WormFlux: mechanistic analysis of C. elegans metabolism

Reaction Overview

Model ID .....................................................

RCC0200

Name .....................................................

Ascarylose synthesis

One of the following categories:

Regular:	Regular enzymatic reactions that do not fit in any special categories below
Biomass:	Reactions that represent the assembly of the worm biomass
Degradation:	Reactions that represent the degradation of the bacterial diet
Demand:	Reactions that consume products in the compartment that they are produced
Sink:	Reactions that can not only consume but also provide a metabolite in a particular compartment (e.g., storage reactions)
Transport:	Reactions that transport material between different compartments
Exchange:	Reactions that exchange metabolites with the environment

.....................................................

Regular

KEGG ID (?) Reactions in KEGG database that match this reaction.

Multiple IDs typically indicate that the model reaction is a merged reaction. .....................................................

R00956, R02426, R03392, R08708, R08709

Is in PRIME model (?) Indicates whether the reaction is part of the PRIME model, which is the basis (minimum model) for proper biomass/energy generation and compartmentalization. .....................................................

Reversibility .....................................................

Irreversible

Localization .....................................................

Cytosol

Other annotation .....................................................

See tabular representation below.

iCEL1314

Comments

Merged pathway based on that in Yesina.app. The biosynthesis of ascarylose in C. elegans is yet unknown.

See also note #37.

► | Localization scores (click to view)▼ | Localization scores (click to hide)

Not available

► | Reversibility scores (click to view)▼ | Reversibility scores (click to hide)

Score tables (?) Reaction directionality scores for the KEGG reaction(s) that are associated with this model reaction. Different sources are used and evidence is culminated for each direction with respect to the KEGG reaction (click reaction IDs to reach relevant KEGG pages).

R00956

Source	Forward	Backward	Reversible
MetaCyc (?) Score of 1 represents the direction of the reaction as indicated in MetaCyc.	0	0	1
SEED (?) Score of 1 represents the direction of the reaction as indicated in the SEED database.	0	0	1
BiGG (?) Score represents 0.5 times the number of models with the indicated direction for this reaction in the BiGG database.	Not available	Not available	Not available
BRENDA (?) Score represents the proportion of reactions with the indicated direction reported in the BRENDA database for the enzymes associated with this reaction. Only reactions with a reported direction were used in the calculation.	0.00	0.00	1.00
Total (?) If no direction has >0.5 points, reaction is considered reversible. If the score of one direction with the highest score is more than 25% larger than the next highest score, the direction with the highest score is taken. Else, reaction is considered reversible. Exceptions (i.e., cases when these rules are overridden by other criteria) are idicated in general comments to the reaction.	0.00	0.00	3.00

R03392

Source	Forward	Backward	Reversible
MetaCyc (?) Score of 1 represents the direction of the reaction as indicated in MetaCyc.	0	1	0
SEED (?) Score of 1 represents the direction of the reaction as indicated in the SEED database.	0	1	0
BiGG (?) Score represents 0.5 times the number of models with the indicated direction for this reaction in the BiGG database.	Not available	Not available	Not available
BRENDA (?) Score represents the proportion of reactions with the indicated direction reported in the BRENDA database for the enzymes associated with this reaction. Only reactions with a reported direction were used in the calculation.	Not available	Not available	Not available
Total (?) If no direction has >0.5 points, reaction is considered reversible. If the score of one direction with the highest score is more than 25% larger than the next highest score, the direction with the highest score is taken. Else, reaction is considered reversible. Exceptions (i.e., cases when these rules are overridden by other criteria) are idicated in general comments to the reaction.	0.00	2.00	0.00

R02426

Source	Forward	Backward	Reversible
MetaCyc (?) Score of 1 represents the direction of the reaction as indicated in MetaCyc.	1	0	0
SEED (?) Score of 1 represents the direction of the reaction as indicated in the SEED database.	1	0	0
BiGG (?) Score represents 0.5 times the number of models with the indicated direction for this reaction in the BiGG database.	Not available	Not available	Not available
BRENDA (?) Score represents the proportion of reactions with the indicated direction reported in the BRENDA database for the enzymes associated with this reaction. Only reactions with a reported direction were used in the calculation.	1.00	0.00	0.00
Total (?) If no direction has >0.5 points, reaction is considered reversible. If the score of one direction with the highest score is more than 25% larger than the next highest score, the direction with the highest score is taken. Else, reaction is considered reversible. Exceptions (i.e., cases when these rules are overridden by other criteria) are idicated in general comments to the reaction.	3.00	0.00	0.00

R08709

Source	Forward	Backward	Reversible
MetaCyc (?) Score of 1 represents the direction of the reaction as indicated in MetaCyc.	Not available	Not available	Not available
SEED (?) Score of 1 represents the direction of the reaction as indicated in the SEED database.	Not available	Not available	Not available
BiGG (?) Score represents 0.5 times the number of models with the indicated direction for this reaction in the BiGG database.	Not available	Not available	Not available
BRENDA (?) Score represents the proportion of reactions with the indicated direction reported in the BRENDA database for the enzymes associated with this reaction. Only reactions with a reported direction were used in the calculation.	Not available	Not available	Not available
Total (?) If no direction has >0.5 points, reaction is considered reversible. If the score of one direction with the highest score is more than 25% larger than the next highest score, the direction with the highest score is taken. Else, reaction is considered reversible. Exceptions (i.e., cases when these rules are overridden by other criteria) are idicated in general comments to the reaction.	0.00	0.00	0.00

R08708

Source	Forward	Backward	Reversible
MetaCyc (?) Score of 1 represents the direction of the reaction as indicated in MetaCyc.	1	0	0
SEED (?) Score of 1 represents the direction of the reaction as indicated in the SEED database.	Not available	Not available	Not available
BiGG (?) Score represents 0.5 times the number of models with the indicated direction for this reaction in the BiGG database.	Not available	Not available	Not available
BRENDA (?) Score represents the proportion of reactions with the indicated direction reported in the BRENDA database for the enzymes associated with this reaction. Only reactions with a reported direction were used in the calculation.	Not available	Not available	Not available
Total (?) If no direction has >0.5 points, reaction is considered reversible. If the score of one direction with the highest score is more than 25% larger than the next highest score, the direction with the highest score is taken. Else, reaction is considered reversible. Exceptions (i.e., cases when these rules are overridden by other criteria) are idicated in general comments to the reaction.	1.00	0.00	0.00