SPARCLE (Subfamily Protein Architecture Labeling Engine)
To use SPARCLE, you can either:
- Enter query protein sequence into CD-Search. The search results will include a "Protein Classification" section if the query protein has a hit to a curated domain architecture in the SPARCLE database.
-- OR --
- Search the SPARCLE database by keyword to retrieve domain architectures that contain the term(s) of interest in their descriptions.
With either approach, the corresponding SPARCLE record(s) will display the name and functional label of the architecture, supporting evidence, and links to other proteins with the same architecture.
Example and additional notes:
- DNA gyrase B (NP_387887), an antibiotic target, has a conserved domain architecture of a histidine kinase-like ATPase domain, a transducer domain, a topoisomerase-primase domain, followed by a type II topoisomerase carboxy domain (labeled as a DNA gyrase B domain by Pfam).
- Topoisomerase IV (Q45066), an enzyme of similar function, has a different domain architecture, as can be seen in the:
- CD-Search results for Q45066. The domain architecture of this enzyme is different than the architecture of DNA gyrase, despite the similarity in enzyme function. Note that the CD-Search results do not yet include a "Protein Classification" section above the graphical summary of conserved domains. This is because a curated SPARCLE record does not yet exist for this domain architecture. When a SPARCLE record becomes available, the CD-Search results display will include a Protein Classification" section and a link to the corresponding domain architecture.
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