Get UniProt Entry by UniProt Cross-Reference Database and ID

UniProt Cross-Reference links protein Entities with cross-reference (external) databases. Using this function, you can retrieve a UniProt entity using external database name and protein ID in that database.

Usage

rba_uniprot_proteins_crossref(
  db_id,
  db_name,
  reviewed = NULL,
  isoform = NULL,
  ...
)

Arguments

db_id

The protein ID in the cross-reference (external) database.

db_name

cross-reference (external database) name.

reviewed

Logical: (Optional) If TRUE, only returns "UniProtKB/Swiss-Prot" (reviewed) entries; If FALSE, only returns TrEMBL (un-reviewed) entries.

isoform

Numeric: (Optional) you have two options:

0: Exclude isoforms.
1: Return isoforms only.

see: Alternative products

...

rbioapi option(s). See rba_options's arguments manual for more information on available options.

Value

List which each element is a UniProt entity that correspond to your supplied cross-reference database name and ID.

Corresponding API Resources

"GET https://www.ebi.ac.uk/proteins/api/proteins/{dbtype}:{dbid}"

References

The UniProt Consortium, UniProt: the universal protein knowledgebase in 2021, Nucleic Acids Research, Volume 49, Issue D1, 8 January 2021, Pages D480–D489, https://doi.org/10.1093/nar/gkaa1100
Andrew Nightingale, Ricardo Antunes, Emanuele Alpi, Borisas Bursteinas, Leonardo Gonzales, Wudong Liu, Jie Luo, Guoying Qi, Edd Turner, Maria Martin, The Proteins API: accessing key integrated protein and genome information, Nucleic Acids Research, Volume 45, Issue W1, 3 July 2017, Pages W539–W544, https://doi.org/10.1093/nar/gkx237
Proteins API Documentation
Citations note on UniProt website

Examples

# \donttest{
rba_uniprot_proteins_crossref("cd40", "hgnc")
# }
# \donttest{
rba_uniprot_proteins_crossref("cd40", "hgnc", reviewed = TRUE)
# }
# \donttest{
rba_uniprot_proteins_crossref("mica", "hgnc", isoform = 0)
# }