The avian cell line AGE1.CR.pIX characterized by metabolic flux analysis

Lohr, Verena; Hädicke, Oliver; Genzel, Yvonne; Jordan, Ingo; Büntemeyer, Heino; Klamt, Steffen; Reichl, Udo

doi:10.1186/1472-6750-14-72

BMC Biotechnology

Table 2 Reactions included in the metabolic network model of CR.pIX cells

From: The avian cell line AGE1.CR.pIX characterized by metabolic flux analysis

Uptake rates
r1, Glc	Glc → Glc_cyt
r2, Pyr	Pyr + 0.33 ATP_cyt → Pyr_cyt
r3, O2	O₂ → O_2,cyt
r4, Gln	Gln + 0.33 ATP_cyt → Gln_cyt
r5, Glu	Glu + ATP_cyt → Glu_cyt
r6, Ala	Ala + 0.33 ATP_cyt → Ala_cyt
r7, Asp	Asp + ATP_cyt → Asp_cyt
r8, Arg	Arg + 0.33 ATP_cyt → Arg_cyt
r9, Asn	Asn + 0.33 ATP_cyt → Asn_cyt
r10, Cys	Cys + 0.33 ATP_cyt → Cys_cyt
r11, Gly	Gly + 0.33 ATP_cyt → Gly_cyt
r12, His	His + 0.33 ATP_cyt → His_cyt
r13, Ile	Ile + 0.33 ATP_cyt → Ile_cyt
r14, Leu	Leu + 0.33 ATP_cyt → Leu_cyt
r15, Lys	Lys + 0.33 ATP_cyt → Lys_cyt
r16, Val	Val + 0.33 ATP_cyt → Val_cyt
r17, Met	Met + 0.33 ATP_cyt → Met_cyt
r18, Phe	Phe + 0.33 ATP_cyt → Phe_cyt
r19, Pro	Pro + 0.33 ATP_cyt → Pro_cyt
r20, Ser	Ser + 0.33 ATP_cyt → Ser_cyt
r21, Thr	Thr + 0.33 ATP_cyt → Thr_cyt
r22, Trp	Trp + 0.33 ATP_cyt → Trp_cyt
r23, Tyr	Tyr + 0.33 ATP_cyt → Tyr_cyt
Glycolysis
r24, G6P	Glc_cyt + ATP_cyt → G6P_cyt
r25, F6P	G6P_cyt ↔ F6P_cyt
r26, FBP	F6P_cyt + ATP_cyt ↔ FBP_cyt
r27, DHAP	FBP_cyt ↔ GAP_cyt + DHAP_cyt
r28, GAP	DHAP_cyt ↔ GAP_cyt
r29, PG	GAP_cyt ↔ NADH_cyt + ATP_cyt + PG_cyt
r30, PEP	PG_cyt↔ PEP_cyt
r31, PEP_Pyr	PEP_cyt → Pyr_cyt + ATP_cyt
r32, Pyr_Lac	Pyr_cyt + NADH_cyt ↔ Lac_cyt
r33, PDH	Pyr_mit + CoA_mit → AcCoA_mit + CO_2,mit + NADH_mit
Pentose phosphate pathway
r34, R5P	G6P_cyt → R5P_cyt + CO_2,cyt + 2 NADPH_cyt
TCA cycle
r35, OAA	Mal_cyt ↔ OAA_cyt + NADH_cyt
r36, Cit	AcCoA_cyt + OAA_cyt → Cit_cyt + CoA_cyt
r37, Fum_Mal	Fum_cyt ↔ Mal_cyt
r38, Cit_mito	AcCoA_mit + OAA_mit → Cit_mit + CoA_mit
r39, OAA_mito	Mal_mit ↔ OAA_mit + NADH_mit
r40, Fum_Mal_mito	Fum_mit ↔ Mal_mit
r41, SCoA_mito	aKG_mit + CoA_mit → SuccCoA_mit + CO_2,mit + NADH_mit
r42, Fum_mito	SuccCoA_mit ↔ Fum_mit + CoA_mit + ATP_mit + FADH_2,mit
r43, aKG_mito	Cit_mit ↔ aKG_mit + CO_2,mit + NADH_mit
Anaplerosis
r44, Ana_PyrI	Mal_cyt → Pyr_cyt + CO_2,cyt + NADPH_cyt
r45, Ana_PyrII	Mal_mit ↔ Pyr_mit + CO_2,mit + NADPH_mit
r46, PC	Pyr_mit + CO_2,mit + ATP_mit → OAA_mit
Amino acid catabolism
r47, GDH	Glu_mit ↔ aKG_mit + Amm_mit + NADPH_mit
r48, GS	Gln_cyt ↔ Glu_cyt + Amm_cyt + ATP_cyt
r49, Ala_cat	Ala_cyt + aKG_cyt ↔ Pyr_cyt + Glu_cyt
r50, Asn_Asp	Asn_cyt ↔ Asp_cyt + Amm_cyt
r51, His_cat	His_cyt → Glu_cyt + 2 Amm_cyt + CO_2,cyt
r52, Ile_cat	Ile_cyt + aKG_cyt + 2 CoA_mit + ATP_mit → SuccCoA_mit + AcCoA_mit + Glu_cyt + NADH_mit + FADH_2,mit
r53, Leu_cat	Leu_cyt + aKG_cyt + 3 CoA_mit + 2 ATP_mit → 3 AcCoA_mit + Glu_cyt + NADH_mit + FADH_2,mit
r54, Lys_cat	Lys_cyt + 2 aKG_cyt + 2 CoA_mit + NADPH_cyt → 2 AcCoA_mit + 2 Glu_cyt + 2 CO_2,mit + 2 NADH_cyt + 2 NADH_mit + FADH_2,mit
r55, Met_cat	Met_cyt + Ser_cyt + CoA_mit + 3 ATP_cyt + ATP_mit → Cys_cyt + SuccCoA_mit + Amm_cyt + NADH_mit + CO_2,cyt
r56, Phe_cat	Phe_cyt + O_2,cyt + NADPH_cyt → Tyr_cyt
r57, Pro_cat	Pro_cyt ↔ Glu_cyt + 2 NADH_cyt
r58, Thr_cat	Thr_cyt → Pyr_mit + Amm_mit + CO_2,mit + NADH_cyt + NADH_mit + FADH_2,mit
r59, Trp_cat	Trp_cyt + 2 CoA_mit + 3 O_2,cyt + NADPH_cyt → Ala_cyt + 2 AcCoA_mit + Amm_cyt + 2 CO_2,mit + 2 CO_2,cyt + NADH_cyt + 2 NADH_mit + FADH_2,mit
r60, Val_cat	Val_cyt + aKG_cyt + CoA_mit + ATP_mit → SuccCoA_mit + Glu_cyt + CO_2,cyt + 3 NADH_mit + FADH_2,mit
r61, Tyr_cat	Tyr_cyt + aKG_cyt + 2 CoA_cyt + 2 O_2,cyt → Fum_cyt + 2 AcCoA_cyt + Glu_cyt + CO_2,cyt
r62, Ser_cat	Ser_cyt ↔ Pyr_cyt + Amm_cyt
r63, Cys_cat	Cys_cyt + aKG_cyt + O_2,cyt → Pyr_cyt + Glu_cyt
r64, Asp_cat	Asp_cyt + aKG_mit ↔ Glu_cyt + OAA_mit
r65, Arg_cat	Arg_cyt + aKG_cyt → 2 Glu_cyt + Urea_cyt + NADH_cyt
MTHF & uric acid synthesis
r66, MTHF_I	Ser_cyt + THF_cyt → Gly_cyt + MTHF_cyt
r67, MTHF_II	Gly_cyt + THF_cyt → NADH_cyt + CO_2,cyt + Amm_cyt + MTHF_cyt
r68, UricAcid	Asp_cyt + 2 Gln_cyt + Gly_cyt + 2 MTHF_cyt + 7 ATP_cyt + CO_2,cyt → UricAcid_cyt + Fum_cyt + 2 Glu_cyt + 2 THF_cyt
Lipid synthesis
r69, CH_Lip	18 AcCoA_cyt + 18 ATP_cyt + 11 O_2,cyt + 27 NADPH_cyt → CH + 18 CoA_cyt + 9 CO_2,cyt
r70, PC_Lip	GAP_cyt + Ser_cyt + 27.6 ATP_cyt + 17.6 AcCoA_cyt + 4 MTHF_cyt + 2 NADH_cyt + 31.2 NADPH_cyt → PC + 17.6 CoA_cyt + 4 THF_cyt
r71, PE_Lip	GAP_cyt + Ser_cyt + 18.6 ATP_cyt + 17.6 AcCoA_cyt + MTHF_cyt + 2 NADH_cyt + 31.2 NADPH_cyt → PE + 17.6 CoA_cyt + THF_cyt
r72, PS_Lip	GAP_cyt + Ser_cyt + 18.6 ATP_cyt + 17.6 AcCoA_cyt + 2 MTHF_cyt + 2 NADH_cyt + 31.2 NADPH_cyt → PS + 17.6 CoA_cyt + 2 THF_cyt
r73, PGL_Lip	2 GAP_cyt + 17.6 ATP_cyt + 17.6 AcCoA_cyt + 4 NADH_cyt + 31.2 NADPH_cyt → PGL + 17.6 CoA_cyt
r74, PI_Lip	GAP_cyt + G6P_cyt + 17.6 ATP_cyt + 17.6 AcCoA_cyt + 2 NADH_cyt + 31.2 NADPH_cyt → PI + 17.6 CoA_cyt
r75, SM_Lip	2 Ser_cyt + 27.8 ATP_cyt + 16.8 AcCoA_cyt + 3 MTHF_cyt + 2 NADH_cyt + 29.6 NADPH_cyt → SM + 16.8 CoA_cyt + 3 THF_cyt
r76, DPG_Lip	3 GAP_cyt + 35.2 ATP_cyt + 35.2 AcCoA_cyt + 6 NADH_cyt + 62.4 NADPH_cyt → DPG + 35.2 CoA_cyt
Release rates
r77, ATP_main	ATP_cyt → maintenance
r78, Lac_out	Lac_cyt → Lac
r79, Ala_out	Ala_cyt → Ala
r80, UricAcid_out	Uric acid_cyt → Uric acid
r81, Urea_out	Urea_cyt → Urea
r82, Amm_out	Amm_cyt → Amm
r83, CO_{2 out}	CO_2,cyt → CO₂
r84, Pyr_out	Pyr_cyt → Pyr
Transport reactions, oxidative phosphorylation
r85, NADH_cyt,trans	NADH_cyt ↔ NADH_mit
r86, ATP_trans	ATP_cyt ↔ ATP_mitt
r87, CO_{2 trans}	CO_2,cyt ↔ CO_2,mit
r88, MAL_trans	Mal_cyt + Cit_mit ↔ Mal_mit + Cit_cyt
r89, Glu_trans	Glu_cyt ↔ Glu_mit
r90, Pyr_trans	Pyr_cyt ↔ Pyr_mit
r91, aKG_trans	aKG_cyt ↔ aKG_mit
r92, Amm_trans	Amm_cyt ↔ Amm_mit
r93, FADH_ox	O_2,cyt + 2 FADH_2,mit → 3 ATP_mit
r94, NADH_mit,trans	NADH_mit ↔ NADPH_mit
r95, NADH_ox	O_2,cyt + 2 NADH_mit → 5 ATP_mit
r96, NADH_cyt,trans	NADH_cyt ↔ NADPH_cyt
Synthesis of macromolecules and biomass
r97, μ	0.552 proteins + 0.263 carbohydrates + 0.131 lipids + 0.023 DNA + 0.031 RNA → biomass
Proteins [1 g] = 955.79 Asp_cyt + 1344.29 Ala_cyt + 543.16 Gln_cyt + + 817.99 Glu_cyt + 1024.72 Arg_cyt + 362.10 Asn_cyt + 19.61 Cys_cyt + 913.16 Gly_cyt + 271.58 His_cyt + 240.54 Ile_cyt + 588.41 Leu_cyt + 724.21 Lys_cyt + 191.97 Val_cyt + 114.57 Met_cyt + 201.91 Phe_cyt + 205.97 Pro_cyt + 247.44 Ser_cyt + 202.07 Thr_cyt + 21.17 Trp_cyt + 61.87 Tyr_cyt + 24046.3 ATP_cyt
Lipids [1 g] = 181 CH + 661.4 PC + 250.3 PE + 90.9 PI + 24.9 PS + 12.6 PGL + 81.4 SM + 26.8 DPG
DNA [1 g] = 3009 R5P_cyt + 3912 Asp_cyt + 5717 Gln_cyt + -2106 NADH_cyt + 1505 Gly_cyt + 22569 ATP_cyt + 903 NADH_mit + -2407 Mal_cyt + 903 NADPH_cyt + -5717 Glu_cyt + 5417 MTHF_cyt + -5417 THF_cyt
RNA [1 g] = 3020 R5P_cyt + 3606 Asp_cyt + 6316 Gln_cyt + 293 O_2,cyt + -2435 NADH_cyt + 1477 Gly_cyt + 22614 ATP_cyt + 586 NADH_mit + -2069 Mal_cyt + -2954 NADPH_cyt + -6316 Glu_cyt + 4431 MTHF_cyt + -4431 THF_cyt
Carbohydrates [1 g] = 6172.8 G6P_cyt + 21605 ATP_cyt

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