UniProtU Package

Basic UniProt utils.

Python

Python>=3.10

Installing

UniprotU is available on PyPI:

pip install uniprotu

Usage

import uniprotu as u

print("Ensembl ID to UniProt ID:")
ensmbl_id: str = "ENST00000559488"
uniprot_id = u.ensembl_id2uniprot_id(ensmbl_id)
print(f"{ensmbl_id} => {uniprot_id}.")

print("\nDomains:")
# Set the list of features to retrieve. Set to [] to retrieve all features.
uniprot_features: list[str] = ["Topological domain", "Transmembrane", "Domain", "Repeat", "Region"]
df_domains = u.retrieve_protein_data_features_subset(uniprot_id, uniprot_features)
print(df_domains.to_string())

print("\nAA sequence:")
print(u.AA_seq(uniprot_id))

print("\nCross-reference:")
df_cross = u.get_CrossReferences_databases_info(uniprot_id)
print(df_cross.to_string(max_rows=10))

print("\nGet all protein data:")
protein_data = u.lookup_protein_data(uniprot_id)
print(f"protein_data contains {len(protein_data):,} entries...")

print("\nGet protein features:")
df_features = u.retrieve_protein_data_features_subset(uniprot_id, [])
print(df_features.to_string(max_rows=10))

print("\nUniProt ID to Ensembl ID:")
uid: str = 'P42336'
eid = u.uniprot_id2ensembl_id(uid)
print(f"{uid} => {eid}")