Proteinko

README на српском

Proteinko is package that enables you to represent a protein sequence (that is its physicochemical properties) as spatial signals.

Protein is a sequence of amino acid residues, each of which has characteristic physical and chemical properties. Local properties of a protein are reflection of local cumulative effect of amino acid residues that make up said protein. By modeling physico-chemical properties for each amino acid residue as a normal distribution spanning the neighbouring amino acid residues, we obtain a continuous signal which represents a spatial distribution of specific physicochemical property of a protein.

This way we can represent a protein sequence as a distribution of following properties:

• hydropathy
• donor atoms
• acceptor atoms
• isoelectric point
• molecular volume

Proteinko also allows for usage of custom amino acid residue scales.

Manuscript ready for publishing.

Example

Installation

pip install proteinko

Usage

from proteinko import ProteinSignal

sequence = <your_protein_sequence>
protein = ProteinSignal()
signal = protein.get_signal(sequence, 'hydropathy')

## ...Now play with the signal however you like

Contact and portfolio

• My Linkedin profile.
• MHCLovac - in this repository protein signals are usded to predict MHC binding.