ArchDB is a compilation of structural classifications of loops extracted from known protein structures. The structural classification is based on the geometry and conformation of the loop. The geometry is defined by four internal variables and the type of regular flanking secondary structures, resulting in 10 different loop types. Loops in ArchDB have been classified using an improved version (Espadaler et al.) of the original ArchType program published in 1997 by Oliva et al.

Prefix

archdb

Keywords

classification life science protein

Links

Homepage

Contact

Narcis Fernandez-Fuentes   0000-0002-6421-1080

Pattern for Local Unique Identifiers

Missing LUI pattern

Example Local Unique Identifier

39421   Resolve

Example CURIE

archdb:39421

Publications

• 2013 ArchDB 2014: structural classification of loops in proteins.
• 2004 ArchDB: automated protein loop classification as a tool for structural genomics.

Reviewer

Charles Tapley Hoyt   0000-0003-4423-4370   cthoyt

The metaregistry provides mappings between the Bioregistry and other registries. There are 2 mappings to external registries for archdb with 2 unique external prefixes.

Providers are various services that resolve CURIEs to URLs. The example CURIE archdb:39421 is used to demonstrate the provides available for archdb. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.