rba_uniprot_features_search {rbioapi} | R Documentation |
Note that this is a search function. Thus, you are not required to fill
every argument; You may use whatever combinations of arguments you see
fit for your query.
UniProt Entries are grouped in two sections:
Reviewed(Swiss-Prot): Manually annotated records with information extracted from literature and curator-evaluated computational analysis.
Unreviewed (TrEMBL): Computationally analyzed records that await full manual annotation.
rba_uniprot_features_search(
accession = NULL,
gene = NULL,
exact_gene = NULL,
protein = NULL,
reviewed = NULL,
organism = NULL,
taxid = NULL,
categories = NULL,
types = NULL,
...
)
accession |
UniProtKB primary or secondary accession(s). You can supply up to 100 accession numbers. |
gene |
UniProt gene name(s). You can supply up to 20 gene names. e.g. if you supply "CD40", "CD40 ligand" will also be included. |
exact_gene |
UniProt exact gene name(s). You can supply up to 20 exact gene names. e.g. if you supply "CD40", "CD40 ligand" will not be included in the results. |
protein |
|
reviewed |
Logical: If TRUE, only return "UniProtKB/Swiss-Prot" (reviewed) entries; If FALSE, only return TrEMBL (un-reviewed) entries. |
organism |
|
taxid |
NIH-NCBI Taxon ID. You can supply up to 20 taxon IDs. |
categories |
Sequence annotation (Features) categories (subsection). accepted values are: "MOLECULE_PROCESSING", "TOPOLOGY", "SEQUENCE_INFORMATION", "STRUCTURAL", "DOMAINS_AND_SITES", "PTM", "VARIANTS" and/or "MUTAGENESIS". You can supply up to 8 categories. |
types |
Sequence annotation (Features) types. accepted values are: "INIT_MET", "SIGNAL", "PROPEP", "TRANSIT", "CHAIN", "PEPTIDE", "TOPO_DOM", "TRANSMEM", "DOMAIN", "REPEAT", "CA_BIND", "ZN_FING", "DNA_BIND", "NP_BIND", "REGION", "COILED", "MOTIF", "COMPBIAS", "ACT_SITE", "METAL", "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. |
... |
rbioapi option(s). See |
List where each element corresponds to one UniProt entity returned by your search query. The element itself is a sub-list containing all information that UniProt has about that entity.
"GET https://www.ebi.ac.uk/proteins/api/features"
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
Other "UniProt - Features":
rba_uniprot_features()
rba_uniprot_features_search(accession = "Q99616")
rba_uniprot_features_search(gene = "cd40")
rba_uniprot_features_search(gene = "cd40 ligand")
rba_uniprot_features_search(gene = "cd40", reviewed = TRUE)
rba_uniprot_features_search(accession = "Q99616",
categories = c("MOLECULE_PROCESSING", "TOPOLOGY"))
rba_uniprot_features_search(accession = "Q99616", types = "DISULFID")