ecoli.processes.protein_degradation

Protein Degradation

This process accounts for the degradation of protein monomers. Specific proteins to be degraded are selected as a Poisson process.

class ecoli.processes.protein_degradation.ProteinDegradation(parameters=None)

Bases: PartitionedProcess

Protein Degradation PartitionedProcess

_proteinDegRates(timestep)

calculate_request(timestep, states)

defaults: Dict[str, Any]

{   'amino_acid_counts': [],
    'amino_acid_ids': [],
    'protein_ids': [],
    'protein_lengths': [],
    'raw_degradation_rate': [],
    'seed': 0,
    'time_step': 1,
    'water_id': 'h2o'}

evolve_state(timestep, states)

name = 'ecoli-protein-degradation'

ports_schema()

topology

{'bulk': ('bulk',), 'timestep': ('timestep',)}