Uniprot-fasta-header

Parse Uniprot fasta headers.

Features

• UniProtKB header parsing
• UniProtKB isoform header parsing

Usage

UniProtKB

use uniprot_fasta_header::{UniProtKB, UniprotFasta};

let header = ">sp|P18355|YPFU_ECOLI Uncharacterized protein in traD-traI intergenic region OS=Escherichia coli (strain K12) OX=83333 PE=3 SV=1".as_bytes();

let (_, parsed) = UniProtKB::parse(header).unwrap();

let expected = UniProtKB {
    database: uniprot_fasta_header::Database::SwissProt,
    identifier: "P18355".to_string(),
    entry_name: "YPFU_ECOLI".to_string(),
    protein_name: "Uncharacterized protein in traD-traI intergenic region".to_string(),
    organism_name: "Escherichia coli (strain K12)".to_string(),
    organism_identifier: "83333".to_string(),
    gene_name: None,
    protein_existence: uniprot_fasta_header::ProteinExistence::InferredHomology,
    sequence_version: "1".to_string(),
};

assert_eq!(parsed, expected);

UniProtKB isoform

use uniprot_fasta_header::{UniProtKBIsoform, UniprotFasta};

let header = ">sp|Q4R572-2|1433B_MACFA Isoform Short of 14-3-3 protein beta/alpha OS=Macaca fascicularis OX=9541 GN=YWHAB".as_bytes();

let (_, parsed) = UniProtKBIsoform::parse(header).unwrap();

let expected = UniProtKBIsoform {
    database: uniprot_fasta_header::Database::SwissProt,
    identifier: "Q4R572".to_string(),
    isoform: "2".to_string(),
    entry_name: "1433B_MACFA".to_string(),
    protein_name: "Isoform Short of 14-3-3 protein beta/alpha".to_string(),
    organism_name: "Macaca fascicularis".to_string(),
    organism_identifier: "9541".to_string(),
    gene_name: Some("YWHAB".to_string()),
};

Ideas & bugs

Please report new bugs and weird Fasta headers by creating a new issue on the project repository.

License

Uniprot-fasta-header is distributed under the terms of the Apache License (Version 2.0). See LICENSE for details.