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