Struct rustyms::Protease

pub struct Protease {
    pub n_term: Vec<Option<Vec<AminoAcid>>>,
    pub c_term: Vec<Option<Vec<AminoAcid>>>,
}

A protease defined by it ability to cut at any site identified by the right amino acids at the n and c terminal. Each position is identified by an option, a none means that there is no specificity at this position. If there is a specificity at a certain position any amino acid that is contained in the set is allowed (see AminoAcid::canonical_identical).

Fields

n_term: Vec<Option<Vec<AminoAcid>>>

The amino acids n terminal of the cut site.

c_term: Vec<Option<Vec<AminoAcid>>>

The amino acids c terminal of the cut site.

Implementations

impl Protease

pub fn new(n_term: &[AminoAcid], c_term: &[AminoAcid]) -> Self

Define a simple protease that cuts exactly between the specified sequences.

pub fn n_terminal_of(residues: &[AminoAcid]) -> Self

Define a protease that cuts on the n terminal side of the provided amino acids.

pub fn c_terminal_of(residues: &[AminoAcid]) -> Self

Define a protease that cuts on the c terminal side of the provided amino acids.

pub fn match_locations(&self, sequence: &[SequenceElement]) -> Vec<usize>

All locations in the given sequence where this protease could cut