Model Mathematics

Component: environment

CO2_in=0.050.0425760-23.81 e -3 HCO3_in=30 e -3 pH_in=6.157+log10HCO3_inCO2_in MOPSt=0 pH_cy=pH_calc

Component: parameters

Vfgly=0.0037 fracA=1 e -2 KgpA_glyf=1.7 e -3 KgpA_pi=4 e -3 KgpA_igly=2 e -3 KgpA_ipi=4.7 e -3 KgpA_glyb=1.5 e -4 KgpA_g1p=2.7 e -3 KgpA_ig1p=1.01 e -2 KgpB_pi=2 e -4 KgpB_ipi=4.6 e -3 KgpB_iglyf=1.5 e -2 KgpB_g1p=1.5 e -3 KgpB_ig1p=7.4 e -3 KgpB_iglyb=4.4 e -3 Kgp_amp=6.46203 e -6 nH=1.6159 Vffpglm=0.0052 Kpglm_g1p=6.3 e -5 Kpglm_g6p=3 e -5 Vbbpgi=0.3833 Kpgi_g6p=4.8 e -4 Kpgi_f6p=1.19 e -4 Vffpfk=0.0037 Kpfk_f6p=1.8 e -4 Kpfk_f6pT=2 e -2 Kpfk_atp=8 e -5 Kpfk_atpT=2.5 e -4 Kpfk_fbp=4.02 e -3 Kpfk_fbpT=4.02 e -3 Kpfk_adp=2.7 e -3 Kpfk_adpT=2.7 e -3 Kpfki=8.7 e -410 Kmpfk=6 e -5 d=1 e -2 e_=1 e -2 Lo=13 Vffald=0.012 Kald_fbp=5 e -5 Kald_dhap=2 e -3 Kald_gap=1 e -3 Vfftpi=0.1406 Ktpi_gap=3.2 e -4 Ktpi_dhap=6.1 e -4 Vbbg3pdh=0.0557 Kg3pdh_g3p=1.8 e -4 Kg3pdh_nad=1.2 e -5 Kg3pdh_dhap=2.2 e -4 Kg3pdh_nadh=8 e -6 Vffgad=0.0765 Kgapdh_gap=2.5 e -6 Kgapdh_nad=9 e -5 Kgapdh_pi=2.9 e -4 Kgapdh_bpg=8 e -7 Kgapdh_nadh=3.3 e -6 Vbbpgk=0.0087 Kpgk_bpg=2 e -3 Kpgk_adp=8 e -6 Kpgk_3pg=1.2 e -3 Kpgk_atp=3.5 e -4 Vffpgm=0.0839 Kpgm_3pg=2 e -4 Kpgm_2pg=1.4 e -5 Vffen=0.7966 Ken_2pg=1 e -4 Ken_pep=3.7 e -4 Vffpk=0.0408 Kpk_pep=8 e -5 Kpk_adp=3 e -4 Kpk_pyr=7.05 e -3 Kpk_atp=1.13 e -3 Vffldh=0.0956 Kldh_pyr=3.35 e -4 Kldh_nadh=2 e -6 Kldh_lac=1.7 e -2 Kldh_nad=8.49 e -4 VforCK=8.8215 Kck_pcr=1.11 e -3 Kck_iatp=3.5 e -3 Kck_iadp=1.35 e -4 Kck_ipcr=3.9 e -3 Kck_cr=3.8 e -3 Kck_Iadp=0.015 e -3 Kck_Ipcr=3.9 e -3 Kck_Icr=58 e -3 Kck_Iatp=4.346 e -3 Kck_Ii=1 e -3 Vfadk=2.0299 Kadk_amp=3.2 e -4 Kadk_atp=2.7 e -4 Kadk_adp=3.5 e -4 kut=0.124547251111437 VmaxOxPhos=0.0037844 Kmadp=0.0000419392 nnHH=2.217962 Vmax_MCT=0.0007114938 Klac1=4 e -3 pKmct1=8.89 PSVCO2=2.3084 X_CA=740 kf_hydrCO2=0.046960 Keq_CA=10-6.157 kb_hydrCO2=kf_hydrCO2Keq_CA Flow=4 e -3 V_cell=55 e -30.671 e -3 V_ec=0.149 e -3-55 e -31.061 e -3 bufcapfixed=0.0041388

Component: equilibrium_constants

T=298.15 I=0.17 k=0.14 c0=1 R=8.314 e -3 B=1.6 I1=0.1 alphadebye=1.17582 IcorrpKa=alphadebyeI11+BI1-I1+BIln10 RTalpha=2.91482 IcorrdeltaGpof=RTalphaI1+BI pKa1_Pi=6.75+IcorrpKa22+12-12 pKamg_Pi=1.65+IcorrpKa22+22-02 pKak_Pi=0.5 P_Pi=1+10-pH_cy+pKa1_Pi+mgc010pKamg_Pi+kc010pKak_Pi HPi2=1P_Pi H2Pi1=10-pH_cy+pKa1_PiHPi2 kPi=kc010pKak_PiHPi2 mgPi=mgc010pKamg_PiHPi2 Navg_Pi=H2Pi1 dNavgPidH=10pKa1_PiP_Pi1-H2Pi1c0P_Pi2 NH_HPi2=1 deltaGof_HPi2=-1096.1 deltaGpof_HPi2=deltaGof_HPi2+NH_HPi2ln10RTpH_cy-IcorrdeltaGpof4-NH_HPi2 pKa1_ATP=6.48+IcorrpKa42+12-32 pKamg_ATP=4.19+IcorrpKa42+22-22 pKak_ATP=1.17+IcorrpKa42+12-32 P_ATP=1+10-pH_cy+pKa1_ATP+mgc010pKamg_ATP+kc010pKak_ATP ATP4=1P_ATP HATP3=10-pH_cy+pKa1_ATPATP4 mgATP2=mgc010pKamg_ATPATP4 kATP=kc010pKak_ATPATP4 Navg_ATP=HATP3 dNavgATPdH=10pKa1_ATPP_ATP1-HATP3c0P_ATP2 NH_ATP4=12 deltaGof_ATP4=-2768.1 deltaGpof_ATP4=deltaGof_ATP4+NH_ATP4RTln10pH_cy-IcorrdeltaGpof16-NH_ATP4 pKak_ADP=1 pKa1_ADP=6.38+IcorrpKa32+12-22 pKamg_ADP=3.25+IcorrpKa32+22-12 P_ADP=1+10-pH_cy+pKa1_ADP+mgc010pKamg_ADP+kc010pKak_ADP ADP3=1P_ADP HADP2=10-pH_cy+pKa1_ADPADP3 mgADP=ADP3mgc010pKamg_ADP kADP=ADP3kc010pKak_ADP Navg_ADP=HADP2 dNavgADPdH=10pKa1_ADPP_ADP1-HADP2c0P_ADP2 NH_ADP3=12 deltaGof_ADP3=-1906.13 deltaGpof_ADP3=deltaGof_ADP3+NH_ADP3RTln10pH_cy-IcorrdeltaGpof9-NH_ADP3 pKa1_AMP=6.29+IcorrpKa22+12-12 pKamg_AMP=1.92+IcorrpKa22+22-02 P_AMP=1+10pKa1_AMP-pH_cy+mgc010pKamg_AMP AMP2=1P_AMP HAMP1=AMP210pKa1_AMP-pH_cy mgAMP=mgc010pKamg_AMPAMP2 Navg_AMP=HAMP1 dNavgAMPdH=10pKa1_AMPP_AMP-10-pH_cy+pKa1_AMPc0P_AMP2 NH_AMP2=12 deltaGof_AMP2=-1040.45 deltaGpof_AMP2=deltaGof_AMP2+NH_AMP2ln10RTpH_cy-IcorrdeltaGpof4-NH_AMP2 pKak_PCR=0.31 pKa1_PCR=4.5+IcorrpKa22+12-12 pKamg_PCR=1.6+IcorrpKa22+22-02 P_PCR=1+10-pH_cy+pKa1_PCR+mgc010pKamg_PCR+kc010pKak_PCR HPCR=1P_PCR H2PCR=10-pH_cy+pKa1_PCRHPCR kPCR=kc010pKak_PCRHPCR mgPCR=mgc010pKamg_PCRHPCR Navg_PCR=H2PCR dNavgPCRdH=10pKa1_PCRP_PCR-10-pH_cy+pKa1_PCRc0P_PCR2 NH_HPCR=8 pKa1_CR=2.3 P_CR=1+10-pH_cy+pKa1_CR HCR=1P_CR H2CR=HCR10-pH_cy+pKa1_CR Navg_CR=0HCR+1H2CR dNavgCRdH=10pKa1_CRP_CR-10-pH_cy+pKa1_CRc0P_CR2 NH_HCR=9 pKa1_G1P=6.09+IcorrpKa22+12-12 pKamg_G1P=2.48+IcorrpKa22+22-02 P_G1P=1+10-pH_cy10pKa1_G1P+mgc010pKamg_G1P UG1P=1P_G1P HG1P=UG1P10-pH_cy+pKa1_G1P mgG1P=UG1Pmgc010pKamg_G1P Navg_G1P=HG1P dNavgG1PdH=10pKa1_G1PP_G1P-10-pH_cy+pKa1_G1Pc0P_G1P2 NH_UG1P=11 deltaGof_UG1P=-1756.87 deltaGpof_UG1P=deltaGof_UG1P+NH_UG1Pln10RTpH_cy-IcorrdeltaGpof4-NH_UG1P pKa1_G6P=6.11+IcorrpKa22+12-12 P_G6P=1+10-pH_cy+pKa1_G6P UG6P=1P_G6P HG6P=UG6P10-pH_cy+pKa1_G6P Navg_G6P=HG6P dNavgG6PdH=10pKa1_G6PP_G6P-10-pH_cy+pKa1_G6Pc0P_G6P2 dNavgG6Pdmg=0 NH_UG6P=11 deltaGof_UG6P=-1763.94 deltaGpof_UG6P=deltaGof_UG6P+NH_UG6Pln10RTpH_cy-IcorrdeltaGpof4-NH_UG6P pKa1_F6P=5.89+IcorrpKa22+12-12 P_F6P=1+10-pH_cy+pKa1_F6P UF6P=1P_F6P HF6P=UF6P10-pH_cy+pKa1_F6P Navg_F6P=HF6P dNavgF6PdH=10pKa1_F6PP_F6P-10-pH_cy+pKa1_F6Pc0P_F6P2 NH_UF6P=11 deltaGof_UF6P=-1760.8 deltaGpof_UF6P=deltaGof_UF6P+NH_UF6Pln10RTpH_cy-IcorrdeltaGpof4-NH_UF6P pKa1_FDP=6.4 pKamg_FDP=2.7 P_FDP=1+10-pH_cy+pKa1_FDP+mgc010pKamg_FDP UFDP=1P_FDP HFDP=UFDP10-pH_cy+pKa1_FDP mgFDP=UFDPmgc010pKamg_FDP Navg_FDP=HFDP dNavgFDPdH=10pKa1_FDPP_FDP1-HFDPc0P_FDP2 NH_UFDP=10 deltaGof_UFDP=-2601.4 deltaGpof_UFDP=deltaGof_UFDP+NH_UFDPln10RTpH_cy-IcorrdeltaGpof16-NH_UFDP pKa1_GAP=6.45 P_GAP=1+10-pH_cy+pKa1_GAP UGAP=1P_GAP HGAP=UGAP10-pH_cy+pKa1_GAP Navg_GAP=HGAP dNavgGAPdH=10pKa1_GAPP_GAP-10-pH_cy+pKa1_GAPc0P_GAP2 dNavgGAPdmg=0 NH_UGAP=5 deltaGof_UGAP=-1288.6 deltaGpof_UGAP=deltaGof_UGAP+NH_UGAPln10RTpH_cy-IcorrdeltaGpof4-NH_UGAP pKamg_G3P=1.63 pKa1_G3P=6.22+IcorrpKa22+12-12 P_G3P=1+10-pH_cy+pKa1_G3P+mgc010pKamg_G3P UG3P=1P_G3P HG3P=UG3P10-pH_cy+pKa1_G3P mgG3P=UG3Pmgc010pKamg_G3P Navg_G3P=HG3P dNavgG3PdH=10pKa1_G3PP_G3P-10-pH_cy+pKa1_G3Pc0P_G3P2 NH_UG3P=7 deltaGof_UG3P=-1339.25 deltaGpof_UG3P=deltaGof_UG3P+NH_UG3Pln10RTpH_cy-IcorrdeltaGpof4-NH_UG3P pKa1_DHAP=5.9 pKamg_DHAP=1.57 P_DHAP=1+10-pH_cy+pKa1_DHAP+mgc010pKamg_DHAP UDHAP=1P_DHAP HDHAP=UDHAP10-pH_cy+pKa1_DHAP mgDHAP=UDHAPmgc010pKamg_DHAP Navg_DHAP=HDHAP dNavgDHAPdH=10pKa1_DHAPP_DHAP-10-pH_cy+pKa1_DHAPc0P_DHAP2 NH_UDHAP=5 deltaGof_UDHAP=-1296.26 deltaGpof_UDHAP=deltaGof_UDHAP+NH_UDHAPln10RTpH_cy-IcorrdeltaGpof4-NH_UDHAP pKa1_13DPG=7.5 P_13DPG=1+10-pH_cy+pKa1_13DPG U13DPG=1P_13DPG H13DPG=U13DPG10-pH_cy+pKa1_13DPG Navg_13DPG=H13DPG dNavg13DPGdH=10pKa1_13DPGP_13DPG-10-pH_cy+pKa1_13DPGc0P_13DPG2 NH_U13DPG=4 deltaGof_U13DPG=-2356.14 deltaGpof_U13DPG=deltaGof_U13DPG+NH_U13DPGln10RTpH_cy-IcorrdeltaGpof16-NH_U13DPG pKa1_3PG=6.21 P_3PG=1+10-pH_cy+6.21 U3PG=1P_3PG H3PG=U3PG10-pH_cy+6.21 Navg_3PG=H3PG dNavg3PGdH=10pKa1_3PGP_3PG-10-pH_cy+pKa1_3PGc0P_3PG2 NH_U3PG=4 deltaGof_U3PG=-1502.54 deltaGpof_U3PG=deltaGof_U3PG+NH_U3PGln10RTpH_cy-IcorrdeltaGpof9-NH_U3PG pKa1_2PG=7 pKamg_2PG=2.45 pKak_2PG=1.18 P_2PG=1+10-pH_cy+pKa1_2PG+mgc010pKamg_2PG+kc010pKak_2PG U2PG=1P_2PG H2PG=U2PG10-pH_cy+pKa1_2PG mg2PG=U2PGmgc010pKamg_2PG k2PG=U2PGkc010pKak_2PG Navg_2PG=H2PG dNavg2PGdH=10pKa1_2PGP_2PG-10-pH_cy+pKa1_2PGc0P_2PG2 NH_U2PG=4 deltaGof_U2PG=-1496.38 deltaGpof_U2PG=deltaGof_U2PG+NH_U2PGln10RTpH_cy-IcorrdeltaGpof9-NH_U2PG pKa1_PEP=6.35 pKamg_PEP=2.26 pKak_PEP=1.08 P_PEP=1+10pKa1_PEP-pH_cy+mgc010pKamg_PEP+kc010pKak_PEP UPEP=1P_PEP HPEP=UPEP10pKa1_PEP-pH_cy kPEP=UPEPkc010pKak_PEP mgPEP=UPEPmgc010pKamg_PEP Navg_PEP=HPEP dNavgPEPdH=10pKa1_PEPP_PEP-10-pH_cy+pKa1_PEPc0P_PEP2 NH_UPEP=2 deltaGof_UPEP=-1263.65 deltaGpof_UPEP=deltaGof_UPEP+NH_UPEPln10RTpH_cy-IcorrdeltaGpof9-NH_UPEP pKa1_PYR=2.49 P_PYR=1+10-pH_cy+pKa1_PYR UPYR=1P_PYR HPYR=UPYR10-pH_cy+pKa1_PYR Navg_PYR=HPYR dNavgPYRdH=10pKa1_PYRP_PYR-10-pH_cy+pKa1_PYRc0P_PYR2 dNavgPYRdmg=0 NH_UPYR=3 deltaGof_UPYR=-472.27 deltaGpof_UPYR=deltaGof_UPYR+NH_UPYRln10RTpH_cy-IcorrdeltaGpof1-NH_UPYR pKamg_LAC=0.98 pKa1_LAC=3.67+IcorrpKa12+12-02 P_LAC=1+10-pH_cy+pKa1_LAC+mgc010pKamg_LAC ULAC=1P_LAC HLAC=ULAC10-pH_cy+pKa1_LAC mgLAC=mgc010pKamg_LACULAC Navg_LAC=HLAC dNavgLACdH=10pKa1_LACP_LAC-10-pH_cy+pKa1_LACc0P_LAC2 dmgLACdmg=P_LAC10pKamg_LACc0-mgc0102pKamg_LACc0P_LAC2 dmgLACdpH=mgc010-pH_cy+pKa1_LAC+pKamg_LACln10P_LAC2 NH_ULAC=5 deltaGof_ULAC=-516.72 deltaGpof_ULAC=deltaGof_ULAC+NH_ULACln10RTpH_cy-IcorrdeltaGpof1-NH_ULAC dNH_GLY=-10 deltaGpo_GLY=655.7+dNH_GLYln10RTpH_cy NH_NAD=26 deltaGof_NAD=0 deltaGpof_NAD=deltaGof_NAD+NH_NADln10RTpH_cy-IcorrdeltaGpof1-NH_NAD NH_NADH=27 deltaGof_NADH=22.65 deltaGpof_NADH=deltaGof_NADH+NH_NADHln10RTpH_cy-IcorrdeltaGpof4-NH_NADH NH_H2O=2 deltaGof_H2O=-237.19 deltaGpof_H2O=deltaGof_H2O+NH_H2Oln10RTpH_cy-IcorrdeltaGpof0-NH_H2O NH_H=1 deltaGof_H=0 deltaGpof_H=deltaGof_H+NH_Hln10RTpH_cy deltaH_CK=Navg_ATP+Navg_CR-Navg_PCR-Navg_ADP+NH_ATP4+NH_HCR-NH_HPCR-NH_ADP3 slopeint_1=10002.04742110212706 slopeint_2=10000.013838383371953 Kref_CKT=slopeint_1T+slopeint_2 I25=0.25 alphadebye1=1.10708-1.54508 e -3T+5.95584 e -6T2 IcorrneglnKrefCK=alphadebye1I251+1.6I25-I1+1.6I neglnKrefCK_Iexp=-lnKref_CKT+IcorrneglnKrefCK42+02-22-32-12 Kref_CK=-neglnKrefCK_Iexp deltaGpo_CK=-RTlnKref_CK Kapp_CK=-deltaGpo_CKRT10-pH_cyP_ATPP_CRP_PCRP_ADP deltaH_ADK=2Navg_ADP-Navg_ATP-Navg_AMP+2NH_ADP3-NH_ATP4-NH_AMP2 deltaGpo_ADK=2deltaGpof_ADP3-deltaGpof_ATP4-deltaGpof_AMP2 Kapp_ADK=-deltaGpo_ADKRTP_ADP2P_ATPP_AMP deltaH_GP=Navg_G1P-Navg_Pi+1-NH_HPi2 deltaGpo_GP=deltaGpo_GLY+deltaGpof_UG1P-deltaGpof_HPi2 Kapp_GP=-deltaGpo_GPRTP_G1PP_Pi deltaH_PGLM=Navg_G6P-Navg_G1P+NH_UG6P-NH_UG1P deltaGpo_PGLM=deltaGpof_UG6P-deltaGpof_UG1P Kapp_PGLM=-deltaGpo_PGLMRTP_G6PP_G1P deltaH_PGI=Navg_F6P-Navg_G6P+NH_UF6P-NH_UG6P deltaGpo_PGI=deltaGpof_UF6P-deltaGpof_UG6P Kapp_PGI=-deltaGpo_PGIRTP_F6PP_G6P deltaH_PFK=Navg_ADP+Navg_FDP-Navg_F6P-Navg_ATP+NH_ADP3+NH_UFDP-NH_UF6P-NH_ATP4 deltaGpo_PFK=deltaGpof_UFDP+deltaGpof_ADP3+deltaGpof_H-deltaGpof_UF6P-deltaGpof_ATP4 Kapp_PFK=-deltaGpo_PFKRTP_FDPP_ADPP_F6PP_ATP10-pH_cy deltaH_ALD=Navg_DHAP+Navg_GAP-Navg_FDP+NH_UDHAP+NH_UGAP-NH_UFDP deltaGpo_ALD=deltaGpof_UDHAP+deltaGpof_UGAP-deltaGpof_UFDP Kapp_ALD=-deltaGpo_ALDRTP_GAPP_FDPP_DHAP deltaH_TPI=Navg_DHAP-Navg_GAP+NH_UDHAP-NH_UGAP deltaGpo_TPI=deltaGpof_UDHAP-deltaGpof_UGAP Kapp_TPI=-deltaGpo_TPIRTP_DHAPP_GAP deltaH_GAPDH=Navg_13DPG-Navg_GAP-Navg_Pi+NH_U13DPG+NH_NADH-NH_UGAP-NH_HPi2-NH_NAD deltaGpo_GAPDH=deltaGpof_U13DPG+deltaGpof_NADH+deltaGpof_H-deltaGpof_HPi2-deltaGpof_UGAP-deltaGpof_NAD Kapp_GAPDH=-deltaGpo_GAPDHRTP_13DPGP_PiP_GAP10-pH_cy deltaH_G3PDH=Navg_DHAP-Navg_G3P+NH_UDHAP+NH_NADH-NH_NAD-NH_UG3P deltaGpo_G3PDH=deltaGpof_H+deltaGpof_NADH+deltaGpof_UDHAP-deltaGpof_NAD-deltaGpof_UG3P Kapp_G3PDH=-deltaGpo_G3PDHRTP_DHAPP_G3P10-pH_cy deltaH_PGK=Navg_3PG+Navg_ATP-Navg_13DPG-Navg_ADP+NH_U3PG+NH_ATP4-NH_U13DPG-NH_ADP3 deltaGpo_PGK=deltaGpof_ATP4+deltaGpof_U3PG-deltaGpof_U13DPG-deltaGpof_ADP3 Kapp_PGK=-deltaGpo_PGKRTP_ATPP_3PGP_13DPGP_ADP deltaH_PGM=Navg_2PG-Navg_3PG+NH_U2PG-NH_U3PG deltaGpo_PGM=deltaGpof_U2PG-deltaGpof_U3PG Kapp_PGM=-deltaGpo_PGMRTP_2PGP_3PG deltaH_ENOL=Navg_PEP-Navg_2PG+NH_H2O+NH_UPEP-NH_U2PG deltaGpo_ENOL=deltaGpof_H2O+deltaGpof_UPEP-deltaGpof_U2PG Kapp_ENOL=-deltaGpo_ENOLRTP_PEPP_2PG deltaH_PK=Navg_PYR+Navg_ATP-Navg_PEP-Navg_ADP+NH_UPYR+NH_ATP4-NH_UPEP-NH_ADP3 deltaGpo_PK=deltaGpof_UPYR+deltaGpof_ATP4-deltaGpof_H-deltaGpof_UPEP-deltaGpof_ADP3 Kapp_PK=-deltaGpo_PKRTP_PYRP_ATP10-pH_cyP_PEPP_ADP deltaH_LDH=Navg_LAC-Navg_PYR+NH_ULAC+NH_NAD-NH_UPYR-NH_NADH deltaGpo_LDH=deltaGpof_ULAC+deltaGpof_NAD-deltaGpof_UPYR-deltaGpof_NADH-deltaGpof_H Kapp_LDH=-deltaGpo_LDHRTP_LAC10-pH_cyP_PYR deltaH_ATPase=Navg_ADP+Navg_Pi-Navg_ATP+NH_ADP3+NH_HPi2-NH_ATP4-NH_H2O deltaGpo_ATPase=deltaGpof_ADP3+deltaGpof_HPi2+deltaGpof_H-deltaGpof_H2O-deltaGpof_ATP4 Kapp_ATPase=-deltaGpo_ATPaseRTP_ADPP_PiP_ATP10-pH_cy

Component: glycogen_phosphorylase_A

Dglya=1+GlyKgpA_glyf+PiKgpA_pi+GlyPiKgpA_glyfKgpA_ipi+GlyKgpA_glyb+G1PKgpA_g1p+GlyG1PKgpA_ig1pKgpA_glyb pa=1.4041+105.94-pH_cy+10pH_cy-7.29 VbglyA=paVfglyKgpA_glybKgpA_ig1pKgpA_iglyKgpA_piKapp_GP glyAF=paVfglyPiKgpA_iglyKgpA_piDglya glyAR=VbglyAGlyKgpA_glybKgpA_ig1pDglya flux_GPa=fracAGlyglyAF-G1PglyAR

Component: glycogen_phosphorylase_B

fracB=1-fracA M=AMPKgp_ampnH1+AMPKgp_ampnH Dglyb=1+GlyKgpB_iglyf+PiKgpB_ipi+GlyKgpB_iglyb+G1PKgpB_ig1p+GlyPiKgpB_iglyfKgpB_pi+GlyG1PKgpB_g1pKgpB_iglyb pb=1.751+106.12-pH_cy+10pH_cy-7.03 VbglyB=pbVfglyKgpB_g1pKgpB_iglybKgpB_iglyfKgpB_piKapp_GP glyBF=pbMVfglyPiKgpB_iglyfKgpB_piDglyb glyBR=MVbglyBGlyKgpB_g1pKgpB_iglybDglyb flux_GPb=fracBGlyglyBF-G1PglyBR

Component: PGLM

Vfpglm=Vffpglm1.3291+10-pH_cy+6.64+10pH_cy-8.36 Vbpglm=VfpglmKpglm_g6pKpglm_g1pKapp_PGLM v_PGLM=VfpglmG1PKpglm_g1p-VbpglmG6PKpglm_g6p1+G1PKpglm_g1p+G6PKpglm_g6p

Component: PGI

Vbpgi=Vbbpgi1+10-pH_cy+6.94+10pH_cy-9.35 Vfpgi=VbpgiKpgi_g6pKpgi_f6pKapp_PGI v_PGI=VfpgiG6PKpgi_g6p-VbpgiF6PKpgi_f6p1+F6PKpgi_f6p+G6PKpgi_g6p

Component: PFK

Vfpfk=Vffpfk1+pH_cy6.8-30 Vbpfk=VfpfkKpfk_fbpKpfk_adpKpfk_f6pKpfk_atpKapp_PFK L=Lo1+ATPKpfki1+dATPKpfki1+AMPKmpfk1+AMPKmpfk4 alpha=Kpfk_f6pKpfk_atpKpfk_f6pTKpfk_atpT Delta=1+F6PKpfk_f6p1+ATPKpfk_atp+FBPKpfk_fbp+ADPKpfk_adp1+FBPKpfk_fbp Deltap=1+F6PKpfk_f6pT1+ATPKpfk_atpT+FBPKpfk_fbpT+ADPKpfk_adpT1+FBPKpfk_fbpT v_PFK=VfpfkF6PATPKpfk_f6pKpfk_atpDelta-VbpfkADPFBPKpfk_adpKpfk_fbpDelta1+alphaLDeltapDelta31+LDeltapDelta4

Component: ALD

Vfald=Vffald1.0131+10-pH_cy+5.32+10pH_cy-9.15 Vbald=VfaldKald_gapKald_dhapKald_fbpKapp_ALD1 v_ALD=VfaldFBPKald_fbp-VbaldGAPDHAPKald_gapKald_dhap1+FBPKald_fbp+GAPKald_gap+DHAPKald_dhap

Component: TPI

Vftpi=Vfftpi Vbtpi=VftpiKtpi_dhapKtpi_gapKapp_TPI v_TPI=VftpiGAPKtpi_gap-VbtpiDHAPKtpi_dhap1+GAPKtpi_gap+DHAPKtpi_dhap

Component: G3PDH

Dg3pdh=1+G3PKg3pdh_g3p+NADHKg3pdh_nadh1+DHAPKg3pdh_dhap+NADKg3pdh_nadh Vbg3pdh=Vbbg3pdh Vfg3pdh=Vbg3pdhKg3pdh_g3pKg3pdh_nadKapp_G3PDHKg3pdh_dhapKg3pdh_nadh v_G3PDH=Vfg3pdhG3PNADKg3pdh_g3pKg3pdh_nad-Vbg3pdhDHAPNADHKg3pdh_dhapKg3pdh_nadhDg3pdh

Component: GAPDH

Dgap=1+PiKgapdh_pi+GAPKgapdh_gap+NADKgapdh_nad+GAPNADKgapdh_gapKgapdh_nad+GAPNADPiKgapdh_gapKgapdh_nadKgapdh_pi+BPGKgapdh_bpg+NADHKgapdh_nadh+BPGNADHKgapdh_nadhKgapdh_bpg Vfgad=Vffgad0.0007pH_cy0.8979 Vbgad=VfgadKgapdh_bpgKgapdh_nadh1Kgapdh_gapKgapdh_piKgapdh_nadKapp_GAPDH v_GAPDH=VfgadGAPNADPiKgapdh_nadKgapdh_gapKgapdh_pi-VbgadBPGNADHKgapdh_bpgKgapdh_nadhDgap

Component: PGK

Vbpgk=Vbbpgk Vfpgk=VbpgkKpgk_bpgKpgk_adpKpgk_3pgKpgk_atpKapp_PGK D_PGK=1+ADPKpgk_adp+BPGKpgk_bpg+BPGADPKpgk_bpgKpgk_adp+P3GKpgk_3pg+ATPKpgk_atp+P3GATPKpgk_3pgKpgk_atp v_PGK=VfpgkBPGADPKpgk_adpKpgk_bpg-VbpgkATPP3GKpgk_atpKpgk_3pgD_PGK

Component: PGM

Vfpgm=Vffpgm0.9891+10-pH_cy+5.62+10pH_cy-8.74 Vbpgm=VfpgmKpgm_2pgKpgm_3pgKapp_PGM v_PGM=VfpgmP3GKpgm_3pg-VbpgmP2GKpgm_2pg1+P3GKpgm_3pg+P2GKpgm_2pg

Component: ENOL

Vfen=Vffen Vben=VfenKen_pepKen_2pgKapp_ENOL v_ENOL=VfenP2GKen_2pg-VbenPEPKen_pep1+PEPKen_pep+P2GKen_2pg

Component: PK

Vfpk=Vffpk1.051+10-pH_cy+5.58+10pH_cy-8.79 Vbpk=VfpkKpk_pyrKpk_atpKpk_pepKpk_adpKapp_PK v_PK=VfpkPEPADPKpk_pepKpk_adp-VbpkPYRATPKpk_pyrKpk_atp1+PEPKpk_pep+ADPKpk_adp+PEPADPKpk_pepKpk_adp+ATPKpk_atp+PYRKpk_pyr+PYRATPKpk_pyrKpk_atp

Component: LDH

Vfldh=Vffldh-0.1134pH_cy+1.6069 Vbldh=VfldhKldh_lacKldh_nadKldh_pyrKldh_nadhKapp_LDH v_LDH=VfldhPYRNADHKldh_pyrKldh_nadh-VbldhLACNADKldh_lacKldh_nad1+PYRKldh_pyr+NADHKldh_nadh+PYRNADHKldh_pyrKldh_nadh+LACKldh_lac+NADKldh_nad+LACNADKldh_lacKldh_nad

Component: creatine_kinase

VrevCK=VforCKKapp_CKKck_iatpKck_crKck_iadpKck_pcr CK=VrevCKATPCrKck_iatpKck_cr-VforCKADPPCrKck_iadpKck_pcr1+ADPKck_iadp+PCrKck_ipcr+PCrADPKck_iadpKck_pcr+ATPKck_iatp+CrATPKck_crKck_iatp

Component: adenylate_kinase

Vbadk=VfadkKadk_adp2Kadk_ampKadk_atpKapp_ADK ADK=VfadkATPAMPKadk_atpKadk_amp-VbadkADPKadk_adp21+ATPKadk_atp+AMPKadk_amp+ATPAMPKadk_atpKadk_amp+2ADPKadk_adp+ADP2Kadk_adp2

Component: ATPase

ATPase=kutATP

Component: OXPHOS

oxphos=VmaxOxPhosADPKmadpnnHH1+ADPKmadpnnHH

Component: lactate_transport

Kh=10-pKmct1 v_MCT=Vmax_MCTLAC10-pH_cyKhKlac1-LAC_ec10-pH_ecKhKlac1LAC10-pH_cyKhKlac1+2+10-pH_cyKh+LACKlac1+LAC_ecKlac1+10-pH_ecKh+LAC_ec10-pH_ecKlac1Kh

Component: CO2_generation_transport

RQ=1 PO2ratio=4.2 fluxO2=oxphosPO2ratio fluxCO2=RQfluxO2

Component: Passive_permeation_flux

v_psCO2=PSVCO2CO2_cy-CO2_ec v_hydrCO2cy=X_CAkf_hydrCO2CO2_cy-kb_hydrCO210-pH_cyHCO3_cy v_hydrCO2ec=1kf_hydrCO2CO2_ec-kb_hydrCO210-pH_ecHCO3_ec

Component: buffer_capacity

bufcapmetab=ln1010-pH_cyc01+dNavgPidHPi+dNavgATPdHATP+dNavgADPdHADP+dNavgAMPdHAMP+dNavgPCRdHPCr+dNavgCRdHCr+dNavgG1PdHG1P+dNavgG6PdHG6P+dNavgF6PdHF6P+dNavgFDPdHFBP+dNavgGAPdHGAP+dNavgDHAPdHDHAP+dNavgG3PdHG3P+dNavg13DPGdHBPG+dNavg3PGdHP3G+dNavg2PGdHP2G+dNavgPEPdHPEP+dNavgPYRdHPYR+dNavgLACdHLAC

Component: proton_flux

CKprtflux=deltaH_CK-CK glycprtflux=deltaH_PGLMv_PGLM+deltaH_GPflux_GPa+flux_GPb+deltaH_PGIv_PGI+deltaH_PFKv_PFK+deltaH_ALDv_ALD+deltaH_TPIv_TPI+deltaH_GAPDHv_GAPDH+deltaH_PGKv_PGK+deltaH_PGMv_PGM+deltaH_ENOLv_ENOL+deltaH_PKv_PK+deltaH_LDHv_LDH+deltaH_G3PDHv_G3PDH protons_consumed=CKprtflux+glycprtflux+deltaH_ATPaseATPase+-deltaH_ATPaseoxphos+deltaH_ADKADK-v_hydrCO2cy+v_MCT pHODEterm1=protons_consumedbufcapfixed+bufcapmetab

Component: differential_equations

ddtimePCr=dPCrdt ddtimeCr=dCrdt ddtimeNAD=dNADdt ddtimeNADH=dNADHdt ddtimeATP=dATPdt ddtimeADP=dADPdt ddtimeAMP=dAMPdt ddtimePi=dPidt ddtimeGly=dglydt ddtimeG1P=dG1Pdt ddtimeG6P=dG6Pdt ddtimeF6P=dF6Pdt ddtimeFBP=dFBPdt ddtimeDHAP=dDHAPdt ddtimeG3P=dG3Pdt ddtimeGAP=dGAPdt ddtimeBPG=dBPGdt ddtimeP3G=dP3Gdt ddtimeP2G=dP2Gdt ddtimePEP=dPEPdt ddtimePYR=dPYRdt ddtimeLAC=dLACdt ddtimemg=dmgdt ddtimepH_calc=dpH_calcdt ddtimeLAC_ec=dLACecdt ddtimeHCO3_cy=dHCO3cydt ddtimeCO2_cy=dCO2cydt ddtimeHCO3_ec=dHCO3ecdt ddtimeCO2_ec=dCO2ecdt ddtimeMOPS=dMOPSdt ddtimeMOPSH=dMOPSHdt ddtimepH_ec=dpHecdt dPCrdt=clampCK dCrdt=clamp-CK dNADdt=clamp-v_GAPDH-v_G3PDH+v_LDH dNADHdt=clampv_GAPDH+v_G3PDH-v_LDH dATPdt=clamp-CK-ADK-v_PFK+v_PGK+v_PK-ATPase+oxphos dADPdt=clampCK+2ADK+v_PFK-v_PGK-v_PK+ATPase-oxphos dAMPdt=clamp-ADK dPidt=clamp-flux_GPa+flux_GPb-v_GAPDH+ATPase-oxphos dglydt=clamp-flux_GPa+flux_GPb dG1Pdt=clampflux_GPa+flux_GPb-v_PGLM dG6Pdt=clampv_PGLM-v_PGI dF6Pdt=clampv_PGI-v_PFK dFBPdt=clampv_PFK-v_ALD dDHAPdt=clampv_ALD+v_TPI+v_G3PDH dG3Pdt=clamp-v_G3PDH dGAPdt=clampv_ALD-v_TPI-v_GAPDH dBPGdt=clampv_GAPDH-v_PGK dP3Gdt=clampv_PGK-v_PGM dP2Gdt=clampv_PGM-v_ENOL dPEPdt=clampv_ENOL-v_PK dPYRdt=clampv_PK-v_LDH dLACdt=clampv_LDH-v_MCT dmgdt=clamp0 dpH_calcdt=clamppHODEterm1 dLACecdt=clampV_cellv_MCTV_ec-FlowLAC_ecV_ec dHCO3cydt=clampv_hydrCO2cy dCO2cydt=clampfluxCO2-v_hydrCO2cy-v_psCO2 dHCO3ecdt=clampFlowHCO3_in-HCO3_ecV_ec+v_hydrCO2ec dCO2ecdt=clampFlowCO2_in-CO2_ecV_ec+v_psCO2V_cellV_ec-v_hydrCO2ec MOPS_in=MOPSt2 MOPSH_in=MOPSt2 v_MOPSbuff=1 e 710-7.184MOPS-MOPSH10-pH_ec dMOPSdt=clampFlowMOPS_in-MOPSV_ec-v_MOPSbuff dMOPSHdt=clampFlowMOPSH_in-MOPSHV_ec+v_MOPSbuff dpHecdt=clampFlow10-pH_in-10-pH_ecV_ec+v_hydrCO2ec1+v_MOPSbuff1+V_cellv_MCTV_ec1-ln1010-pH_ec