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Get UniParc entry

Source: R/uniprot_uniparc.R
rba_uniprot_uniparc.Rd

Use this function to retrieve UniParc entries. You can use either -and only one of- UniProt accession, Cross-reference database id, UniParc ID or UniProt Proteome UPID. You can also filter the returned content of the returned UniParc entry. see "Argument" section for more details.

Usage

rba_uniprot_uniparc(
  upi = NULL,
  accession = NULL,
  db_id = NULL,
  upid = NULL,
  rf_dd_type = NULL,
  rf_db_id = NULL,
  rf_active = NULL,
  rf_tax_id = NULL,
  ...
)

Arguments

upi

unique UniParc Identifier.

accession

UniProtKB primary or secondary accession.

db_id

Protein ID in the cross-reference (external) database.

upid

UniProt Proteome identifier (UPID). You can supply up to 100 UPIDs.

rf_dd_type

Filter the content of the UniParc entry by cross-reference names. You can supply multiple values.

rf_db_id

Filter the content of the UniParc entry by protein identifiers in any cross-reference database. You can supply multiple values.

rf_active

(logical ) Filter the content of UniParc entry based on active status on source database:

  • NULL: (default) don't filter contents based on active status.

  • TRUE: only return contents which are still active.

  • FALSE: Only return contents which are not active.

rf_tax_id

(Numeric) Filter the content of the UniParc entry by NIH-NCBI Taxon ID. You can supply multiple values.

...

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

Value

A list which correspond to a UniParc entry.

Corresponding API Resources

"GET https://ebi.ac.uk/proteins/api/uniparc/accession/{accession} "
"GET https://ebi.ac.uk/proteins/api/uniparc/dbreference/{dbid}"
"GET https://ebi.ac.uk/proteins/api/uniparc/proteome/{upid}"
"GET https://ebi.ac.uk/proteins/api/uniparc/upi/{upi}"

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

See also

Other "UniProt - UniParc": rba_uniprot_uniparc_bestguess(), rba_uniprot_uniparc_search(), rba_uniprot_uniparc_sequence()

Examples

# \donttest{
rba_uniprot_uniparc(upi = "UPI00000000C9")
# }
# \donttest{
rba_uniprot_uniparc(upi = "UPI00000000C9")
# }
# \donttest{
rba_uniprot_uniparc(upi = "UPI00000000C9", rf_active = FALSE)
# }