Research Article
Elementary Mode Analysis for the Rational Design of Efficient Succinate Conversion from Glycerol by Escherichia coli
Table 1
Reactions and enzymes involved in Figure
1.
| Reactions | Genes | Enzymes | Aerobic/anaerobic specificity | References |
| R1 | glpF | glycerol facilitator | | [1] | R2 | gldA | Glycerol dehydrogenase II | anaerobic | [2] | R3 | dhaKLM | PTS-dependent Dihydroxyacetone kinase | anaerobic | [2] | R4 | glpK | glycerol kinase | aerobic | [1] | R5 | glpD | Glycerol-3-phosphate dehydrogenase | aerobic | [1] | R6 | | sets of reactions | anaerobic | [2] | R7 | dhaK | ATP-dependent Dihydroxyacetone kinase | | [2] | R10 | tpi12 | Triose-phosphate isomerase | | KEGG | R11 | fba | Fructose-bisphosphate aldolase | | KEGG | R13 | fbp | Fructose-bisphosphatase | | KEGG | R14 | gpi | Glucose-6-phosphate isomerase | | KEGG | R15 | | sets of reactions | | KEGG | R16 | | sets of reactions | | KEGG | R17 | pykAF | Pyruvate kinase | | KEGG | R20 | pdh | Pyruvate dehydrogenase | aerobic | [3] | R21 | pfl | Pyruvate formate-lyase | anaerobic | [4] | R22 | gltA | Citrate synthase | | KEGG | R23 | acnB | Aconitate hydratase | | KEGG | R24 | icd | Isocitrate dehydrogenase | | KEGG | R25 | sucAB | Oxoglutarate dehydrogenase | aerobic | [5] | R26 | sucCD | Succinate-CoA ligase | aerobic | [5] | R27 | sdhABCD | Succinate dehydrogenase | | KEGG | R28 | fumABC | Fumarate hydratase | | KEGG | R29 | mdh | Malate dehydrogenase | | KEGG | R30 | | sets of reactions | | KEGG | R31 | rpe | Ribulose-phosphate 3-epimerase | | KEGG | R32 | rpiA | Ribose-5-phosphate isomerase | | KEGG | R33 | tkt | Transketolase | | KEGG | R34 | tkt | Transaldolase | | KEGG | R35 | tkt | Transketolase | | KEGG | R40 | ppc | PEP carboxylase | | KEGG | R41 | pck | PEP carboxykinase | | KEGG | R42 | malE | malic enzyme | | KEGG | R43 | aceA | Isocitrate lyase | | KEGG | R44 | aceB | Malate synthase | | KEGG | R50 | adhE | Aldehyde dehydrogenase | | KEGG | R51 | ldhA | Lactate dehydrogenase | | KEGG | R52 | poxB | pyruvate oxidase | aerobic | [6] | R53 | pta,ackA | Phosphate acetyltransferase, Acetate kinase | | KEGG | R60 | | Biomass formation | | [7] | R70 | | ATP-hydrolysis | | [7] | R71 | | Transhydrogenase | | [7] | R72 | | respiratory chain 1 | aerobic | [7] | R80 | | Membrane transport reaction | | | R81 | | Membrane transport reaction | | | R82 | | Membrane transport reaction | | | R83 | | Membrane transport reaction | | | R84 | | Membrane transport reaction | | | R85 | | Membrane transport reaction | | |
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