Skip to contents

Get Post-Translational Modification of UniProt Protein

Source: R/uniprot_proteomics.R
rba_uniprot_proteomics_ptm.Rd

UniProt maps post-translational modification proteomics data from different sources to the proteins' sequences. Using this function, you can retrieve all the post-translational modification features that has been map to a given UniProt protein's sequence.

Usage

rba_uniprot_proteomics_ptm(accession, confidence_score = NULL, ...)

Arguments

accession

UniProtKB primary or secondary accession.

confidence_score

(Character) Valid values: "Bronze", "Silver", or "gold".
UniProt classifies modified residues into three categories based on its false localization rate (FLR) across multiple dataset. See Large scale modified residue for more information.

...

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

Value

A list containing the post-translational modification features of your supplied UniProt protein's sequence.

Details

see also: PTM / Processing section in UniProtKB

UniProt categorizes proteomics data sources into three main data categories: PTM (Post-Translational Modification), non-PTM, and HPP (Human Proteome Project); each with corresponding API endpoints, and thus, rbioapi functions.

Corresponding API Resources

"GET https://www.ebi.ac.uk/proteins/api/proteomics/ptm/accession"

References

  • The UniProt Consortium , UniProt: the Universal Protein Knowledgebase in 2025, Nucleic Acids Research, 2024;, gkae1010, https://doi.org/10.1093/nar/gkae1010

  • 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 - Proteomics": rba_uniprot_proteomics_hpp(), rba_uniprot_proteomics_hpp_search(), rba_uniprot_proteomics_non_ptm(), rba_uniprot_proteomics_non_ptm_search(), rba_uniprot_proteomics_ptm_search(), rba_uniprot_proteomics_species()

Examples

# \donttest{
rba_uniprot_proteomics_ptm(accession = "P04234")
# }