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',)}