Ontology

class pyenzyme.enzymeml.core.ontology.DataTypes(value)

Bases: str, enum.Enum

String enumeration used to assign replicate type ontologies

ABSORPTION = 'abs'

BIOMASS = 'biomass'

CONCENTRATION = 'conc'

FEED = 'feed'

class pyenzyme.enzymeml.core.ontology.EnzymeMLPart(value)

Bases: str, enum.Enum

Mapping to identify where entities are stored in the EnzymeML model.

DIMER = 'complex_dict'

ION = 'reactant_dict'

MACROMOLECULAR_COMPLEX = 'complex_dict'

PROTEIN = 'protein_dict'

PROTEIN_COMPLEX = 'complex_dict'

RADICAL = 'reactant_dict'

SMALL_MOLECULE = 'reactant_dict'

classmethod entityFromSBOTerm(sbo_term: str) → str

classmethod partFromSBOTerm(sbo_term: str) → str

class pyenzyme.enzymeml.core.ontology.SBOTerm(value)

Bases: str, enum.Enum

String enumeration used to assign ontologies derived from SBOTerms.

ACID_BASE_REACTION = 'SBO:0000208'

BIOCHEMICAL_REACTION = 'SBO:0000176'

CATALYST = 'SBO:0000013'

CONFORMATIONAL_TRANSITION = 'SBO:0000181'

CONVERSION = 'SBO:0000182'

DEGRADATION = 'SBO:0000179'

DIMER = 'SBO:0000607'

DISSOCIATION = 'SBO:0000180'

ESSENTIAL_ACTIVATOR = 'SBO:0000461'

GENE = 'SBO:0000251'

INHIBITOR = 'SBO:0000020'

INTERACTOR = 'SBO:0000336'

ION = 'SBO:0000327'

IONISATION = 'SBO:0000209'

ISOMERISATION = 'SBO:0000377'

K_CAT = 'SBO:0000025'

K_M = 'SBO:0000027'

MACROMOLECULAR_COMPLEX = 'SBO:0000296'

MICHAELIS_MENTEN = 'SBO:0000028'

NON_COVALENT_BINDING = 'SBO:0000177'

NON_ESSENTIAL_ACTIVATOR = 'SBO:0000462'

POTENTIATOR = 'SBO:0000021'

PRODUCT = 'SBO:0000011'

PROTEIN = 'SBO:0000252'

PROTEIN_COMPLEX = 'SBO:0000297'

RADICAL = 'SBO:0000328'

REDOX_REACTION = 'SBO:0000200'

SMALL_MOLECULE = 'SBO:0000247'

SPONTANEOUS_REACTION = 'SBO:0000672'

SUBSTRATE = 'SBO:0000015'

V_MAX = 'SBO:0000186'