4ccdd completed April 2, 2026, 11:22 a.m.
Created at: March 30, 2026, 6:12 p.m.