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Get UniProt protein sequence features by accession

Source: R/uniprot_proteins.R
rba_uniprot_features.Rd

UniProt sequence features describe biologically relevant sites and regions within a protein sequence. Retrieve these annotations for one UniProtKB accession, optionally filtered by annotation type, category, or amino-acid range.

Usage

rba_uniprot_features(
  accession,
  types = NULL,
  categories = NULL,
  location = NULL,
  ...
)

Arguments

accession

Character: UniProtKB primary or secondary accession.

types

Character: (optional) Sequence annotation (features) types. Accepted values are: "INIT_MET", "SIGNAL", "PROPEP", "TRANSIT", "CHAIN", "PEPTIDE", "TOPO_DOM", "TRANSMEM", "DOMAIN", "REPEAT", "ZN_FING", "DNA_BIND", "REGION", "COILED", "MOTIF", "COMPBIAS", "ACT_SITE", "BINDING", "SITE", "NON_STD", "MOD_RES", "LIPID", "CARBOHYD", "DISULFID", "CROSSLNK", "VAR_SEQ", "VARIANT", "MUTAGEN", "UNSURE", "CONFLICT", "NON_CONS", "NON_TER", "HELIX", "TURN", "STRAND" and/or "INTRAMEM". You can supply up to 20 types.

categories

Character: (optional) Sequence annotation (features) categories. Accepted values are: "MOLECULE_PROCESSING", "TOPOLOGY", "SEQUENCE_INFORMATION", "STRUCTURAL", "DOMAINS_AND_SITES", "PTM", "VARIANTS" and/or "MUTAGENESIS". You can supply up to 20 categories.

location

Character: (optional) Amino-acid range in "begin-end" format, e.g. "35-70".

...

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

Value

A list containing the entry metadata, sequence, and matching annotations in its features element.

Corresponding API Resources

"GET https://www.ebi.ac.uk/proteins/api/features/{accession}"

References

  • The UniProt Consortium. (2025). UniProt: the Universal Protein Knowledgebase in 2025. Nucleic Acids Research, 53(D1), D609–D617. https://doi.org/10.1093/nar/gkae1010

  • Nightingale, A., Antunes, R., Alpi, E., Bursteinas, B., Gonzales, L., Liu, W., Luo, J., Qi, G., Turner, E., & Martin, M. (2017). The Proteins API: Accessing key integrated protein and genome information. Nucleic Acids Research, 45(W1), W539–W544. https://doi.org/10.1093/nar/gkx237

  • Proteins API Documentation

  • Citations note on UniProt website

See also

Other "UniProt - Features": rba_uniprot_features_search(), rba_uniprot_features_type()

Examples

# \donttest{
rba_uniprot_features("Q99616")
# }
# \donttest{
rba_uniprot_features(accession = "Q99616", types = "DISULFID")
# }