Dynamics and Control of the Central Carbon Metabolism in Hepatoma Cells

Maier, Klaus; Hofmann, Ute; Reuss, Matthias; Mauch, Klaus

doi:10.1186/1752-0509-4-54

BMC Systems Biology

Table 1 Reaction stoichiometry of the dynamic network model.

From: Dynamics and Control of the Central Carbon Metabolism in Hepatoma Cells

		Stoichiometry
Reaction number	Reaction name	Substrates	Products
r1	glucokinase	GLC_in + ATP_in	G6P_in + ADP_in + H_nb
r2	glucose-6-phosphate isomerase	G6P_in	F6P_in
r3	phosphofructokinase	F6P_in + ATP_in	F16P_in + ADP_in + H_nb
r4	fructose-bisphosphate aldolase	F16P_in	DHAP_in + GAP_in
r5	triose-phosphate isomerase	DHAP_in	GAP_in
r6	glyceraldehyde-3-phosphate dehydrogenase	GAP_in + P_nb + NAD_in	13PG_in + NADH_in + H_nb
r7	phosphoglycerate kinase	13PG_in + ADP_in + H_nb	G3P_in + ATP_in
r8	phosphoglycerate mutase	G3P_in	G2P_in
r9	pyruvate kinase	PEP_in + ADP_in + H_nb	PYR_in + ATP_in
r10	glucose-6-phosphate dehydrogenase	G6P_in + NADP_in	GL6P_in + NADPH_in + H_nb
r11	6-phosphogluconolactonase	GL6P_in + H2O_nb	6GP_in + H_nb
r12	phosphogluconate dehydrogenase	6GP_in + NADP_in	RIBU5P_in + CO2_nb + NADPH_in
r13	ribose-5-phosphate isomerase	RIBU5P_in	RIBO5P_in
r14	ribulose-phosphate 3-epimerase	RIBU5P_in	XYL5P_in
r15	transketolase	RIBO5P_in + XYL5P_in	GAP_in + S7P_in
r16	transketolase	XYL5P_in + E4P_in	GAP_in + F6P_in
r17	phosphopyruvate hydratase	G2P_in	PEP_in + H2O_nb + H_nb
r18	lactate dehydrogenase	PYR_in + NADH_in + H_nb	LAC_in + NAD_in
r19	adenosinetriphosphatase	ATP_in + H2O_nb	ADP_in + P_nb + H_nb
r20	alanine transaminase	ALA_in + AKG_in	PYR_in + GLU_in
r21	phosphoglucomutase	G6P_in	G1P_in
r22	nadph consumption	NADPH_in + A_nb	NADP_in + AH_nb
r23	glycogen synthesis	UTP_nb + G1P_in	UDP_nb + GLYG_nb + H_nb + PP_nb
r24	transaldolase	S7P_in + GAP_in	F6P_in + E4P_in
r25	adenylate kinase	ATP_in + AMP_in	2·ADP_in
r26	glycerol synthesis	DHAP_in	GLYCEROL_nb
r27	nucleotide synthesis	RIBO5P_in + ATP_in	PRPP_in + AMP_in + H_nb
r28	serine synthesis	G3P_in + NAD_in + GLU_in + H2O_nb	SER_in + P_nb + NADH_in + 2·H_nb + AKG_in
r29	citrate synthase	OAC_in + ACCOA_in + H2O_nb	CIT_in + COA_in + H_nb
r30	aconitate hydratase	CIT_in	CISAC_in + H2O_nb
r31	aconitate hydratase	CISAC_in + H2O_nb	ISOCIT_in
r32	isocitrate dehydrogenase	ISOCIT_in + NAD_in	AKG_in + CO2_nb + NADH_in
r33	succinate-CoA ligase	SUCCOA_in + P_nb + ADP_in	SUC_in + COA_nb + ATP_in
r34	fumarate hydratase	FUM_in + H2O_nb	MAL_in
r35	malate dehydrogenase	MAL_in + NAD_in	OAC_in + NADH_in + H_nb
r36	pyruvate dehydrogenase complex	PYR_in + NAD_in + COA_nb	CO2_nb + NADH_in + ACCOA_in
r37	alpha-ketoglutarate dehydrogenase complex	AKG_in + NAD_in + COA_nb	SUCCOA_in + CO2_nb + NADH_in
r38	pyruvate synthesis	PYR_nb	PYR_in
r39	valine leucine isoleucine metabolism	ISOVALMET_nb	SUCCOA_in
r40	succinate dehydrogenase	SUC_in + 0.6·NAD_in +0.2·O2_nb	FUM_in + 0.6·NADH_in + 0.6·H_nb + 0.4·H2O_in
r41	oxidative phosphorylation	NADH_in + 0.5·O2_nb + 3.5·H_nb + 2.5·ADP_in + 2.5·P_nb	NAD_in + 3.5·H2O_nb + 2.5·ATP_in
r42	alpha-ketoglutarate synthesis	AKG_nb	AKG_in
r43	malic enzyme	MAL_in + NADP_in	PYR_in + CO2_nb + NADPH_in
r44	glutamate dehydrogenase	GLU_in + H2O_nb + NAD_in	AKG_in + NH4_nb + NADH_in + H_nb
r45	lactate transport	LAC_in	LAC_ex
r46	pyruvate transport	PYR_in	PYR_ex
r47	glucose transport	GLC_in	GLC_ex
r48	alanine transport	ALA_ex	ALA_in
r49	serine transport	SER_in	SER_in

The subscripts 'ex', 'in', and 'nb' denote extracellular, intracellular, and non-balanced metabolites, respectively.
The Phosphoenolpyruvate carboxykinase enzyme was found to be inactive in the reference state [7], and, thus, it was not included in the dynamic network model.

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ISSN: 1752-0509

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