The Proteins API: accessing key integrated protein and genome information

Nucleic Acids Res. 2017 Jul 3;45(W1):W539-W544. doi: 10.1093/nar/gkx237.


The Proteins API provides searching and programmatic access to protein and associated genomics data such as curated protein sequence positional annotations from UniProtKB, as well as mapped variation and proteomics data from large scale data sources (LSS). Using the coordinates service, researchers are able to retrieve the genomic sequence coordinates for proteins in UniProtKB. This, the LSS genomics and proteomics data for UniProt proteins is programmatically only available through this service. A Swagger UI has been implemented to provide documentation, an interface for users, with little or no programming experience, to 'talk' to the services to quickly and easily formulate queries with the services and obtain dynamically generated source code for popular programming languages, such as Java, Perl, Python and Ruby. Search results are returned as standard JSON, XML or GFF data objects. The Proteins API is a scalable, reliable, fast, easy to use RESTful services that provides a broad protein information resource for users to ask questions based upon their field of expertise and allowing them to gain an integrated overview of protein annotations available to aid their knowledge gain on proteins in biological processes. The Proteins API is available at (

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Biomarkers / metabolism
  • Copper-Transporting ATPases / genetics*
  • Copper-Transporting ATPases / metabolism
  • Databases, Genetic
  • Gene Expression
  • Genome, Human*
  • Hepatolenticular Degeneration / genetics*
  • Hepatolenticular Degeneration / metabolism
  • Hepatolenticular Degeneration / pathology
  • Humans
  • Internet*
  • Mice
  • Molecular Sequence Annotation
  • Proteomics / methods
  • User-Computer Interface*


  • Biomarkers
  • ATP7B protein, human
  • Copper-Transporting ATPases