Skip to main content

Table 1 List of C1 reactions predicted by EMMA and their parallel reactions in E. coli iML1515

From: Towards creating an extended metabolic model (EMM) for E. coli using enzyme promiscuity prediction and metabolomics data

 

EC number (gene)

Reaction

Predicted

iML1515

2.4.2.10 (b3642)

3.2.2.10 (b2795)

Cytosine + 5-phospho-α-d-ribose-1-diphosphate ⇋ CMP + diphosphate

Cytosine + d-ribose-5-phosphate ⇋ CMP + H2O

Predicted

iML1515

1.1.1.79 (b1033)

1.1.1.95 (b2913)

2-Oxoglutarate + NADPH + H+ ⇋ 2-hydroxyglutarate + NADP+

2-Oxoglutarate + NADH + H+ ⇋ 2-hydroxyglutarate + NAD+

Predicted

KEGG

3.6.1.7 (b0968)

6.3.5.5 (b0032 or b0033)

Bicarbonate + orthophosphate ⇋ carboxyphosphate + H2O

Bicarbonate + ATP ⇋ carboxyphosphate + ADP

Predicted

iML1515

2.8.3.10 (b0615)

2.8.3.8 (b2221 and b2222 or b1694) or 2.8.3.9 (b2221 and b2222)

Acetoacetyl-CoA + citrate ⇋ acetoacetate + (3S)-citryl-CoA

Acetoacetyl-CoA + acetate ⇋ acetoacetate + acetyl-CoA

  1. Each of the predicted/iML1515 reaction pair occurs between the same substrate and product but utilize different co-substrate or cofactors