Conserved Domain Database
E570177
The Conserved Domain Database is an NCBI-curated resource that catalogs and annotates conserved protein domains to support functional and evolutionary analysis of protein sequences.
All labels observed (2)
| Label | Occurrences |
|---|---|
| Conserved Domain Database canonical | 1 |
| Conserved Domains | 1 |
How this entity was disambiguated
This entity first appeared as the object of triple T6098290 — resolving that mention is where its identity was fixed. The disambiguator weighed these candidate entities and picked the highlighted one (or “None”, minting a new entity). This is how homonymy is resolved: the same surface form can point to different entities.
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: Conserved Domain Database Context triple: [Entrez system, hasPart, Conserved Domain Database]
-
A.
UniGene database
The UniGene database is a now-retired NCBI resource that organized expressed sequence tags and other gene-oriented sequence data into non-redundant clusters representing unique genes in a given organism.
-
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.
Protein database
The Protein database is a curated collection of protein sequences and related functional, structural, and bibliographic information maintained by the National Center for Biotechnology Information (NCBI).
-
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.
National Center for Biotechnology Information
The National Center for Biotechnology Information (NCBI) is a U.S. government bioinformatics institution that develops and hosts major biological databases and tools for biomedical research.
- F. None of above. chosen
- G. Unsure - the case is ambiguous/there is not enough information to decide.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: Conserved Domain Database Target entity description: The Conserved Domain Database is an NCBI-curated resource that catalogs and annotates conserved protein domains to support functional and evolutionary analysis of protein sequences.
-
A.
UniGene database
The UniGene database is a now-retired NCBI resource that organized expressed sequence tags and other gene-oriented sequence data into non-redundant clusters representing unique genes in a given organism.
-
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.
Protein database
The Protein database is a curated collection of protein sequences and related functional, structural, and bibliographic information maintained by the National Center for Biotechnology Information (NCBI).
-
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.
National Center for Biotechnology Information
The National Center for Biotechnology Information (NCBI) is a U.S. government bioinformatics institution that develops and hosts major biological databases and tools for biomedical research.
- F. None of above. chosen
Statements (45)
| Predicate | Object |
|---|---|
| instanceOf |
NCBI resource
ⓘ
biological database ⓘ online database ⓘ protein domain database ⓘ |
| countryOfHosting |
United States
ⓘ
linked to:
United States of America
|
| curationType | NCBI-curated ⓘ |
| describes | conserved protein domains ⓘ |
| focusesOn | protein domains ⓘ |
| hasAbbreviation | CDD ⓘ |
| hasAccessURL | https://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml ⓘ |
| hasDocumentation | NCBI Help documentation ⓘ |
| hasFeature |
conserved functional site mapping
ⓘ
graphical domain architecture display ⓘ hierarchical organization of domain families ⓘ links to 3D structure information when available ⓘ |
| hasPublicationType | database article ⓘ |
| hostedBy |
National Library of Medicine
ⓘ
linked to:
United States National Library of Medicine
|
| includesDataFrom |
COG
ⓘ
KOG ⓘ NCBI-curated domain models ⓘ PRK ⓘ Pfam ⓘ
linked to:
Pfam domains
SMART ⓘ TIGRFAMs ⓘ |
| integratedWith |
NCBI BLAST services
ⓘ
linked to:
BLAST
NCBI protein records ⓘ |
| language | English ⓘ |
| maintainedBy |
NCBI
ⓘ
National Center for Biotechnology Information ⓘ |
| partOf |
NCBI Entrez system
ⓘ
linked to:
Entrez system
|
| provides |
conserved domain models
ⓘ
functional site annotations ⓘ multiple sequence alignments of domains ⓘ position-specific scoring matrices ⓘ |
| subjectArea |
bioinformatics
ⓘ
molecular biology ⓘ protein evolution ⓘ |
| supportsAnalysisType |
domain architecture analysis
ⓘ
evolutionary analysis of protein sequences ⓘ functional analysis of protein sequences ⓘ protein annotation ⓘ |
| usedBy | NCBI CD-Search tool ⓘ |
| usedFor |
classification of proteins into families
ⓘ
identification of conserved domains in protein sequences ⓘ prediction of protein function ⓘ |
How these facts were elicited
The pipeline generated the facts above by prompting gpt-5.1 with this entity's name + description and the instruction below.
Instruction
You are a knowledge base construction expert. Given a subject entity and a description of it, return factual statements that you know for the subject as a JSON list of dictionaries(triples), where keys must be "subject", "predicate" and "object". The number of facts may be very high, between 25 to 50 or more, for very popular subjects. For less popular subjects, the number of facts can be very low, like 5 or 10. # Requirements - If you don't know the subject at all, return an empty list. - If the subject is not a named entity, return an empty list. - Include at least one triple where predicate is "instanceOf". - Do not get too wordy. - Separate several objects into multiple triples with one object.
Input
Subject: Conserved Domain Database Description of subject: The Conserved Domain Database is an NCBI-curated resource that catalogs and annotates conserved protein domains to support functional and evolutionary analysis of protein sequences.
Referenced by (2)
Full triples — surface form annotated when it differs from this entity's canonical label.
linked to: Conserved Domain Database