# ========== Biomass ========== # BIOMASS_PROTEIN : 0.9066 glycine + 0.7602 L-alanine + 0.4377 L-arginine + 0.3567 L-asparagine + 0.3567 L-aspartate + 0.1355 L-cysteine + 0.3894 L-glutamate + 0.3894 L-glutamine + 0.1402 L-histidine + 0.4299 L-isoleucine + 0.6667 L-leucine + 0.5078 L-lysine + 0.2274 L-methionine + 0.2742 L-phenylalanine + 0.3271 L-proline + 0.3193 L-serine + 0.3754 L-threonine + 0.0841 L-tryptophan + 0.2041 L-tyrosine + 0.6262 L-valine --> 1 |PROTEIN| # BIOMASS_LPS : 0.2709 O-antigen --> 1 |LPS|# BIOMASS_DNA : 0.3755 dATP + 0.3740 dTTP + 0.6872 dCTP + 0.6864 dGTP --> 1 |DNA| # BIOMASS_LIPID : 0.0434 cardiolipin + 0.651 phosphatidylethanolamine + 0.156 phosphatidylglycerol --> 1 |LIPID| # BIOMASS_PHB : 1.163 PHB --> 1 |PHB|# BIOMASS_MUREIN : 0.1749 a_peptidoglycan_with_D,D_cross-links_(meso-diaminopimelate_containing) --> 1 |MUREIN| # BIOMASS_RNA : 0.4919 ATP + 0.4000 UTP + 0.5056 CTP + 0.6620 GTP --> 1 |RNA| # BIOMASS_SOLUBLE : 0.0314 10-formyl-tetrahydrofolate + 0.0314 3-demethylubiquinol-8 + 0.0314 5,10-methylenetetrahydrofolate + 0.0314 5-methyl-tetrahydrofolate + 0.0392 acetyl-CoA + 0.0314 adenosylcobalamin + 0.0314 chorismate + 0.0235 CoA + 0.0009 cytidylylmolybdenum_cofactor + 0.0078 di-trans,octa-cis-undecaprenyl_diphosphate + 0.0314 FAD + 0.0314 glutathione + 0.0009 guanylyl_molybdenum_cofactor + 0.0044 malonyl-CoA + 0.0009 molybdate + 0.2510 NAD+ + 0.0063 NADH + 0.0157 NADP+ + 0.0471 NADPH + 4.6799 putrescine + 0.0314 pyridoxal_5'-phosphate + 0.0314 riboflavin + 0.0314 S-adenosyl-L-methionine + 0.0138 succinyl-CoA + 0.0314 tetrahydrofolate + 0.0314 thiamin_diphosphate + 0.0628 ubiquinol-8 + 0.0314 uroporphyrinogen-III --> 1 |SOLUBLE|# BIOMASS : 0.6818 |PROTEIN| + 0.0726 |RNA| + 0.0110 |DNA| + 0.1454 |LIPID| + 0.0085 |LPS| + 0.0062 |MUREIN| + 0.029 |SOLUBLE| + 0.0530 |PHB| --> 1 |BIOMASS|# # --- maintenance energy --- # from E. coli (10.1038/msb4100155) GAM : 53.95 ATP + 53.95 H2O + 1 |BIOMASS| --> 53.95 ADP + 53.95 phosphate + 53.95 H+# NGAM : 1 ATP + 1 H2O --> 1 H+ + 1 phosphate + 1 ADP # ========== Transporter ========== # # --- exchange reactions --- _boundary_H+_pool_flux : 1 H+ <=> _boundary_ammonia_flux : 1 NH3_ex <=> _boundary_Fe2+_flux : 1 Fe2+_ex <=> _boundary_Mg2+_flux : 1 Mg2+_ex <=> _boundary_Co2+_flux : 1 Co2+_ex <=> _boundary_F-_flux : 1 F-_ex <=> _boundary_Cl-_flux : 1 Cl-_ex <=> _boundary_Zn2+_flux : 1 Zn2+_ex <=> _boundary_3-(4-hydroxyphenyl)propanoate_flux : 1 3-(4-hydroxyphenyl)propanoate_ex <=> _boundary_benzoate_flux : 1 benzoate_ex <=> _boundary_L-alanine_flux : 1 L-alanine_ex <=> _boundary_L-proline_flux : 1 L-proline_ex <=> _boundary_nitrate_flux : 1 nitrate_ex <=> _boundary_nitrite_flux : 1 nitrite_ex <=> _boundary_potassium_flux : 1 potassium_ex <=> _boundary_riboflavin_flux : 1 riboflavin_ex <=> _boundary_acetate_flux : 1 acetate_ex <=> _boundary_4-ethylphenol_flux : 1 4-ethylphenol_ex <=> _boundary_4-hydroxybenzoate_flux : 1 4-hydroxybenzoate_ex <=> _boundary_phosphate_flux : 1 phosphate_ex <=> _boundary_sulfate_flux : 1 sulfate_ex <=> _boundary_molybdate_flux : 1 molybdate_ex <=> _boundary_adenosylcobalamin_flux : 1 adenosylcobalamin_ex <=> _boundary_heme_flux : 1 heme_ex <=> _boundary_L-phenylalanine_flux : 1 L-phenylalanine_ex <=> _boundary_phenylacetate_flux : 1 phenylacetate_ex <=> _boundary_phthalate_flux : 1 phthalate_ex <=> _boundary_cyclohexanecarboxylate_flux : 1 cyclohexanecarboxylate_ex <=> _boundary_benzylamine_flux : 1 benzylamine_ex <=> _boundary_indoleacetate_flux : 1 (indol-3-yl)acetate_ex <=> _boundary_benzaldehyde_flux : 1 benzaldehyde_ex <=> _boundary_4-cresol_flux : 1 4-cresol_ex <=> _boundary_phenol_flux : 1 phenol_ex <=> _boundary_toluene_flux : 1 toluene_ex <=> _boundary_ethylbenzene_flux : 1 ethylbenzene_ex <=> _boundary_3-hydroxybenzoate_flux : 1 3-hydroxybenzoate_ex <=> _boundary_succinate_flux : 1 succinate_ex <=> _boundary_3-phenylpropanoate_flux : 1 3-phenylpropanoate_ex <=> _boundary_S-adenosyl-L-methionine_flux : 1 S-adenosyl-L-methionine_ex <=> _boundary_S-adenosyl-L-homocysteine_flux : 1 S-adenosyl-L-homocysteine_ex <=> _boundary_(S)-malate_flux : 1 (S)-malate_ex <=> _boundary_fumarate_flux : 1 fumarate_ex <=> _boundary_L-aspartate_flux : 1 L-aspartate_ex <=> _boundary_2-oxoglutarate_flux : 1 2-oxoglutarate_ex <=> _boundary_pyruvate_flux : 1 pyruvate_ex <=> _boundary_D-mannose_flux : 1 D-mannose_ex <=> _boundary_D-fructose_flux : 1 D-fructose_ex <=> _boundary_arsenate_flux : 1 arsenate_ex <=> _boundary_Fe3+_flux : 1 Fe3+_ex <=> _boundary_Cu+_flux : 1 Cu+_ex <=> _boundary_Ca2+_flux : 1 Ca2+_ex <=> _boundary_tungstate_flux : 1 tungstate_ex <=> _boundary_sn-glycerol-3-phosphate_flux : 1 sn-glycerol-3-phosphate_ex <=> _boundary_L-glutamate_flux : 1 L-glutamate_ex <=> _boundary_glutathione_flux : 1 glutathione_ex <=> _boundary_2-phenylethylamine_flux : 1 2-phenylethylamine_ex <=> _boundary_folate_flux : 1 folate_ex <=> # --- diffusion --- # compounds that can move (more or less) freely through the membrane _boundary_CO2_flux : 1 CO2 <=> _boundary_H2O_flux : 1 H2O <=> _boundary_oxygen_flux : 1 O2 <=> _boundary_carbon_monoxide_flux : 1 carbon_monoxide <=> # --- efflux pumps --- # _boundary_Co2+_efflux : 1 Co2+ --> # EbN1_C07370 _boundary_Cu+_2.A.6.1.4_efflux : 1 Cu+ --> # EbN1_C12150 _boundary_Mg2+_efflux : 1 Mg2+ --> # EbN1_C07370 _boundary_arsenate_2.A.59.1.3_efflux : 1 arsenate --> # EbN1_C28710 _boundary_L-threonine_2.A.76.1.2_efflux : 1 L-threonine --> # EbN1_C37950 # --- channels --- # _trans_ammonia_trans : 1 NH3 <=> 1 NH3_ex # EbN1_C17840 _trans_Fe2+_trans : 1 Fe2+ <-- 1 Fe2+_ex # EbN1_C02880 _trans_Mg2+_1.A.26.1.7_1.A.35.3.2_trans : 1 Mg2+ <-- 1 Mg2+_ex # EbN1_C09560 _trans_Co2+_1.A.35.3.2_trans : 1 Co2+ <-- 1 Co2+_ex # EbN1_C25740 _trans_F-_1.A.43.1.1_trans : 1 F- --> 1 F-_ex # EbN1_C23320 _trans_Zn2+_2.A.5.5.2_trans : 1 Zn2+ <-- 1 Zn2+_ex # EbN1_C25910 # --- sym- and antiporter --- # _trans_nitrate_2.A.1.8.11_trans-H+ : 1 nitrate + 2 H+ <-- 2 H+_ex + 1 nitrate_ex # EbN1_C36380 _trans_riboflavin_2.A.1.-.-_trans-H+ : 1 riboflavin + 2 H+ <-- 2 H+_ex + 1 riboflavin_ex # EbN1_C32810 _trans_SAM_2.A.7.3.7_trans-SAH : 1 S-adenosyl-L-homocysteine + 1 S-adenosyl-L-methionine_ex --> 1 S-adenosyl-L-methionine + 1 S-adenosyl-L-homocysteine_ex # EbN1_C28490 _trans_acetate_2.A.21.7.5_trans-H+ : 1 acetate + 2 H+ <-- 2 H+_ex + 1 acetate_ex # EbN1_C20100 _trans_aromatics_4-ethylphenol_importer_trans-H+ : 1 4-ethylphenol + 2 H+ <=> 2 H+_ex + 1 4-ethylphenol_ex # in the medium _trans_aromatics_4-hydroxybenzoate_exporter : 1 4-hydroxybenzoate + 2 H+_ex --> 2 H+ + 1 4-hydroxybenzoate_ex # EbN1_C40720 _trans_aromatics_4-hydroxybenzoate_2.A.1.15.1_trans-H+ : 1 4-hydroxybenzoate + 2 H+ <-- 2 H+_ex + 1 4-hydroxybenzoate_ex # EbN1_C28650 _trans_aromatics_3-hydroxybenzoate_2.A.1.15.1_trans-H+ : 1 3-hydroxybenzoate + 2 H+ <-- 2 H+_ex + 1 3-hydroxybenzoate_ex # EbN1_C28650 _trans_aromatics_benzoate_2.A.1.15.5_trans-H+ : 1 benzoate + 2 H+ <-- 2 H+_ex + 1 benzoate_ex # EbN1_C30500 _trans_sulfate_2.A.53.1.8_trans-H+ : 1 sulfate + 2 H+ <-- 2 H+_ex + 1 sulfate_ex # EbN1_C25680 _trans_succinate_2.A.56.1.1_2.A.53.3.11_trans-H+ : 1 succinate + 2 H+ <-- 2 H+_ex + 1 succinate_ex # EbN1_C25220,EbN1_C23770,EbN1_C23780 _trans_(S)-malate_2.A.56.1.1_2.A.53.3.11_trans-H+ : 1 (S)-malate + 2 H+ <-- 2 H+_ex + 1 (S)-malate_ex # EbN1_C25220,EbN1_C23770,EbN1_C23780 _trans_fumarate_2.A.56.1.1_2.A.53.3.11_trans-H+ : 1 fumarate + 2 H+ <-- 2 H+_ex + 1 fumarate_ex # EbN1_C25220,EbN1_C23770,EbN1_C23780 _trans_L-aspartate_2.A.56.1.1_2.A.53.3.11_trans-H+ : 1 L-aspartate + 2 H+ <-- 2 H+_ex + 1 L-aspartate_ex # EbN1_C25220,EbN1_C23770,EbN1_C23780 _trans_phthalate_2.A.56.1.12_trans-H+ : 1 phthalate + 2 H+ <-- 2 H+_ex + 1 phthalate_ex # EbN1_PII00560 _trans_2-oxoglutarate_2.A.56.1.12_trans-H+ : 1 2-oxoglutarate + 2 H+ <-- 2 H+_ex + 1 2-oxoglutarate_ex # EbN1_PII00560 _trans_pyruvate_2.A.56.3.4_trans-H+ : 1 pyruvate + 2 H+ <-- 2 H+_ex + 1 pyruvate_ex # EbN1_C05540,EbN1_C05550,EbN1_C05560 _trans_aromatics_toluene_trans-H+ : 1 toluene + 2 H+ <-- 1 H+_ex + 1 toluene_ex # EbN1_C10760 _trans_mannose_trans-PTS : 1 alpha-D-mannose_6-phosphate + 1 pyruvate <-- 1 phosphoenolpyruvate + 1 D-mannose_ex # EbN1_C15830 _trans_fructose_trans-PTS : 1 D-fructose_6-phosphate + 1 pyruvate <-- 1 phosphoenolpyruvate + 1 D-fructose_ex # EbN1_C15830 _trans_O-antigen_3.A.1.103.6_7.-.2.-_trans-ABC : 1 O-antigen + 1 ATP + 1 H2O --> 1 O-antigen_ex + 1 H+ + 1 ADP + 1 phosphate # EbN1_C08820 _trans_arsenate_3.A.4.1.1_7.3.2.7_trans-ABC : 1 arsenate + 1 ATP + 1 H2O --> 1 arsenate_ex + 1 H+ + 1 ADP + 1 phosphate # EbN1_C28700 _trans_Fe3+_3.A.1.10.4_7.2.2.7_trans-ABC : 1 Fe3+ + 1 H+ + 1 ADP + 1 phosphate <-- 1 ATP + 1 H2O + 1 Fe3+_ex # EbN1_C11820, EbN1_C28090 _trans_Cu+_3.A.3.5.39_7.2.2.8_trans-ABC : 1 Cu+ + 1 H+ + 1 ATP + 1 H2O --> 1 ADP + 1 Cu+_ex + 1 phosphate # EbN1_C12170, EbN1_C29410, EbN1_C29600 _trans_Ca2+_3.A.3.2.41_7.2.2.10_trans-ABC : 1 Ca2+ + 1 H+ + 1 ADP + 1 phosphate <-- 1 ATP + 1 H2O + 1 Ca2+_ex # EbN1_C23700 _trans_phosphate_3.A.1.7.1_7.3.2.1_trans-ABC : 2 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 phosphate_ex # EbN1_C27620 _trans_sulfate_3.A.1.6.1_7.3.2.3_trans-ABC : 1 sulfate + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 sulfate_ex # EbN1_C35880 _trans_tungstate_3.A.1.6.2_7.3.2.6_trans-ABC : 1 tungstate + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 tungstate_ex # EbN1_C28800 _trans_heme_3.A.1.107.1_7.6.2.5_trans-ABC : 1 heme + 1 ADP + 1 phosphate + 1 H+ <-- 1 heme_ex + 1 ATP + 1 H2O # EbN1_C19970 _trans_adenosylcobalamin_3.A.1.13.1_7.6.2.-_trans-ATP : 1 adenosylcobalamin + 1 ADP + 1 phosphate + 1 H+ <-- 1 adenosylcobalamin_ex + 1 ATP + 1 H2O # EbN1_C20990,EbN1_C23020 _trans_molybdate_3.A.1.8.-_7.3.2.5_trans-ABC : 1 molybdate + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 molybdate_ex # EbN1_C15390 _trans_sn-glycerol-3-phosphate_trans-ABC : 1 sn-glycerol-3-phosphate + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 sn-glycerol-3-phosphate_ex # EbN1_C25810 _trans_L-glutamate_3.A.1.3.22_7.4.2.1_trans-ABC : 1 L-glutamate + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 L-glutamate_ex # EbN1_C26080 _trans_L-aspartate_3.A.1.3.22_7.4.2.1_trans-ABC : 1 L-aspartate + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 L-aspartate_ex # EbN1_C26080 _trans_glutathione_3.A.1.5.11_7.4.2.10_trans-ABC : 1 glutathione + 1 phosphate + 1 H+ + 1 ADP <-- 1 ATP + 1 H2O + 1 glutathione_ex # EbN1_C32530, EbN1_C37390 _trans_aromatics_benzoate_3.A.1.4.15_trans-ABC : 1 benzoate + 1 ADP + 1 phosphate + 1 H+ <-- 1 benzoate_ex + 1 ATP + 1 H2O # EbN1_C30450,EbN1_C30460,EbN1_C30470 _trans_aromatics_3-phenylpropanoate_ex_3.A.1.4.15_trans-ABC : 1 3-phenylpropanoate_ex + 1 ADP + 1 phosphate + 1 H+ <-- 1 3-phenylpropanoate_ex_ex + 1 ATP + 1 H2O # EbN1_C30450,EbN1_C30460,EbN1_C30470 _trans_aromatics_3-(4-hydroxyphenyl)propanoate_3.A.1.4.15_trans-ABC : 1 3-(4-hydroxyphenyl)propanoate + 1 ADP + 1 phosphate + 1 H+ <-- 1 3-(4-hydroxyphenyl)propanoate_ex + 1 ATP + 1 H2O # EbN1_C30460,EbN1_C30470 #_trans_aromatics_3-(4-hydroxyphenyl)propanoate_2.A.1.27.1_trans-H+ : 1 3-(4-hydroxyphenyl)propanoate+ 2 H+ <-- 2 H+_ex + 1 3-(4-hydroxyphenyl)propanoate_ex # EbN1_C27150 _trans_aromatics_phenylethylamine_3.A.1.106.2_trans-ABC : 1 2-phenylethylamine + 1 ADP + 1 phosphate + 1 H+ <-- 1 2-phenylethylamine_ex + 1 ATP + 1 H2O # EbN1_C29750 _trans_aromatics_indoleacetate_3.A.1.4.15_trans-ABC : 1 (indol-3-yl)acetate + 1 ADP + 1 phosphate + 1 H+ <-- 1 (indol-3-yl)acetate_ex + 1 ATP + 1 H2O # EbN1_C11610 _trans_aromatics_L-phenylalanine_trans-ATP : 1 L-phenylalanine + 1 ADP + 1 phosphate + 1 H+ <-- 1 L-phenylalanine_ex + 1 ATP + 1 H2O # EbN1_C20250,bA3558,EbN1_C20270 _trans_aromatics_phenylacetate_trans-ATP : 1 phenylacetate + 1 ADP + 1 phosphate + 1 H+ <-- 1 phenylacetate_ex + 1 ATP + 1 H2O # EbN1_C20250,ebA3557,EbN1_C20260 _trans_aromatics_cyclohexanecarboxylate_trans-H+ : 1 cyclohexanecarboxylate + 2 H+ <-- 2 H+_ex + 1 cyclohexanecarboxylate_ex # EbN1_C03810,EbN1_C03820 _trans_aromatics_benzaldehyde_trans-H+ : 1 benzaldehyde + 2 H+ <-- 1 benzaldehyde_ex + 2 H+_ex # in the medium _trans_aromatics_p-cresol_trans-H+ : 1 4-cresol + 2 H+ <-- 1 H+_ex + 1 4-cresol_ex # EbN1_C03810,EbN1_C03820 _trans_aromatics_phenol_trans-H+ : 1 phenol + 2 H+ <-- 1 H+_ex + 1 phenol_ex # EbN1_C03810,EbN1_C03820 _trans_aromatics_ethylbenzene_trans-H+ : 1 ethylbenzene + 2 H+ <-- 1 H+_ex + 1 ethylbenzene_ex # EbN1_C03810,EbN1_C03820 _trans_folate_trans-H+ : 1 folate + 2 H+ --> 2 H+_ex + 1 folate_ex # in the medium _trans_Co2+_efflux : 1 Co2+ --> 1 Co2+_ex # EbN1_C37950 _trans_Mg2+_efflux : 1 Mg2+ --> 1 Mg2+_ex # EbN1_C37950 _trans_alanine_2.A.25.1.2_trans : 1 L-alanine + 2 H+ <-- 2 H+_ex + 1 L-alanine_ex # EbN1_C25910 _trans_aromatics_cinnamate_2.A.1.27.1_trans-H+ : 1 cinnamate + 2 H+ <-- 1 H+_ex + 1 cinnamate_ex # in the medium _trans_aromatics_cinnamate_3.A.1.4.15_trans-ABC : 1 cinnamate + 1 ADP + 1 phosphate + 1 H+ <-- 1 cinnamate_ex + 1 ATP + 1 H2O # EbN1_C11610 _trans_aromatics_hydrocinnamate_2.A.1.27.1_trans-H+ : 1 phenylpropionate + 2 H+ <-- 1 H+_ex + 1 phenylpropionate_ex # in the medium _trans_aromatics_hydrocinnamate_3.A.1.4.15_trans-ABC : 1 phenylpropionate + 1 ADP + 1 phosphate + 1 H+ <-- 1 phenylpropionate_ex + 1 ATP + 1 H2O # EbN1_C11610 _trans_aromatics_p-coumarate_2.A.1.27.1_trans-H+ : 1 p-coumarate + 2 H+ <-- 1 H+_ex + 1 p-coumarate_ex # in the medium _trans_aromatics_p-coumarate_3.A.1.4.15_trans-ABC : 1 p-coumarate + 1 ADP + 1 phosphate + 1 H+ <-- 1 p-coumarate_ex + 1 ATP + 1 H2O # EbN1_C11610 _trans_cation_M2+_2.A.4.1.3_trans : 1 cation_M2+ + 2 H+_ex --> 2 H+ + 1 cation_M2+_ex # EbN1_C25910 _trans_cation_M2+_3.A.1.15.19_trans-ABC : 1 cation_M2+ + 1 ADP + 1 phosphate + 1 H+ <-- 1 cation_M2+_ex + 1 ATP + 1 H2O # EbN1_C11610 _trans_Cl-_2.A.4.1.3_trans-H+ : 2 Cl- + 1 H+_ex <=> 2 Cl-_ex + 1 H+ # in the medium _trans_nitrate_2.A.1.8.2_trans : 1 nitrate <=> nitrate_ex # EbN1_C06580 _trans_nitrite_2.A.1.8.17_trans-nitrate : 1 nitrate + 1 nitrite_ex <-- 1 nitrite + 1 nitrate_ex # EbN1_C36370 _trans_potassium_2.A.37.1.3_trans : 1 potassium + 2 H+_ex --> 2 H+ + 1 potassium_ex # EbN1_C25910 _trans_potassium_2.A.38.1.1_trans : 1 potassium <--1 potassium_ex # EbN1_C15990 _trans_potassium_2.A.38.4.3_trans : 1 potassium <-- 1 potassium_ex # EbN1_C15530,EbN1_C15540,EbN1_C31980 _trans_potassium_2.A.63.1.1_trans-H+ : 1 potassium + 2 H+_ex --> 2 H+ + 1 potassium_ex # EbN1_C02930,EbN1_C02940,EbN1_C02950 _trans_potassium_2.A.72.1.1_trans : 1 potassium + 2 H+_ex --> 2 H+ + 1 potassium_ex # EbN1_C20660 _trans_sodium_2.A.36.-.-_trans : 1 sodium + 2 H+_ex --> 2 H+ + 1 sodium_ex # EbN1_C25910 # ========== Central carbon metabolism ========== # --- Glycolysis / gluconeogenesis --- # metacyc: GLUCONEO-PWY, kegg:rn00010 glycolysis_2.7.1.2_GLUCOKIN-RXN : 1 beta-D-glucose + 1 ATP --> 1 H+ + 1 beta-D-glucose_6-phosphate + 1 ADP # EbN1_C03120 glycolysis_5.3.1.9_PGLUCISOM-RXN : 1 beta-D-glucose_6-phosphate <=> 1 D-fructose_6-phosphate # EbN1_C29870 glycolysis_5.3.1.9_GLUCOSE-6-PHOSPHATE-1-EPIMERASE-RXN : 1 alpha-D-glucose_6-phosphate <=> 1 beta-D-glucose_6-phosphate # EbN1_C29870 glycolysis_5.3.1.9_RXN-6182 : 1 alpha-D-glucose_6-phosphate <=> 1 D-fructose_6-phosphate # EbN1_C29870 glycolysis_5.4.2.2_PHOSPHOGLUCMUT-RXN : 1 alpha-D-glucose_1-phosphate <=> 1 alpha-D-glucose_6-phosphate # EbN1_C05390 glycolysis_2.7.1.90_2.7.1.90-RXN : 1 D-fructose_6-phosphate + 1 diphosphate <=> 1 H+ + 1 phosphate + 1 D-fructose_1,6-bisphosphate # EbN1_C29130 glycolysis_4.1.2.13_F16ALDOLASE-RXN : 1 D-fructose_1,6-bisphosphate <=> 1 D-glyceraldehyde_3-phosphate + 1 dihydroxyacetone_phosphate # EbN1_C05940 glycolysis_5.3.1.1_TRIOSEPISOMERIZATION-RXN : 1 D-glyceraldehyde_3-phosphate <=> 1 dihydroxyacetone_phosphate # EbN1_C27630 glycolysis_1.2.1.12_GAPOXNPHOSPHN-RXN : 1 NAD+ + 1 D-glyceraldehyde_3-phosphate + 1 phosphate <=> 1 1,3-bisphospho-D-glycerate + 1 H+ + 1 NADH # EbN1_C05910 glycolysis_2.7.2.3_PHOSGLYPHOS-RXN : 1 ATP + 1 3-phospho-D-glycerate <=> 1 ADP + 1 1,3-bisphospho-D-glycerate # EbN1_C05920 glycolysis_5.4.2.11_3PGAREARR-RXN : 1 2-phospho-D-glycerate <=> 1 3-phospho-D-glycerate # EbN1_C05660 glycolysis_4.2.1.11_2PGADEHYDRAT-RXN : 1 2-phospho-D-glycerate <=> 1 phosphoenolpyruvate + 1 H2O # EbN1_C35610 glycolysis_2.7.1.40_PEPDEPHOS-RXN : 1 H+ + 1 ADP + 1 phosphoenolpyruvate --> 1 ATP + 1 pyruvate # EbN1_C05930 glycolysis_1.2.5.1_1.8.1.4_2.3.1.12_1.2.4.1_PYRUVDEH-RXN : 1 CoA + 1 NAD+ + 1 pyruvate --> 1 acetyl-CoA + 1 CO2 + 1 NADH # EbN1_C00700 gluconeogenesis_3.1.3.11_F16BDEPHOS-RXN : 1 H2O + 1 D-fructose_1,6-bisphosphate --> 1 phosphate + 1 D-fructose_6-phosphate # EbN1_C06420 gluconeogenesis_2.7.9.2_PEPSYNTH-RXN : 1 ATP + 1 H2O + 1 pyruvate --> 1 AMP + 1 phosphoenolpyruvate + 1 phosphate + 2 H+ # EbN1_C17770, EbN1_C17780, EbN1_C17790, EbN1_C33510 gluconeogenesis_1.1.1.40_MALIC-NADP-RXN : 1 (S)-malate + 1 NADP+ --> 1 CO2 + 1 pyruvate + 1 NADPH + 1 H+ # EbN1_C23160, EbN1_C25140 gluconeogenesis_4.1.1.32_4.1.1.32-RXN : 1 GTP + 1 oxaloacetate --> 1 GDP + 1 CO2 + 1 phosphoenolpyruvate # EbN1_C23140 # --- TCA cycle --- # TCA-cycle_2.3.3.1_CITSYN-RXN : 1 H2O + 1 oxaloacetate + 1 acetyl-CoA --> 1 CoA + 1 H+ + 1 citrate # EbN1_C38650 TCA-cycle_4.2.1.3_RXN-14047 : 1 citrate <=> 1 D-threo-isocitrate # EbN1_C30200, EbN1_C30210, EbN1_C39170 TCA-cycle_1.1.1.42_ISOCITDEH-RXN : 1 NADP+ + 1 D-threo-isocitrate --> 1 NADPH + 1 CO2 + 1 2-oxoglutarate # EbN1_C04450, EbN1_C04460 TCA-cycle_1.2.7.3_2-OXOGLUTARATE-SYNTHASE-RXN : 1 CoA + 2 oxidized_ferredoxin + 1 2-oxoglutarate --> 1 H+ + 1 CO2 + 1 succinyl-CoA + 2 reduced_ferredoxin # EbN1_C17820, EbN1_C17830, EbN1_C26200, EbN1_C26210, EbN1_C26220, EbN1_PII00050, EbN1_PII00060, EbN1_PII00070 TCA-cycle_1.2.4.2_1.8.1.4_2.3.1.61_1.2.1.105_2-oxoglutarate-dehydrogenase-complex : 1 CoA + NAD+ + 1 2-oxoglutarate --> 1 H+ + 1 CO2 + 1 succinyl-CoA + 1 NADH TCA-cycle_6.2.1.5_SUCCCOASYN-RXN : 1 ADP + 1 phosphate + 1 succinyl-CoA <=> 1 succinate + 1 ATP + 1 CoA # EbN1_C06920, EbN1_C06930 TCA-cycle_1.3.5.1_SUCCINATE-DEHYDROGENASE-UBIQUINONE-RXN : 1 ubiquinone-8 + 1 succinate <=> 1 ubiquinol-8 + 1 fumarate # EbN1_C26130, EbN1_C26140, EbN1_C26150, EbN1_C38670, EbN1_C38680, EbN1_C38690, EbN1_C38700 TCA-cycle_4.2.1.2_FUMHYDR-RXN : 1 fumarate + 1 H2O <=> 1 (S)-malate # EbN1_C00970, EbN1_C21240 TCA-cycle_1.1.1.37_MALATE-DEHYDROGENASE-NADP+-RXN : 1 (S)-malate + 1 NAD+ <=> 1 H+ + 1 NADH + 1 oxaloacetate # EbN1_C38730 # --- Glyoxylate shunt, anaplerotic reactions, gluconeogenesis --- # TCA-cycle_glyoxylate-shunt_4.1.3.1_ISOCIT-CLEAV-RXN : 1 D-threo-isocitrate --> 1 succinate + 1 glyoxylate # EbN1_C25580 TCA-cycle_glyoxylate-shunt_2.3.3.9_MALSYN-RXN : 1 H2O + 1 acetyl-CoA + 1 glyoxylate --> 1 CoA + 1 (S)-malate + 1 H+ # EbN1_C04380 TCA-cycle_anaplerotic_4.1.1.31_PEPCARBOX-RXN : 1 phosphoenolpyruvate + 1 bicarbonate --> 1 phosphate + 1 oxaloacetate # EbN1_C06250 TCA-cycle_anaplerotic_6.4.1.1_PYRUVATE-CARBOXYLASE-RXN : 1 pyruvate + 1 bicarbonate + 1 ATP --> 1 oxaloacetate + 1 ADP + 1 phosphate + 1 H+ # EbN1_C33190, EbN1_C33200 # --- Pentose phosphate pathway (only non-oxidative branch) --- # pentose-phosphate-pathway_5.1.3.1_RIBULP3EPIM-RXN : 1 D-ribulose_5-phosphate <=> 1 D-xylulose_5-phosphate # EbN1_C23840 pentose-phosphate-pathway_5.3.1.6_RIB5PISOM-RXN : 1 D-ribose_5-phosphate <=> 1 D-ribulose_5-phosphate # EbN1_C05810 pentose-phosphate-pathway_2.2.1.1_1TRANSKETO-RXN : 1 D-sedoheptulose_7-phosphate + 1 D-glyceraldehyde_3-phosphate <=> 1 D-ribose_5-phosphate + 1 D-xylulose_5-phosphate # EbN1_C05900 pentose-phosphate-pathway_2.2.1.1_2TRANSKETO-RXN : 1 D-erythrose_4-phosphate + 1 D-xylulose_5-phosphate <=> 1 D-glyceraldehyde_3-phosphate + 1 D-fructose_6-phosphate # EbN1_C05900 pentose-phosphate-pathway_2.2.1.2_TRANSALDOL-RXN : 1 D-sedoheptulose_7-phosphate + 1 D-glyceraldehyde_3-phosphate <=> 1 D-fructose_6-phosphate + 1 D-erythrose_4-phosphate # EbN1_C26690 PRPP-syn_2.7.6.1_PRPPSYN-RXN : 1 ATP + 1 D-ribose_5-phosphate <=> 1 H+ + 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 AMP # EbN1_C07760, EbN1_C18300 # --- Denitrification --- # nitrate-reduction_1.7.5.1_RXN0-6369 : 1 ubiquinol-8 + 1 nitrate + 2 H+ --> 1 H2O + 1 ubiquinone-8 + 1 nitrite_ex + 2 H+_ex # EbN1_C36330, EbN1_C36340, EbN1_C36350, EbN1_C36360 nitrate-reduction_1.7.2.1_NITRITE-REDUCTASE-CYTOCHROME-RXN : 1 Cytochromes-C-Reduced + 2 H+ + 1 nitrite_ex --> 1 H2O + 1 Cytochromes-C-Oxidized + 1 nitric_oxide # EbN1_C04870 nitrate-reduction_1.7.2.5_NITRIC-OXIDE-REDUCTASE-RXN : 2 nitric_oxide + 2 H+ + 2 Cytochromes-C-Reduced --> 2 Cytochromes-C-Oxidized + 1 H2O + 1 nitrous_oxide # EbN1_C01010, EbN1_C01020 nitrate-reduction_1.7.2.4_RXN-12130 : 2 H+ + 1 nitrous_oxide + 2 Cytochromes-C-Reduced --> 1 H2O + 2 Cytochromes-C-Oxidized + 1 N2_ex # EbN1_C36290 # --- Energy metabolism --- # respiratory-chain_7.1.1.2_NADH-DEHYDROG-A-RXN : 1 NADH + 5 H+ + 1 ubiquinone-8 --> 1 ubiquinol-8 + 1 NAD+ + 4 H+_ex # EbN1_C27650, EbN1_C27660, EbN1_C27670, EbN1_C27680, EbN1_C27690, EbN1_C27700, EbN1_C27710, EbN1_C27720, EbN1_C27730, EbN1_C27740, EbN1_C27750, EbN1_C27760, EbN1_C27770, EbN1_C27780, EbN1_C40060 respiratory-chain_1.6.5.2_NQOR-RXN_NAD : 1 NADH + 1 H+ + 1 ubiquinone-8 --> 1 NAD+ + 1 ubiquinol-8 # EbN1_C12860, EbN1_C28820, EbN1_C41030 respiratory-chain_7.1.1.8_7.1.1.8-RXN : 2 Cytochromes-C-Oxidized + 1 ubiquinol-8 + 2 H+ --> 1 ubiquinone-8 + 2 Cytochromes-C-Reduced # EbN1_C06460, EbN1_C06470, EbN1_C06480 respiratory-chain_7.1.1.9_CYTOCHROME-C-OXIDASE-RXN : 1 O2 + 4 Cytochromes-C-Reduced + 8 H+ --> 4 Cytochromes-C-Oxidized + 2 H2O + 4 H+_ex # EbN1_C00850, EbN1_C00860, EbN1_C16370, EbN1_C20870, EbN1_C20880, EbN1_C24100, EbN1_C24110, EbN1_C24140, EbN1_C25990, EbN1_C26000, EbN1_C29430, EbN1_C29440, EbN1_C29450, EbN1_C29460 respiratory-chain_ATP-synthesis_7.1.2.2_ATPSYN-RXN : 1 ATP + 4 H+ + 1 H2O <=> 1 ADP + 1 phosphate + 4 H+_ex # EbN1_C17050, EbN1_C17060, EbN1_C17070, EbN1_C17080, EbN1_C17090, EbN1_C17100, EbN1_C17110, EbN1_C17120 # --- Interconversion reactions --- # conv_bicarbonate_4.2.1.1_CARBODEHYDRAT-RXN : 1 bicarbonate <=> 1 CO2 + 1 H2O # EbN1_C15950, EbN1_C20750 conv_ammonia_RXN-11811_spontaneous : 1 NH3 + 1 H+ <=> 1 ammonium # spontaneous conv_formate-oxidation_1.17.1.9_1.17.1.9-RXN : 1 formate + 1 NAD+ --> 1 CO2 + 1 NADH # EbN1_C15570 conv_diphosphate-hydrolysis_3.6.1.1_INORGPYROPHOSPHAT-RXN : 1 H2O + 1 diphosphate --> 1 H+ + 2 phosphate # EbN1_C40460 conv_triphosphate-hydrolysis_3.6.1.11_TRIPHOSPHATASE-RXN : 1 H2O + 1 triphosphate --> 1 diphosphate + 1 phosphate # EbN1_C37720 conv_Transhydrogenase_reaction_7.1.1.1: NADPH + NAD+ + H+ <-- NADP+ + NADH + H+_ex # EbN1_C25750,EbN1_C25760 conv_lipoamide-oxred_1.8.1.4_DIHYDLIPOXN-RXN : 1 dihydrolipoamide + 1 NAD+ <=> 1 H+ + 1 NADH + 1 lipoamide # EbN1_C00720, EbN1_C38620 conv_peroxidase_1.11.1.5_CYTOCHROME-C-PEROXIDASE-RXN : 1 hydrogen_peroxide + 2 Cytochromes-C-Reduced --> 2 H2O + 2 Cytochromes-C-Oxidized # EbN1_C18210 conv_thioredoxin-oxred_1.8.1.9_THIOREDOXIN-REDUCT-NADPH-RXN : 1 oxidized-thioredoxin + 1 H+ + 1 NADPH --> 1 NADP+ + 1 reduced-thioredoxin # EbN1_C11140, EbN1_C40410 conv_ETF-oxred_1.5.5.1_1.5.5.1-RXN : 1 ETF-Reduced + 1 ubiquinone-8 <=> 1 ubiquinol-8 + 1 ETF-Oxidized # EbN1_C10450, EbN1_C35560 conv_glutaredoxin_thioredoxin : 1 Ox-Glutaredoxin + 1 reduced-thioredoxin <=> 1 oxidized-thioredoxin + 1 Red-Glutaredoxin # conversion needed for some reactions conv_ferredoxin-oxred_1.18.1.2-RXN : 1 H+ + 1 NADP+ + 2 reduced_ferredoxin <=> 2 oxidized_ferredoxin + 1 NADPH # EbN1_C14960, EbN1_C35300 conv_ferredoxin-oxred_1.18.1.2-RXN_1 : 1 H+ + 1 NAD+ + 2 reduced_ferredoxin <=> 2 oxidized_ferredoxin + 1 NADH # EbN1_C14960, EbN1_C35300 conv_flavodoxin-oxred_1.18.1.2-RXN_2 : 1 H+ + 1 NADP+ + 1 reduced_flavodoxin <=> 1 oxidized_flavodoxin + 1 NADPH # EbN1_C14960, EbN1_C35300 # --- Formaldehyde detoxification --- # glutathione-syn_6.3.2.2_GLUTCYSLIG-RXN : 1 ATP + 1 L-cysteine + 1 L-glutamate --> 1 phosphate + 1 H+ + 1 ADP + 1 L-gamma-glutamylcysteine # EbN1_C14510 glutathione-syn_6.3.2.3_GLUTATHIONE-SYN-RXN : 1 ATP + 1 L-gamma-glutamylcysteine + 1 glycine --> 1 ADP + 1 glutathione + 1 phosphate + 1 H+ # EbN1_C14500 formaldehyde-oxidation_spontaneous_RXN-2961 : 1 formaldehyde + 1 glutathione <=> 1 S-hydroxymethylglutathione # spontaneous formaldehyde-oxidation_1.1.1.284_RXN-2962_NAD : 1 NAD+ + 1 S-hydroxymethylglutathione <=> 1 NADH + 1 S-formylglutathione + 1 H+ # EbN1_C09340, EbN1_C32840 formaldehyde-oxidation_3.1.2.12_S-FORMYLGLUTATHIONE-HYDROLASE-RXN : 1 S-formylglutathione + 1 H2O --> 1 H+ + 1 glutathione + 1 formate # EbN1_C32830 glutathione-degradation_3.4.11.1_3.4.11.10_BS364761 : 1 L-cysteinylglycine + 1 H2O --> 1 L-cysteine + 1 glycine # EbN1_C41120 glutathione-degradation_3.4.19.13_BR49838 : 1 glutathione + 1 H2O --> 1 L-cysteinylglycine + 1 L-glutamate # EbN1_C16310 # --- Sulfate reduction --- # sulfate-reduction_2.7.7.4_SULFATE-ADENYLYLTRANS-RXN : 1 ATP + 1 sulfate + 1 H+ <=> 1 adenosine_5'-phosphosulfate + 1 diphosphate # EbN1_C14890, EbN1_C14910 sulfate-reduction_1.8.4.10_1.8.4.10-RXN : 1 reduced-thioredoxin + 1 adenosine_5'-phosphosulfate --> 1 AMP + 2 H+ + 1 sulfite + 1 oxidized-thioredoxin # EbN1_C14880 sulfate-reduction_1.8.1.2_SULFITE-REDUCT-RXN : 3 NADPH + 5 H+ + 1 sulfite --> 3 H2O + 3 NADP+ + 1 hydrogen_sulfide # EbN1_C14860, EbN1_C18120 # --- Folate transformations --- # folate-transformations_1.5.1.3_BS259283 : 1 folate + 1 NADPH + 2 H+ <=> 1 tetrahydrofolate + 1 NADP+ # EbN1_C25280 folate-transformations_1.5.1.20-RXN_1 : 1 5-methyl-tetrahydrofolate + 1 NADP+ <=> 1 5,10-methylenetetrahydrofolate + 1 NADPH + 1 H+ # EbN1_C10370 folate-transformations_1.5.1.20-RXN_2 : 1 5-methyl-tetrahydrofolate + 1 NAD+ <=> 1 5,10-methylenetetrahydrofolate + 1 NADH + 1 H+ # EbN1_C10370 folate-transformations_1.5.1.5_METHYLENETHFDEHYDROG-NADP-RXN : 1 5,10-methylenetetrahydrofolate + 1 NADP+ <=> 1 5,10-methenyltetrahydrofolate + 1 NADPH # EbN1_C00640 folate-transformations_3.5.4.9_METHENYLTHFCYCLOHYDRO-RXN : 1 5,10-methenyltetrahydrofolate + 1 H2O --> 1 10-formyl-tetrahydrofolate + 1 H+ # EbN1_C00640 folate-transformations_1.5.1.3_DIHYDROFOLATEREDUCT-RXN : 1 H+ + 1 NADPH + 1 7,8-dihydrofolate --> 1 NADP+ + 1 tetrahydrofolate # EbN1_C25280 # --- Glycerol --- metacyc: PWY0-1561, metacyc: PWY-4261 glycerol-metabolism_2.7.1.30_GLYCEROL-KIN-RXN : 1 glycerol + 1 ATP --> 1 H+ + 1 sn-glycerol-3-phosphate + 1 ADP # EbN1_C25520 glycerol-metabolism_1.1.5.3_RXN0-5260 : 1 ubiquinone-8 + 1 sn-glycerol-3-phosphate --> 1 ubiquinol-8 + 1 dihydroxyacetone_phosphate # EbN1_C25530 glycerol-metabolism_2.7.1.165_GLY3KIN-RXN : 1 D-glycerate + 1 ATP --> 1 H+ + 1 3-phospho-D-glycerate + 1 ADP # EbN1_C26390 # --- PHB synthesis --- # PHB-syn_1.1.1.36_RXN-5901 : 1 H+ + 1 NADPH + 1 acetoacetyl-CoA --> 1 NADP+ + 1 (R)-3-hydroxybutanoyl-CoA # EbN1_C26970, EbN1_C26990 PHB-syn_2.3.1.b4_RXN1-42 : 10 (R)-3-hydroxybutanoyl-CoA --> 1 PHB + 10 CoA # EbN1_C20700,EbN1_C26960,EbN1_C29030 # ========== Amino acid metabolism ========== # # --- Glu, Gln --- # aa_glutamate_1.4.1.4_GLUTDEHYD-RXN : 1 L-glutamate + 1 H2O + 1 NADP+ <=> 1 H+ + 1 2-oxoglutarate + 1 ammonium + 1 NADPH # EbN1_C31140 aa_glutamate_1.4.1.2_GLUTDEHYD-RXN : 1 L-glutamate + 1 H2O + 1 NAD+ <=> 1 H+ + 1 2-oxoglutarate + 1 ammonium + 1 NADH # EbN1_C20650 aa_glutamate/glutamine_6.3.1.2_GLUTAMINESYN-RXN : 1 ATP + 1 L-glutamate + 1 ammonium --> 1 phosphate + 1 H+ + 1 ADP + 1 L-glutamine # EbN1_C23560 aa_glutamate/glutamine_1.4.1.13_GLUTAMATESYN-RXN : 1 NADPH + 1 2-oxoglutarate + 1 L-glutamine + 1 H+ --> 1 NADP+ + 2 L-glutamate # EbN1_C12550, EbN1_C12560 # --- Asp, Asn --- # aa_aspartate_2.6.1.57_ASPAMINOTRANS-RXN : 1 2-oxoglutarate + 1 L-aspartate <=> 1 oxaloacetate + 1 L-glutamate # EbN1_C03170 aa_asparagine-syn_6.3.5.4_ASNSYNB-RXN : 1 L-glutamine + 1 ATP + 1 L-aspartate + 1 H2O --> 1 L-asparagine + 1 L-glutamate + 1 H+ + 1 diphosphate + 1 AMP # EbN1_C24350, EbN1_C24370, EbN1_C24480, EbN1_C30240 aa_aspartate_3.5.1.1_ASPARAGHYD-RXN : 1 L-asparagine + 1 H2O --> 1 L-aspartate + 1 NH3 # EbN1_C20580 # --- Ala --- # aa_alanine_2.6.1.2_ALANINE-AMINOTRANSFERASE-RXN : 1 2-oxoglutarate + 1 L-alanine <=> 1 pyruvate + 1 L-glutamate # EbN1_C28430 aa_alanine_1.4.1.1_ALANINE-DEHYDROGENASE-RXN : 1 H2O + 1 L-alanine + 1 NAD+ <=> 1 NADH + 1 H+ + 1 pyruvate + 1 ammonium # EbN1_C20670 aa_alanine_5.1.1.1_ALARACECAT-RXN : 1 L-alanine --> 1 D-alanine # EbN1_C20070 aa_alanine_2.6.1.21_D-ALANINE-AMINOTRANSFERASE-RXN : 1 2-oxoglutarate + 1 D-alanine <-- 1 pyruvate + 1 D-glutamate # EbN1_C17320 # --- Pro --- # aa_proline-syn_2.7.2.11_GLUTKIN-RXN : 1 ATP + 1 L-glutamate --> 1 L-glutamate_5-phosphate + 1 ADP # EbN1_C04560 aa_proline-syn_1.2.1.41_GLUTSEMIALDEHYDROG-RXN : 1 L-glutamate_5-phosphate + 1 NADPH + 1 H+ --> 1 phosphate + 1 L-glutamate-5-semialdehyde + 1 NADP+ # EbN1_C25070 aa_proline-syn_1.5.1.2_PYRROLINECARBREDUCT-RXN_NAD : 2 H+ + 1 NADH + 1 (S)-1-pyrroline-5-carboxylate --> 1 NAD+ + 1 L-proline # EbN1_C09730 aa_proline-syn_1.5.1.2_PYRROLINECARBREDUCT-RXN_NADP : 2 H+ + 1 NADPH + 1 (S)-1-pyrroline-5-carboxylate --> 1 NADP+ + 1 L-proline # EbN1_C09730 aa_proline_SPONTPRO-RXN : 1 H+ + 1 (S)-1-pyrroline-5-carboxylate + 1 H2O <=> 1 L-glutamate-5-semialdehyde # spontaneous # --- Arg --- # aa_arginine/UMP-syn_6.3.5.5_CARBPSYN-RXN : 1 bicarbonate + 1 H2O + 2 ATP + 1 L-glutamine --> 1 carbamoyl-phosphate + 1 L-glutamate + 1 phosphate + 2 H+ + 2 ADP # EbN1_C27500, EbN1_C27510 aa_arginine-syn_2.3.1.1_N-ACETYLTRANSFER-RXN : 1 acetyl-CoA + 1 L-glutamate <=> 1 H+ + 1 CoA + 1 N-acetyl-L-glutamate # EbN1_C05850, EbN1_C07940 aa_arginine-syn_2.7.2.8_ACETYLGLUTKIN-RXN : 1 ATP + 1 N-acetyl-L-glutamate --> 1 N-acetylglutamyl-phosphate + 1 ADP # EbN1_C24760 aa_arginine-syn_1.2.1.38_N-ACETYLGLUTPREDUCT-RXN : 1 NADP+ + 1 N-acetyl-L-glutamate_5-semialdehyde + 1 phosphate <=> 1 NADPH + 1 H+ + 1 N-acetylglutamyl-phosphate # EbN1_C05110 aa_arginine-syn_2.6.1.11_ACETYLORNTRANSAM-RXN : 1 2-oxoglutarate + 1 N-acetyl-L-ornithine <=> 1 L-glutamate + 1 N-acetyl-L-glutamate_5-semialdehyde # EbN1_C29190 aa_arginine-syn_2.3.1.35_GLUTAMATE-N-ACETYLTRANSFERASE-RXN : 1 L-glutamate + 1 N-acetyl-L-ornithine --> 1 L-ornithine + 1 N-acetyl-L-glutamate # EbN1_C07940 aa_arginine-syn_2.1.3.3_ORNCARBAMTRANSFER-RXN : 1 carbamoyl-phosphate + 1 L-ornithine <=> 1 H+ + 1 L-citrulline + 1 phosphate # EbN1_C29200 aa_arginine-syn_6.3.4.5_ARGSUCCINSYN-RXN : 1 ATP + 1 L-aspartate + 1 L-citrulline --> 1 L-arginino-succinate + 1 diphosphate + 1 AMP + 1 H+ # EbN1_C29210 aa_arginine-syn_4.3.2.1_ARGSUCCINLYA-RXN : 1 L-arginino-succinate <=> 1 fumarate + 1 L-arginine # EbN1_C06270 # --- Ser --- # aa_serine-syn_1.1.1.95_PGLYCDEHYDROG-RXN : 1 3-phospho-D-glycerate + 1 NAD+ <=> 1 NADH + 1 H+ + 1 3-phospho-hydroxypyruvate # EbN1_C39640 aa_serine-syn_2.6.1.52_PSERTRANSAM-RXN : 1 2-oxoglutarate + 1 3-phospho-L-serine <=> 1 3-phospho-hydroxypyruvate + 1 L-glutamate # EbN1_C05030 aa_serine-syn_3.1.3.3_RXN0-5114 : 1 3-phospho-L-serine + 1 H2O --> 1 L-serine + 1 phosphate # EbN1_C19730, EbN1_C34850 # --- Ser, Gly + folate --- # aa_serine/glycine_2.1.2.1_GLYOHMETRANS-RXN : 1 L-serine + 1 tetrahydrofolate <=> 1 H2O + 1 glycine + 1 5,10-methylenetetrahydrofolate # EbN1_C05590 aa_serine-metabolism_2.6.1.2_RXN-974 : 1 2-oxoglutarate + 1 L-serine <=> 1 L-glutamate + 1 hydroxypyruvate # EbN1_C28430 aa_glycine-cleavage_1.8.1.4_1.4.4.2_2.1.2.10_GCVMULTI-RXN : 1 tetrahydrofolate + 1 NAD+ + 1 glycine <=> 1 ammonium + 1 CO2 + 1 NADH + 1 5,10-methylenetetrahydrofolate # EbN1_C35370 # --- Cys --- # aa_cysteine-syn_2.3.1.30_SERINE-O-ACETTRAN-RXN : 1 acetyl-CoA + 1 L-serine --> 1 CoA + 1 O-acetyl-L-serine # EbN1_C37070 aa_cysteine-syn_2.5.1.47_ACSERLY-RXN : 1 O-acetyl-L-serine + 1 hydrogen_sulfide <=> 1 L-cysteine + 1 acetate + 1 H+ # EbN1_C04930, EbN1_C26700 # --- Homoserine, Homocysteine --- # precursor for Thr, Met, Lys, Ile aa_homoserine-syn_2.7.2.4_ASPARTATEKIN-RXN : 1 ATP + 1 L-aspartate --> 1 L-aspartyl-4-phosphate + 1 ADP # EbN1_C03400 aa_homoserine-syn_1.2.1.11_ASPARTATE-SEMIALDEHYDE-DEHYDROGENASE-RXN : 1 L-aspartate-semialdehyde + 1 phosphate + 1 NADP+ <=> 1 NADPH + 1 L-aspartyl-4-phosphate + 1 H+ # EbN1_C27200 aa_homoserine-syn_1.1.1.3_HOMOSERDEHYDROG-RXN_NADP : 1 H+ + 1 NADPH + 1 L-aspartate-semialdehyde --> 1 NADP+ + 1 L-homoserine # EbN1_C28440 aa_homoserine-syn_1.1.1.3_HOMOSERDEHYDROG-RXN_NAD : 1 H+ + 1 NADH + 1 L-aspartate-semialdehyde --> 1 NAD+ + 1 L-homoserine # EbN1_C28440 aa_homocysteine-syn_2.3.1.46_BR44047 : 1 L-homoserine + 1 succinyl-CoA <=> 1 O-succinyl-L-homoserine + 1 CoA # EbN1_C15900 aa_homocysteine-syn_2.5.1.49_ACETYLHOMOSER-CYS-RXN : 1 hydrogen_sulfide + 1 O-acetyl-L-homoserine <=> 1 L-homocysteine + 1 H+ + 1 acetate # EbN1_C27860, EbN1_C36440 aa_homocysteine-syn_2.5.1.49_RXN-9384 : 1 O-succinyl-L-homoserine + 1 hydrogen_sulfide --> 1 succinate + 1 H+ + 1 L-homocysteine # EbN1_C27860, EbN1_C36440 # --- Thr --- # aa_threonine-syn_2.7.1.39_HOMOSERKIN-RXN : 1 ATP + 1 L-homoserine --> 1 ADP + 1 O-phospho-L-homoserine + 1 H+ # EbN1_C22750 aa_threonine-syn_4.2.3.1_THRESYN-RXN : 1 H2O + 1 O-phospho-L-homoserine --> 1 L-threonine + 1 phosphate # EbN1_C28470 # --- Met --- # aa_methionine-syn_2.1.1.13_HOMOCYSMETB12-RXN : 1 5-methyl-tetrahydrofolate + 1 L-homocysteine --> 1 L-methionine + 1 tetrahydrofolate # EbN1_C18060 aa_methionine-syn_4.4.1.13_CYSTATHIONINE-BETA-LYASE-RXN : 1 L-cystathionine + 1 H2O --> 1 ammonium + 1 L-homocysteine + 1 pyruvate # EbN1_C22120, EbN1_C26270 # --- Lys --- # aa_lysine-syn_4.3.3.7_DIHYDRODIPICSYN-RXN : 1 L-aspartate-semialdehyde + 1 pyruvate --> 1 H+ + 1 H2O + 1 (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate # EbN1_C04110 aa_lysine-syn_1.17.1.8_RXN-14014 : 1 (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + 1 NADPH + 1 H+ --> 1 H2O + 1 (S)-2,3,4,5-tetrahydrodipicolinate + 1 NADP+ # EbN1_C27490 aa_lysine-syn_2.6.1.83_BR48748,BS424856 : 1 L,L-diaminopimelate + 1 2-oxoglutarate <=> 1 (S)-2,3,4,5-tetrahydrodipicolinate + 1 L-glutamate + 1 H2O + 1 H+ # EbN1_C36910 aa_lysine-syn_5.1.1.7_DIAMINOPIMEPIM-RXN : 1 L,L-diaminopimelate <=> 1 meso-diaminopimelate # EbN1_C22600 aa_lysine-syn_4.1.1.20_DIAMINOPIMDECARB-RXN : 1 meso-diaminopimelate + 1 H+ --> 1 L-lysine + 1 CO2 # EbN1_C12670 # --- Val, Leu --- # aa_valine-syn_2.2.1.6_ACETOLACTSYN-RXN : 1 H+ + 2 pyruvate --> 1 CO2 + 1 (S)-2-acetolactate # EbN1_C27120, EbN1_C27130, EbN1_C40870, EbN1_C40880 aa_valine-syn_1.1.1.86_ACETOLACTREDUCTOISOM-RXN : 1 (R)-2,3-dihydroxy-3-methylbutanoate + 1 NADP+ <=> 1 (S)-2-acetolactate + 1 NADPH + 1 H+ # EbN1_C40890 aa_valine-syn_4.2.1.9_DIHYDROXYISOVALDEHYDRAT-RXN : 1 (R)-2,3-dihydroxy-3-methylbutanoate --> 1 3-methyl-2-oxobutanoate + 1 H2O # EbN1_C02460, EbN1_C10020, EbN1_C39100 aa_valine-metabolism_2.6.1.42_BRANCHED-CHAINAMINOTRANSFERVAL-RXN : 1 2-oxoglutarate + 1 L-valine <=> 1 L-glutamate + 1 3-methyl-2-oxobutanoate # EbN1_C05360 # --- Leu --- # aa_leucine-syn_2.3.3.13_2-ISOPROPYLMALATESYN-RXN : 1 acetyl-CoA + 1 H2O + 1 3-methyl-2-oxobutanoate --> 1 CoA + 1 H+ + 1 (2S)-2-isopropylmalate # EbN1_C41010 aa_leucine-syn_4.2.1.33_RXN-13163 : 1 (2R,3S)-3-isopropylmalate <=> 1 (2S)-2-isopropylmalate # EbN1_C27170, EbN1_C27180 aa_leucine-syn_1.1.1.85_3-ISOPROPYLMALDEHYDROG-RXN : 1 (2R,3S)-3-isopropylmalate + 1 NAD+ <=> 1 H+ + 1 NADH + 1 4-methyl-2-oxopentanoate # EbN1_C27190 aa_leucine-metabolism_2.6.1.42_BRANCHED-CHAINAMINOTRANSFERLEU-RXN : 1 2-oxoglutarate + 1 L-leucine <=> 1 L-glutamate + 1 4-methyl-2-oxopentanoate # EbN1_C05360 # --- Ile --- # aa_threonine-degradation_isoleucine-syn_4.3.1.19_THREDEHYD-RXN : 1 L-threonine --> 1 ammonium + 1 2-oxobutanoate # EbN1_C19290, EbN1_C19720 aa_isoleucine-syn_2.2.1.6_ACETOOHBUTSYN-RXN : 1 2-oxobutanoate + 1 H+ + 1 pyruvate --> 1 2-aceto-2-hydroxy-butanoate + 1 CO2 # EbN1_C27120, EbN1_C27130, EbN1_C40870, EbN1_C40880 aa_isoleucine-syn_1.1.1.86_ACETOOHBUTREDUCTOISOM-RXN : 1 2,3-dihydroxy-3-methylvalerate + 1 NADP+ <=> 1 NADPH + 1 2-aceto-2-hydroxy-butanoate + 1 H+ # EbN1_C40890 aa_isoleucine-syn_4.2.1.9_DIHYDROXYMETVALDEHYDRAT-RXN : 1 2,3-dihydroxy-3-methylvalerate --> 1 (S)-3-methyl-2-oxopentanoate + 1 H2O # EbN1_C02460, EbN1_C10020, EbN1_C39100 aa_isoleucine-metabolism_2.6.1.42_BRANCHED-CHAINAMINOTRANSFERILEU-RXN : 1 L-isoleucine + 1 2-oxoglutarate <=> 1 L-glutamate + 1 (S)-3-methyl-2-oxopentanoate # EbN1_C05360 aa_isoleucine-metabolism_1.2.4.4_2KETO-3METHYLVALERATE-RXN : 1 (S)-3-methyl-2-oxopentanoate + 1 CoA + 1 NAD+ --> 1 CO2 + 1 2-methylbutanoyl-CoA + 1 NADH # EbN1_C12220, EbN1_C12230 # --- aromatic amino acids, Tyr, Trp --- # aa_chorismate-syn_2.5.1.55_DAHPSYN-RXN : 1 D-erythrose_4-phosphate + 1 H2O + 1 phosphoenolpyruvate --> 1 3-deoxy-D-arabino-heptulosonate-7-phosphate + 1 phosphate # EbN1_C35600 aa_chorismate-syn_4.2.3.4_3-DEHYDROQUINATE-SYNTHASE-RXN : 1 3-deoxy-D-arabino-heptulosonate-7-phosphate --> 1 phosphate + 1 3-dehydroquinate # EbN1_C12580 aa_chorismate-syn_4.2.1.10_3-DEHYDROQUINATE-DEHYDRATASE-RXN : 1 3-dehydroquinate <=> 1 3-dehydroshikimate + 1 H2O # EbN1_C01270, EbN1_C08220 aa_chorismate-syn_1.1.1.25_RXN-7968_NADP : 1 NADPH + 1 3-dehydroshikimate + 1 H+ --> 1 shikimate + 1 NADP+ # EbN1_C09540 aa_chorismate-syn_2.7.1.71_SHIKIMATE-KINASE-RXN : 1 shikimate + 1 ATP --> 1 shikimate_3-phosphate + 1 H+ + 1 ADP # EbN1_C12590 aa_chorismate-syn_2.5.1.19_2.5.1.19-RXN : 1 phosphoenolpyruvate + 1 shikimate_3-phosphate <=> 1 phosphate + 1 5-enolpyruvyl-shikimate_3-phosphate # EbN1_C05000 aa_chorismate-syn_4.2.3.5_CHORISMATE-SYNTHASE-RXN : 1 5-enolpyruvyl-shikimate_3-phosphate <=> 1 chorismate + 1 phosphate # EbN1_C27140 # --- Phe, Tyr --- # aa_phenylalanine/tyrosine-syn_5.4.99.5_CHORISMATEMUT-RXN : 1 chorismate <=> 1 prephenate # EbN1_C05020 aa_phenylalanine-syn_4.2.1.51_PREPHENATEDEHYDRAT-RXN : 1 prephenate + 1 H+ --> 1 H2O + 1 CO2 + 1 2-oxo-3-phenylpropanoate # EbN1_C05020 aa_phenylalanine-metabolism_2.6.1.57_PHEAMINOTRANS-RXN : 1 2-oxo-3-phenylpropanoate + 1 L-glutamate <=> 1 L-phenylalanine + 1 2-oxoglutarate # EbN1_C03170 aa_tyrosine-syn_1.3.1.12_PREPHENATEDEHYDROG-RXN : 1 NAD+ + 1 prephenate --> 1 4-hydroxyphenylpyruvate + 1 NADH + 1 CO2 # EbN1_C05010 aa_tyrosine-metabolism_2.6.1.57_TYROSINE-AMINOTRANSFERASE-RXN : 1 L-tyrosine + 1 2-oxoglutarate <=> 1 4-hydroxyphenylpyruvate + 1 L-glutamate # EbN1_C03170 # --- Trp --- # aa_tryptophan-syn_4.1.3.27_ANTHR_SYNTH-RXN: 1 chorismate + 1 L-glutamine --> 1 anthranilate + 1 pyruvate + 1 L-glutamate aa_tryptophan-syn_2.4.2.18_PRTRANS-RXN : 1 N-(5-phosphoribosyl)-anthranilate + 1 diphosphate <=> 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 anthranilate # EbN1_C24000 aa_tryptophan-syn_5.3.1.24_PRAISOM-RXN : 1 N-(5-phosphoribosyl)-anthranilate --> 1 1-(o-carboxyphenylamino)-1'-deoxyribulose_5'-phosphate # EbN1_C27240 aa_tryptophan-syn_4.1.1.48_IGPSYN-RXN : 1 1-(o-carboxyphenylamino)-1'-deoxyribulose_5'-phosphate + 1 H+ --> 1 H2O + 1 (1S,2R)-1-C-(indol-3-yl)glycerol_3-phosphate + 1 CO2 # EbN1_C24010 aa_tryptophan-syn_4.2.1.20_TRYPSYN-RXN : 1 (1S,2R)-1-C-(indol-3-yl)glycerol_3-phosphate + 1 L-serine --> 1 D-glyceraldehyde_3-phosphate + 1 H2O + 1 L-tryptophan # EbN1_C23500, EbN1_C27250, EbN1_C27260 # --- His --- # aa_histidine-syn_2.4.2.17_ATPPHOSPHORIBOSYLTRANS-RXN : 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 H+ + 1 ATP --> 1 1-(5-phospho-beta-D-ribosyl)-ATP + 1 diphosphate # EbN1_C06770, EbN1_C07110 aa_histidine-syn_3.6.1.31_HISTPRATPHYD-RXN : 1 1-(5-phospho-beta-D-ribosyl)-ATP + 1 H2O --> 2 H+ + 1 diphosphate + 1 1-(5-phospho-beta-D-ribosyl)-AMP # EbN1_C07030 aa_histidine-syn_3.5.4.19_HISTCYCLOHYD-RXN : 1 1-(5-phospho-beta-D-ribosyl)-AMP + 1 H2O --> 1 1-(5-phospho-beta-D-ribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide # EbN1_C07040 aa_histidine-syn_5.3.1.16_PRIBFAICARPISOM-RXN : 1 1-(5-phospho-beta-D-ribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide --> 1 phosphoribulosylformimino-AICAR-phosphate # EbN1_C07060 aa_histidine-syn_4.3.2.10_GLUTAMIDOTRANS-RXN : 1 L-glutamine + 1 phosphoribulosylformimino-AICAR-phosphate --> 1 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide + 1 D-erythro-1-(imidazol-4-yl)-glycerol_3-phosphate + 1 L-glutamate + 1 H+ # EbN1_C07050, EbN1_C07070 aa_histidine-syn_4.2.1.19_IMIDPHOSDEHYD-RXN : 1 D-erythro-1-(imidazol-4-yl)-glycerol_3-phosphate --> 1 3-(imidazol-4-yl)-2-oxopropyl_phosphate + H2O # EbN1_C07080 aa_histidine-syn_2.6.1.9_HISTAMINOTRANS-RXN : 1 3-(imidazol-4-yl)-2-oxopropyl_phosphate + 1 L-glutamate <=> 1 L-histidinol-phosphate + 1 2-oxoglutarate # EbN1_C07090 aa_histidine-syn_3.1.3.25_HISTIDPHOS-RXN : 1 L-histidinol-phosphate + 1 H2O --> 1 phosphate + 1 histidinol # EbN1_C05880, EbN1_C37090 aa_histidine-syn_1.1.1.23_HISTOLDEHYD-RXN : 1 histidinol + 1 NAD+ --> 1 NADH + 1 H+ + 1 histidinal # EbN1_C07100 aa_histidine-syn_1.1.1.23_HISTALDEHYD-RXN : 1 NAD+ + 1 histidinal + 1 H2O --> 2 H+ + 1 NADH + 1 L-histidine # EbN1_C07100 # --- Degradation --- # serine-degradation_1.1.1.86_HYDROXYPYRUVATE-REDUCTASE-RXN_NADP : 1 NADP+ + 1 D-glycerate <=> 1 hydroxypyruvate + 1 NADPH + 1 H+ # EbN1_C40890 arginine-degradation_2.6.1.13_ORNITHINE-GLU-AMINOTRANSFORASE-RXN : 1 2-oxoglutarate + 1 L-ornithine --> 1 L-glutamate-5-semialdehyde + 1 L-glutamate # EbN1_C20600 arginine-degradation_2.6.1.13_ORNITHINELYSINE-AMINOTRANSFERASE-RXN : 1 L-ornithine + 1 2-oxoglutarate --> 1 H+ + 1 (S)-1-pyrroline-5-carboxylate + 1 L-glutamate + 1 H2O # EbN1_C20600 proline-degradation_1.5.5.2_RXN0-7008 : 1 L-proline + 1 ubiquinone-8 --> 1 (S)-1-pyrroline-5-carboxylate + 1 H+ + 1 ubiquinol-8 # EbN1_C02910 proline-/arginine-degradation_1.2.1.88_RXN-14116 : 1 L-glutamate-5-semialdehyde + 1 NAD+ + 1 H2O --> 1 L-glutamate + 1 NADH + 2 H+ # EbN1_C02910 histidine-degradation_4.3.1.3_HISTIDINE-AMMONIA-LYASE-RXN : 1 L-histidine --> 1 ammonium + 1 urocanate # EbN1_C33010 histidine-degradation_4.2.1.49_UROCANATE-HYDRATASE-RXN : 1 urocanate + 1 H2O --> 1 4-imidazolone-5-propionate # EbN1_C33000 histidine-degradation_3.5.2.7_IMIDAZOLONEPROPIONASE-RXN : 1 4-imidazolone-5-propionate + 1 H2O --> 1 N-formimino-L-glutamate # EbN1_C32990 histidine-degradation_3.5.3.8_FORMIMINOGLUTAMASE-RXN : 1 N-formimino-L-glutamate + 1 H2O --> 1 formamide + 1 L-glutamate # EbN1_C32980 isoleucine-degradation_2-methylbutyrate-syn_1.1.1.36_RXN : 1 NAD+ + 1 2-methyl-3-hydroxybutanoyl-CoA <=> 1 H+ + 1 NADH + 1 2-methylacetoacetyl-CoA # EbN1_C26970, EbN1_C26990 isoleucine-degradation_2-methylbutyrate-syn_2.3.1.9_2.3.1.16_METHYLACETOACETYLCOATHIOL-RXN : 1 2-methylacetoacetyl-CoA + 1 CoA <=> 1 propanoyl-CoA + 1 acetyl-CoA # EbN1_C12940, EbN1_C29830, EbN1_PII01880, EbN1_PII01950 isoleucine-degradation_2-methylbutyrate-syn_4.2.1.17_TIGLYLCOA-HYDROXY-RXN : 1 2-methyl-3-hydroxybutanoyl-CoA <=> 1 (E)-2-methylcrotonoyl-CoA + 1 H2O # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 leucine-degradation_1.2.4.4_2KETO-4METHYL-PENTANOATE-DEHYDROG-RXN : 1 4-methyl-2-oxopentanoate + 1 CoA + 1 NAD+ --> 1 isovaleryl-CoA + 1 NADH + 1 CO2 # EbN1_C12220, EbN1_C12230 leucine-degradation_1.3.8.4_RXN0-2301 : 1 isovaleryl-CoA + 1 ETF-Oxidized --> 1 ETF-Reduced + 1 3-methylcrotonyl-CoA # EbN1_C26590 leucine-degradation_4.2.1.18_METHYLGLUTACONYL-COA-HYDRATASE-RXN : 1 (S)-3-hydroxy-3-methylglutaryl-CoA <=> 1 H2O + 1 3-methylglutaconyl-CoA # EbN1_C20780 leucine-degradation_6.4.1.4_METHYLCROTONYL-COA-CARBOXYLASE-RXN : 1 3-methylcrotonyl-CoA + 1 ATP + 1 bicarbonate --> 1 H+ + 1 3-methylglutaconyl-CoA + 1 ADP + 1 phosphate # EbN1_C26600, EbN1_C26610 # ========== Nucleotide synthesis ========== # # --- Purines --- # nuc-purine_5-aminoimidazole-ribonucleotide-syn_2.4.2.14_PRPPAMIDOTRANS-RXN : 1 diphosphate + 1 5-phospho-beta-D-ribosylamine + 1 L-glutamate <=> 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 H2O + 1 L-glutamine # EbN1_C27310 nuc-purine_5-aminoimidazole-ribonucleotide-syn_6.3.4.13_GLYRIBONUCSYN-RXN : 1 5-phospho-beta-D-ribosylamine + 1 ATP + 1 glycine --> 1 N1-(5-phospho-beta-D-ribosyl)glycinamide + 1 ADP + 1 phosphate + 1 H+ # EbN1_C06190 nuc-purine_5-aminoimidazole-ribonucleotide-syn_2.1.2.2_GART-RXN : 1 10-formyl-tetrahydrofolate + 1 N1-(5-phospho-beta-D-ribosyl)glycinamide <=> 1 tetrahydrofolate + 1 H+ + 1 N2-formyl-N1-(5-phospho-beta-D-ribosyl)glycinamide # EbN1_C03490 nuc-purine_5-aminoimidazole-ribonucleotide-syn_6.3.5.3_FGAMSYN-RXN : 1 H2O + 1 ATP + 1 N2-formyl-N1-(5-phospho-beta-D-ribosyl)glycinamide + 1 L-glutamine --> 1 2-(formamido)-N1-(5-phospho-beta-D-ribosyl)acetamidine + 1 ADP + 1 L-glutamate + 1 phosphate + 1 H+ # EbN1_C35500 nuc-purine_5-aminoimidazole-ribonucleotide-syn_6.3.3.1_AIRS-RXN : 1 ATP + 1 2-(formamido)-N1-(5-phospho-beta-D-ribosyl)acetamidine --> 1 5-amino-1-(5-phospho-beta-D-ribosyl)imidazole + 1 ADP + 1 phosphate + 1 H+ # EbN1_C40730 nuc-purine_inosine-5'-phosphate-syn_6.3.4.18_RXN0-742 : 1 bicarbonate + 1 ATP + 1 5-amino-1-(5-phospho-beta-D-ribosyl)imidazole --> 1 N5-carboxyaminoimidazole_ribonucleotide + 1 ADP + 1 phosphate + 2 H+ # EbN1_C00620 nuc-purine_inosine-5'-phosphate-syn_5.4.99.18_RXN0-743 : 1 N5-carboxyaminoimidazole_ribonucleotide <=> 1 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate # EbN1_C00630 nuc-purine_inosine-5'-phosphate-syn_6.3.2.6_SAICARSYN-RXN : 1 ATP + 1 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate + 1 L-aspartate --> 1 phosphate + 1 ADP + 1 5'-phosphoribosyl-4-(N-succinocarboxamide)-5-aminoimidazole + 1 H+ # EbN1_C06030 nuc-purine_inosine-5'-phosphate-syn_4.3.2.2_AICARSYN-RXN : 1 5'-phosphoribosyl-4-(N-succinocarboxamide)-5-aminoimidazole <=> 1 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide + 1 fumarate # EbN1_C07850 nuc-purine_inosine-5'-phosphate-syn_2.1.2.3_AICARTRANSFORM-RXN : 1 10-formyl-tetrahydrofolate + 1 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide <=> 1 tetrahydrofolate + 1 5-formamido-1-(5-phospho-D-ribosyl)-imidazole-4-carboxamide # EbN1_C06180 nuc-purine_inosine-5'-phosphate-syn_3.5.4.10_IMPCYCLOHYDROLASE-RXN : 1 IMP + 1 H2O <=> 1 5-formamido-1-(5-phospho-D-ribosyl)-imidazole-4-carboxamide # EbN1_C06180 nuc-purine_adenosine-ribonucleotides-de-novo-syn_6.3.4.4_ADENYLOSUCCINATE-SYNTHASE-RXN : 1 GTP + 1 L-aspartate + 1 IMP --> 1 phosphate + 2 H+ + 1 adenylo-succinate + 1 GDP # EbN1_C06760 nuc-purine_adenosine-ribonucleotides-de-novo-syn_4.3.2.2_AMPSYN-RXN : 1 adenylo-succinate <=> 1 fumarate + 1 AMP # EbN1_C07850 nuc-purine_adenosine-deoxyribonucleotides-de-novo-syn_1.17.4.1_ADPREDUCT-RXN : 1 ADP + 1 reduced-thioredoxin --> 1 dADP + 1 H2O + 1 oxidized-thioredoxin # EbN1_C27800 nuc-purine_nucleotides-metabolism_1.1.1.205_IMP-DEHYDROG-RXN : 1 NAD+ + 1 H2O + 1 IMP <=> 1 XMP + 1 NADH + 1 H+ # EbN1_C38370 nuc-purine_guanosine-ribonucleotides-de-novo-syn_6.3.5.2_GMP-SYN-GLUT-RXN : 1 L-glutamine + 1 H2O + 1 XMP + 1 ATP --> 1 AMP + 1 L-glutamate + 1 GMP + 2 H+ + 1 diphosphate # EbN1_C38360 nuc-purine_guanosine-deoxyribonucleotides-de-novo-syn_1.17.4.1_GDPREDUCT-RXN : 1 reduced-thioredoxin + 1 GDP --> 1 H2O + 1 dGDP + 1 oxidized-thioredoxin # EbN1_C27800 nuc-purine_GMP-phosphorylation_2.7.4.8_GUANYL-KIN-RXN : 1 ATP + 1 GMP <=> 1 GDP + 1 ADP # EbN1_C19860 nuc-purine_GDP-phosphorylation_2.7.4.6_GDPKIN-RXN : 1 ATP + 1 GDP --> 1 GTP + 1 ADP # EbN1_C06910 nuc-purine_AMP-phosphorylation_2.7.4.3_ADENYL-KIN-RXN : 1 ATP + 1 AMP --> 2 ADP # EbN1_C29120 nuc-purine_ribonucleotide-interconversion_2.7.4.6_RXN-14120 : 1 inosine_diphosphate + 1 ATP --> 1 ITP + 1 ADP # EbN1_C06910 nuc-purine_deoxyribonucleotide-phosphorylation_2.7.4.3_DEOXYADENYLATE-KINASE-RXN : 1 ATP + 1 dAMP --> 1 dADP + 1 ADP # EbN1_C29120 nuc-purine_deoxyribonucleotide-phosphorylation_2.7.4.6_DADPKIN-RXN : 1 ATP + 1 dADP --> 1 dATP + 1 ADP # EbN1_C06910 nuc-purine_deoxyribonucleotide-phosphorylation_2.7.4.8_GMKALT-RXN : 1 ATP + 1 dGMP --> 1 dGDP + 1 ADP # EbN1_C19860 nuc-purine_deoxyribonucleotide-phosphorylation_2.7.4.6_DGDPKIN-RXN : 1 ATP + 1 dGDP --> 1 dGTP + 1 ADP # EbN1_C06910 nuc-purine_deoxyribonucleotide-phosphorylation_2.7.4.6_RXN-14228 : 1 deoxyinosine_diphosphate + 1 ATP <=> 1 dITP + 1 ADP # EbN1_C06910 nuc-purine_nucleotides-salvage_2.4.2.1_INOPHOSPHOR-RXN : 1 inosine + 1 phosphate <=> 1 alpha-D-ribose-1-phosphate + 1 hypoxanthine # EbN1_C26940 nuc-purine_nucleotides-salvage_2.4.2.1_RXN0-5199 : 1 guanosine + 1 phosphate <=> 1 guanine + 1 alpha-D-ribose-1-phosphate # EbN1_C26940 nuc-purine_nucleotides-salvage_2.4.2.1_XANTHOSINEPHOSPHORY-RXN : 1 phosphate + 1 xanthosine <=> 1 xanthine + 1 alpha-D-ribose-1-phosphate # EbN1_C26940 nuc-purine_nucleotides-salvage_2.7.1.20_ADENOSINE-KINASE-RXN : 1 adenosine + 1 ATP --> 1 AMP + 1 ADP + 1 H+ # EbN1_C08300 nuc-purine_nucleotides-salvage_2.4.2.8_HYPOXANPRIBOSYLTRAN-RXN : 1 IMP + 1 diphosphate <=> 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 hypoxanthine # EbN1_C18770 nuc-purine_nucleotides-salvage_2.4.2.1_ADENPHOSPHOR-RXN : 1 phosphate + 1 adenosine <=> 1 alpha-D-ribose-1-phosphate + 1 adenine # EbN1_C26940 nuc-purine_nucleotides-salvage_2.4.2.8_GUANPRIBOSYLTRAN-RXN : 1 diphosphate + 1 GMP <=> 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 guanine # EbN1_C18770 nuc-purine_nucleotides-salvage_2.7.1.113_DEOXYGUANOSINE-KINASE-RXN : 1 ATP + 1 2'-deoxyguanosine --> 1 H+ + 1 dGMP + 1 ADP # EbN1_C40790 nuc-purine_nucleotides-salvage_2.4.2.28_RXN-14304 : 1 5'-deoxyadenosine + 1 phosphate <=> 1 5-deoxy-D-ribose_1-phosphate + 1 adenine # EbN1_C26940 nuc-purine_nucleotides-salvage_5.3.1.23_RXN-21315 : 1 5-deoxy-D-ribose_1-phosphate <=> 1 5-deoxy-D-ribulose_1-phosphate # EbN1_C22280 nuc-purine_nucleotides-salvage_4.1.2.62_BR53088 : 1 5-deoxy-D-ribulose_1-phosphate <=> 1 dihydroxyacetone_phosphate + 1 acetaldehyde # EbN1_C22270 nuc-purine_guanosine-nucleotides-degradation_3.1.3.5_RXN-7609 : 1 H2O + 1 GMP --> 1 phosphate + 1 guanosine # EbN1_C04170 nuc-purine_guanosine-nucleotides-degradation_3.5.4.3_GUANINE-DEAMINASE-RXN : 1 guanine + 1 H+ + 1 H2O --> 1 xanthine + 1 ammonium # EbN1_C26660 nuc-purine_deoxyribonucleosides-degradation_2.4.2.1_DEOXYADENPHOSPHOR-RXN : 1 2'-deoxyadenosine + 1 phosphate <=> 1 2-deoxy-alpha-D-ribose_1-phosphate + 1 adenine # EbN1_C26940 nuc-purine_deoxyribonucleosides-degradation_2.4.2.1_DEOXYGUANPHOSPHOR-RXN : 1 2'-deoxyguanosine + 1 phosphate <=> 1 guanine + 1 2-deoxy-alpha-D-ribose_1-phosphate # EbN1_C26940 nuc-purine_deoxyribonucleosides-degradation_2.4.2.1_DEOXYINOPHOSPHOR-RXN : 1 2'-deoxyinosine + 1 phosphate <=> 1 hypoxanthine + 1 2-deoxy-alpha-D-ribose_1-phosphate # EbN1_C26940 nuc-purine_deoxyribonucleosides-degradation_3.1.3.5_RXN-14142 : 1 dGMP + 1 H2O --> 1 2'-deoxyguanosine + 1 phosphate # EbN1_C04170 nuc-purine_deoxyribonucleosides-degradation_3.1.3.5_RXN-14161 : 1 dAMP + 1 H2O --> 1 phosphate + 1 2'-deoxyadenosine # EbN1_C04170 nuc-purine_interconversion-and-salvage_2.4.2.28_5-METHYLTHIOADENOSINE-PHOSPHORYLASE-RXN : 1 5'-S-methyl-5'-thioadenosine + 1 phosphate --> 1 adenine + 1 S-methyl-5-thio-alpha-D-ribose_1-phosphate # EbN1_C26940 nuc-purine_interconversion-and-salvage_2.4.2.8_XANPRIBOSYLTRAN-RXN : 1 xanthine + 1 5-phospho-alpha-D-ribose_1-diphosphate --> 1 diphosphate + 1 XMP # EbN1_C18770 nuc-purine_interconversion-and-salvage_5.3.1.23_5.3.1.23-RXN : 1 S-methyl-5-thio-alpha-D-ribose_1-phosphate --> 1 S-methyl-5-thio-D-ribulose_1-phosphate # EbN1_C22280 # --- Pyrimidines --- # nuc-pyrimidine_UMP-syn_2.1.3.2_ASPCARBTRANS-RXN : 1 carbamoyl-phosphate + 1 L-aspartate <=> 1 H+ + 1 phosphate + 1 N-carbamoyl-L-aspartate # EbN1_C09690 nuc-pyrimidine_UMP-syn_3.5.2.3_DIHYDROOROT-RXN : 1 (S)-dihydroorotate + 1 H2O <=> 1 H+ + 1 N-carbamoyl-L-aspartate # EbN1_C08150 nuc-pyrimidine_UMP-syn_1.3.5.2_RXN0-6491 : 1 ubiquinone-8 + 1 (S)-dihydroorotate --> 1 ubiquinol-8 + 1 orotate # EbN1_C28060 nuc-pyrimidine_UMP-syn_2.4.2.10_OROPRIBTRANS-RXN : 1 diphosphate + 1 orotidine_5'-phosphate <=> 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 orotate # EbN1_C18900 nuc-pyrimidine_UMP-syn_4.1.1.23_OROTPDECARB-RXN : 1 H+ + 1 orotidine_5'-phosphate --> 1 UMP + 1 CO2 # EbN1_C12790 nuc-pyrimidine_UTP-and-CTP-de-novo-syn_2.7.4.22_RXN-12002 : 1 ATP + 1 UMP --> 1 UDP + 1 ADP # EbN1_C34550 nuc-pyrimidine_UTP-and-CTP-de-novo-syn_2.7.4.6_UDPKIN-RXN : 1 ATP + 1 UDP --> 1 ADP + 1 UTP # EbN1_C06910 nuc-pyrimidine_UTP-and-CTP-de-novo-syn_3.1.3.5_RXN-14025 : 1 UMP + 1 H2O --> 1 uridine + 1 phosphate # EbN1_C04170 nuc-pyrimidine_UTP-and-CTP-de-novo-syn_6.3.4.2_CTPSYN-RXN : 1 ATP + 1 UTP + 1 L-glutamine + 1 H2O --> 1 phosphate + 2 H+ + 1 L-glutamate + 1 CTP + 1 ADP # EbN1_C35590 nuc-pyrimidine_deoxyribonucleotides-de-novo-syn_1.17.4.1_CDPREDUCT-RXN : 1 CDP + 1 reduced-thioredoxin --> 1 dCDP + 1 H2O + 1 oxidized-thioredoxin # EbN1_C27800 nuc-pyrimidine_deoxyribonucleotides-de-novo-syn_1.17.4.1_UDPREDUCT-RXN : 1 UDP + 1 reduced-thioredoxin --> 1 dUDP + 1 oxidized-thioredoxin + 1 H2O # EbN1_C27800 nuc-pyrimidine_deoxyribonucleotides-de-novo-syn_2.1.1.45_THYMIDYLATESYN-RXN : 1 dUMP + 1 5,10-methylenetetrahydrofolate --> 1 dTMP + 1 7,8-dihydrofolate # EbN1_C25290 nuc-pyrimidine_CMP-phosphorylation_2.7.4.3_RXN-11832 : 1 CMP + 1 ATP <=> 1 CDP + 1 ADP # EbN1_C29120 nuc-pyrimidine_CDP-phosphorylation_2.7.4.6_CDPKIN-RXN : 1 ATP + 1 CDP <=> 1 CTP + 1 ADP # EbN1_C06910 nuc-pyrimidine_deoxyribonucleotide-phosphorylation_2.7.4.3_RXN-7913 : 1 ATP + 1 dCMP --> 1 dCDP + 1 ADP # EbN1_C29120 nuc-pyrimidine_deoxyribonucleotide-phosphorylation_2.7.4.6_DCDPKIN-RXN : 1 ATP + 1 dCDP --> 1 dCTP + 1 ADP # EbN1_C06910 nuc-pyrimidine_deoxyribonucleotide-phosphorylation_2.7.4.22_2.7.4.9_2.7.4.3_RXN-14122 : 1 ATP + 1 dUMP <=> 1 dUDP + 1 ADP # EbN1_C34550 nuc-pyrimidine_deoxyribonucleotide-phosphorylation_2.7.4.6_DUDPKIN-RXN : 1 ATP + 1 dUDP --> 1 dUTP + 1 ADP # EbN1_C06910 nuc-pyrimidine_deoxyribonucleotide-phosphorylation_2.7.4.9_DTMPKI-RXN : 1 ATP + 1 dTMP --> 1 dTDP + 1 ADP # EbN1_C31090 nuc-pyrimidine_deoxyribonucleotide-phosphorylation_2.7.4.6_DTDPKIN-RXN : 1 ATP + 1 dTDP --> 1 ADP + 1 dTTP # EbN1_C06910 nuc-pyrimidine_deoxyribonucleotides_3.6.1.23_DUTP-PYROP-RXN : 1 dUTP + 1 H2O --> 1 H+ + 1 dUMP + 1 diphosphate # EbN1_C04500 nuc-pyrimidine_deoxyribonucleotides-dephosphorylation_3.6.1.23_RXN-14220 : 1 dUDP + 1 H2O --> 1 phosphate + 1 H+ + 1 dUMP # EbN1_C04500 nuc-pyrimidine_deoxyribonucleotides-dephosphorylation_3.6.1.55_DCTP-PYROPHOSPHATASE-RXN : 1 dCTP + 1 H2O --> 1 H+ + 1 diphosphate + 1 dCMP # EbN1_C23460 nuc-pyrimidine_nucleobases-salvage_2.4.2.9_URACIL-PRIBOSYLTRANS-RXN : 1 diphosphate + 1 UMP <=> 1 uracil + 1 5-phospho-alpha-D-ribose_1-diphosphate # EbN1_C09680 nuc-pyrimidine_deoxyribonucleosides-degradation_3.1.3.5_RXN-14143 : 1 dUMP + 1 H2O --> 1 phosphate + 1 2'-deoxyuridine # EbN1_C04170 nuc-pyrimidine_deoxyribonucleosides-degradation_3.1.3.5_RXN0-5292 : 1 dCMP + 1 H2O --> 1 phosphate + 1 2'-deoxycytidine # EbN1_C04170 nuc-pyrimidine_deoxyribonucleotides-syn_3.5.4.13_DCTP-DEAM-RXN : 1 H+ + 1 dCTP + 1 H2O --> 1 ammonium + 1 dUTP # EbN1_C25260 # ========== Isoprenoid biosynthesis ========== # # --- methylerythritol phosphate --- # ˏ ip_methylerythritol-phosphate-pathway_thiazole/pyridoxal-5'-phosphate-syn_2.2.1.7_DXS-RXN : 1 D-glyceraldehyde_3-phosphate + 1 H+ + 1 pyruvate --> 1 CO2 + 1 1-deoxy-D-xylulose_5-phosphate # EbN1_C25360 ip_methylerythritol-phosphate-pathway_1.1.1.267_DXPREDISOM-RXN : 1 NADPH + 1 H+ + 1 1-deoxy-D-xylulose_5-phosphate <=> 1 NADP+ + 1 2-C-methyl-D-erythritol_4-phosphate # EbN1_C34590 ip_methylerythritol-phosphate-pathway_2.7.7.60_2.7.7.60-RXN : 1 CTP + 1 2-C-methyl-D-erythritol_4-phosphate + 1 H+ --> 1 diphosphate + 1 4-(cytidine_5'-diphospho)-2-C-methyl-D-erythritol # EbN1_C37830 ip_methylerythritol-phosphate-pathway_2.7.1.148_2.7.1.148-RXN : 1 4-(cytidine_5'-diphospho)-2-C-methyl-D-erythritol + 1 ATP --> 1 H+ + 1 ADP + 1 2-phospho-4-(cytidine_5'-diphospho)-2-C-methyl-D-erythritol # EbN1_C07750 ip_methylerythritol-phosphate-pathway_4.6.1.12_RXN0-302 : 1 2-phospho-4-(cytidine_5'-diphospho)-2-C-methyl-D-erythritol --> 1 2-C-methyl-D-erythritol-2,4-cyclodiphosphate + 1 CMP # EbN1_C37820 ip_methylerythritol-phosphate-pathway_1.17.7.3_RXN0-882 : 1 reduced_flavodoxin + 1 H+ + 1 2-C-methyl-D-erythritol-2,4-cyclodiphosphate --> 1 oxidized_flavodoxin + 1 1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate + 1 H2O # EbN1_C06870 ip_methylerythritol-phosphate-pathway_1.17.7.4_ISPH2-RXN : 1 1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate + 1 H+ + 2 reduced_ferredoxin --> 2 oxidized_ferredoxin + 1 isopentenyl_diphosphate + 1 H2O # EbN1_C25400 ip_methylerythritol-phosphate-pathway_1.17.7.4_RXN0-884 : 1 H+ + 2 reduced_ferredoxin + 1 1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate --> 1 dimethylallyl_diphosphate + 1 H2O + 2 oxidized_ferredoxin # EbN1_C25400 ip_methylerythritol-phosphate-pathway_5.3.3.2_IPPISOM-RXN : 1 isopentenyl_diphosphate <=> 1 dimethylallyl_diphosphate # EbN1_C32660, EbN1_PII00720 # --- farnesyl diphosphate --- # PWY-5123 ip_isoprenoid-syn_2.5.1.1_GPPSYN-RXN : 1 dimethylallyl_diphosphate + 1 isopentenyl_diphosphate <=> 1 geranyl_diphosphate + 1 diphosphate # EbN1_C25370 ip_isoprenoid-syn_2.5.1.10_FPPSYN-RXN : 1 isopentenyl_diphosphate + 1 geranyl_diphosphate <=> 1 diphosphate + 1 (2E,6E)-farnesyl_diphosphate # EbN1_C25370 ip_isoprenoid-syn_2.5.1.29_FARNESYLTRANSTRANSFERASE-RXN : 1 (2E,6E)-farnesyl_diphosphate + 1 isopentenyl_diphosphate --> 1 diphosphate + 1 all-trans-geranylgeranyl_diphosphate # EbN1_C25370 ip_octaprenyl-diphosphate-syn_2.5.1.90_RXN-8992 : 1 (2E,6E)-farnesyl_diphosphate + 5 isopentenyl_diphosphate --> 5 diphosphate + 1 all-trans-octaprenyl_diphosphate # EbN1_C25830 # --- heptaprenyl disphosphate --- # PWY-5807 ip_di-trans,poly-cis-undecaprenyl-phosphate-syn_2.5.1.31_RXN-8999 : 1 (2E,6E)-farnesyl_diphosphate + 8 isopentenyl_diphosphate <=> 1 di-trans,octa-cis-undecaprenyl_diphosphate + 8 diphosphate # metacyc, no direction information # EbN1_C34570 ip_di-trans,octa-cis-undecaprenyl_phosphate-syn_3.6.1.27_UNDECAPRENYL-DIPHOSPHATASE-RXN : 1 di-trans,octa-cis-undecaprenyl_diphosphate + 1 H2O --> 1 phosphate + 1 di-trans,octa-cis-undecaprenyl_phosphate + 1 H+ # EbN1_C03250, EbN1_C09490 # ========== Fatty acid biosynthesis ========== # fa_fatty-acid-syn-initiation_6.4.1.2_ACETYL-COA-CARBOXYLTRANSFER-RXN : 1 ATP + 1 acetyl-CoA + 1 bicarbonate --> 1 malonyl-CoA + 1 phosphate + 1 H+ + 1 ADP # EbN1_C08240 fa_fatty-acid-syn-initiation_2.3.1.39_MALONYL-COA-ACP-TRANSACYL-RXN : 1 malonyl-CoA + 1 holo-[acyl-carrier_protein] <=> 1 malonyl-[acyl-carrier_protein] + 1 CoA # EbN1_C31370 fa_fatty-acid-syn-initiation_2.3.1.180_2.3.1.180-RXN : 1 acetyl-CoA + 1 malonyl-[acyl-carrier_protein] + 1 H+ --> 1 CoA + 1 Acetoacetyl-[acyl-carrier_protein] + 1 CO2 # EbN1_C31360 fa_fatty-acid-syn-initiation_2.3.1.180_ACP-S-ACETYLTRANSFER-RXN : 1 holo-[acyl-carrier_protein] + 1 acetyl-CoA <=> 1 CoA + 1 acetyl-[acyl-carrier_protein] # EbN1_C31360 fa_cis-dodecenoyl-syn_5.3.3.8_RXN : 1 Trans-dec-2-enoyl-[acyl-carrier_protein] <=> 1 Cis-dec-3-enoyl-[acyl-carrier_protein] # EbN1_C12950 fa_cis-dodecenoyl-syn_RXN0-2141 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 Cis-dec-3-enoyl-[acyl-carrier_protein] --> 1 holo-[acyl-carrier_protein] + 1 CO2 + 1 3-oxo-cis-dodec-5-enoyl-[acyl-carrier_protein]# fa_cis-dodecenoyl-syn_1.1.1.100_RXN0-2142 : 1 NADPH + 1 H+ + 1 3-oxo-cis-dodec-5-enoyl-[acyl-carrier_protein] --> 1 NADP+ + 1 3-hydroxy-cis-dodec-5-enoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_cis-dodecenoyl-syn_4.2.1.59_RXN0-2144 : 1 3-hydroxy-cis-dodec-5-enoyl-[acyl-carrier_protein] --> 1 H2O + 1 Trans-D2-cis-D5-dodeca-2,5-dienoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_cis-dodecenoyl-syn_1.3.1.9_RXN0-2145 : 1 Trans-D2-cis-D5-dodeca-2,5-dienoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 Cis-dodec-5-enoyl-[acyl-carrier_protein] + 1 NAD+ # EbN1_C38480 fa_cis-vaccenate-syn_1.1.1.100_RXN-9556 : 1 3-oxo-cis-octadec-11-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADPH --> 1 R-3-hydroxy-cis-octadec-11-enoyl-[acyl-carrier_protein] + 1 NADP+ # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_cis-vaccenate-syn_1.3.1.9_RXN-9558 : 1 NADH + 1 cis-vaccen-2-enoyl-[acyl-carrier_protein] + 1 H+ --> 1 NAD+ + 1 Octadec-2-enoyl-[acyl-carrier_protein] # EbN1_C38480 fa_cis-vaccenate-syn_2.3.1.179_2.3.1.179-RXN : 1 Palmitoleoyl-[acyl-carrier_protein] + 1 H+ + 1 malonyl-[acyl-carrier_protein] --> 1 CO2 + 1 3-oxo-cis-octadec-11-enoyl-[acyl-carrier_protein] + 1 holo-[acyl-carrier_protein] # EbN1_C31400 fa_cis-dodecenoyl-syn_palmitate-syn_4.2.1.59_RXN-9655 : 1 R-3-hydroxydecanoyl-[acyl-carrier_protein] --> 1 H2O + 1 Trans-dec-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_cis-vaccenate-syn_4.2.1.59_RXN-9557 : 1 R-3-hydroxy-cis-octadec-11-enoyl-[acyl-carrier_protein] --> 1 H2O + 1 cis-vaccen-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_palmitate-syn_1.3.1.9_RXN-9657 : 1 but-2-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 NAD+ + 1 Butanoyl-[acyl-carrier_protein] # EbN1_C38480 fa_palmitate-syn_1.3.1.9_RXN-9658 : 1 Hex-2-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 NAD+ + 1 Hexanoyl-[acyl-carrier_protein] # EbN1_C38480 fa_palmitate-syn_1.3.1.9_RXN-9659 : 1 Oct-2-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 NAD+ + 1 Octanoyl-[acyl-carrier_protein] # EbN1_C38480 fa_palmitate-syn_1.3.1.9_RXN-9660 : 1 Trans-dec-2-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 NAD+ + 1 Decanoyl-[acyl-carrier_protein] # EbN1_C38480 fa_palmitate-syn_1.3.1.9_RXN-9661 : 1 Trans-dodec-2-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 Dodecanoyl-[acyl-carrier_protein] + 1 NAD+ # EbN1_C38480 fa_palmitate-syn_1.3.1.9_RXN-9662 : 1 H+ + 1 Trans-tetradec-2-enoyl-[acyl-carrier_protein] + 1 NADH --> 1 NAD+ + 1 Myristoyl-[acyl-carrier_protein] # EbN1_C38480 fa_palmitate-syn_1.3.1.9_RXN-9663 : 1 Trans-hexadec-2-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADH --> 1 Palmitoyl-[acyl-carrier_protein] + 1 NAD+ # EbN1_C38480 fa_palmitate-syn_2.3.1.179_2.3.1.41_RXN-9516 : 1 malonyl-[acyl-carrier_protein] + 1 Butanoyl-[acyl-carrier_protein] + 1 H+ --> 1 CO2 + 1 3-oxo-hexanoyl-[acyl-carrier_protein] + 1 holo-[acyl-carrier_protein] # EbN1_C31400 fa_palmitate-syn_2.3.1.179_2.3.1.41_RXN-9523 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 Hexanoyl-[acyl-carrier_protein] --> 1 3-Oxo-octanoyl-[acyl-carrier_protein] + 1 CO2 + 1 holo-[acyl-carrier_protein] # EbN1_C31400 fa_palmitate-syn_2.3.1.179_2.3.1.41_RXN-9527 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 Octanoyl-[acyl-carrier_protein] --> 1 holo-[acyl-carrier_protein] + 1 3-oxo-decanoyl-[acyl-carrier_protein] + 1 CO2 # EbN1_C31400 fa_palmitate-syn_2.3.1.179_2.3.1.41_RXN-9531 : 1 Decanoyl-[acyl-carrier_protein] + 1 H+ + 1 malonyl-[acyl-carrier_protein] --> 1 3-oxo-dodecanoyl-[acyl-carrier_protein] + 1 holo-[acyl-carrier_protein] + 1 CO2 # EbN1_C31400 fa_palmitate-syn_2.3.1.179_2.3.1.41_RXN-9535 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 Dodecanoyl-[acyl-carrier_protein] --> 1 holo-[acyl-carrier_protein] + 1 3-oxo-myristoyl-[acyl-carrier_protein] + 1 CO2 # EbN1_C31400 fa_palmitate-syn_2.3.1.41_RXN-9539 : 1 H+ + 1 malonyl-[acyl-carrier_protein] + 1 Myristoyl-[acyl-carrier_protein] --> 1 CO2 + 1 3-oxo-palmitoyl-[acyl-carrier_protein] + 1 holo-[acyl-carrier_protein] # EbN1_C40550 fa_palmitate-syn_1.1.1.100_RXN-9514 : 1 NADPH + 1 Acetoacetyl-[acyl-carrier_protein] + 1 H+ --> 1 NADP+ + 1 R-3-hydroxybutanoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_1.1.1.100_RXN-9518 : 1 H+ + 1 NADPH + 1 3-oxo-hexanoyl-[acyl-carrier_protein] --> 1 NADP+ + 1 R-3-hydroxyhexanoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_1.1.1.100_RXN-9524 : 1 H+ + 1 3-Oxo-octanoyl-[acyl-carrier_protein] + 1 NADPH --> 1 NADP+ + 1 R-3-hydroxy-octanoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_1.1.1.100_RXN-9528 : 1 3-oxo-decanoyl-[acyl-carrier_protein] + 1 H+ + 1 NADPH --> 1 NADP+ + 1 R-3-hydroxydecanoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_1.1.1.100_RXN-9532 : 1 3-oxo-dodecanoyl-[acyl-carrier_protein] + 1 H+ + 1 NADPH --> 1 NADP+ + 1 R-3-hydroxydodecanoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_1.1.1.100_RXN-9536 : 1 H+ + 1 3-oxo-myristoyl-[acyl-carrier_protein] + 1 NADPH --> 1 NADP+ + 1 R-3-hydroxymyristoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_1.1.1.100_RXN-9540 : 1 H+ + 1 3-oxo-palmitoyl-[acyl-carrier_protein] + 1 NADPH --> 1 NADP+ + 1 R-3-hydroxypalmitoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitate-syn_4.2.1.59_4.2.1.59-RXN1 : 1 R-3-hydroxybutanoyl-[acyl-carrier_protein] --> 1 H2O + 1 but-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_palmitate-syn_4.2.1.59_4.2.1.59-RXN2 : 1 R-3-hydroxy-octanoyl-[acyl-carrier_protein] --> 1 H2O + 1 Oct-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_palmitate-syn_4.2.1.59_4.2.1.59-RXN3 : 1 R-3-hydroxypalmitoyl-[acyl-carrier_protein] --> 1 H2O + 1 Trans-hexadec-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_palmitate-syn_4.2.1.59_RXN-9520 : 1 R-3-hydroxyhexanoyl-[acyl-carrier_protein] --> 1 Hex-2-enoyl-[acyl-carrier_protein] + 1 H2O # EbN1_C34640, EbN1_C40570 fa_palmitate-syn_4.2.1.59_RXN-9533 : 1 R-3-hydroxydodecanoyl-[acyl-carrier_protein] --> 1 H2O + 1 Trans-dodec-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_palmitate-syn_4.2.1.59_RXN-9537 : 1 R-3-hydroxymyristoyl-[acyl-carrier_protein] --> 1 Trans-tetradec-2-enoyl-[acyl-carrier_protein] + 1 H2O # EbN1_C34640, EbN1_C40570 fa_palmitoleate-syn_1.1.1.100_RXN-10655 : 1 3-oxo-cis-tetradec-7-enoyl-[acyl-carrier_protein] + 1 H+ + 1 NADPH --> 1 NADP+ + 1 3-hydroxy-cis-tetradec-7-enoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitoleate-syn_1.1.1.100_RXN-10659 : 1 H+ + 1 3-oxo-cis-hexadec-9-enoyl-[acyl-carrier_protein] + 1 NADPH --> 1 NADP+ + 1 3-hydroxy-cis-hexadec-9-enoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_palmitoleate-syn_1.3.1.9_RXN-10657 : 1 H+ + 1 Trans-D2-cis-D7-tetradeca-2,7-dienoyl-[acyl-carrier_protein] + 1 NADH --> 1 Cis-tetradec-7-enoyl-[acyl-carrier_protein] + 1 NAD+ # EbN1_C38480 fa_palmitoleate-syn_1.3.1.9_RXN-10661 : 1 H+ + 1 NADH + 1 Trans-D2-cis-D9-hexadeca-2,9-dienoyl-[acyl-carrier_protein] --> 1 NAD+ + 1 Palmitoleoyl-[acyl-carrier_protein] # EbN1_C38480 fa_palmitoleate-syn_2.3.1.41_RXN-10654 : 1 Cis-dodec-5-enoyl-[acyl-carrier_protein] + 1 malonyl-[acyl-carrier_protein] + 1 H+ --> 1 holo-[acyl-carrier_protein] + 1 CO2 + 1 3-oxo-cis-tetradec-7-enoyl-[acyl-carrier_protein] # EbN1_C40550 fa_palmitoleate-syn_2.3.1.41_RXN-10658 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 Cis-tetradec-7-enoyl-[acyl-carrier_protein] --> 1 CO2 + 1 3-oxo-cis-hexadec-9-enoyl-[acyl-carrier_protein] + 1 holo-[acyl-carrier_protein] # EbN1_C40550 fa_palmitoleate-syn_4.2.1.59_RXN-10656 : 1 3-hydroxy-cis-tetradec-7-enoyl-[acyl-carrier_protein] --> 1 H2O + 1 Trans-D2-cis-D7-tetradeca-2,7-dienoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_palmitoleate-syn_4.2.1.59_RXN-10660 : 1 3-hydroxy-cis-hexadec-9-enoyl-[acyl-carrier_protein] --> 1 H2O + 1 Trans-D2-cis-D9-hexadeca-2,9-dienoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 fa_stearate-syn_1.3.1.9_RXN-9635 : 1 H+ + 1 NADH + 1 Octadec-2-enoyl-[acyl-carrier_protein] --> 1 NAD+ + 1 Stearoyl-[acyl-carrier_protein] # EbN1_C38480 fa_stearate-syn_2.3.1.41_RXN-9632 : 1 malonyl-CoA + 1 H+ + 1 Palmitoyl-[acyl-carrier_protein] --> 1 CO2 + 1 3-oxo-stearoyl-[acyl-carrier_protein] + 1 CoA # EbN1_C40550 fa_stearate-syn_1.1.1.100_RXN-9633 : 1 3-oxo-stearoyl-[acyl-carrier_protein] + 1 H+ + 1 NADPH --> 1 NADP+ + 1 R-3-hydroxystearoyl-[acyl-carrier_protein] # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 fa_stearate-syn_4.2.1.59_RXN-9634 : 1 R-3-hydroxystearoyl-[acyl-carrier_protein] --> 1 H2O + 1 Octadec-2-enoyl-[acyl-carrier_protein] # EbN1_C34640, EbN1_C40570 # --- fatty acid compositions --- (anaerobic growth) taken from Zink & Rabus, 2010 (https://doi.org/10.1159/000287988), normalized to 1 fatty-acid-composition_benzoate-anaerobic : 0.003202562 Myristoyl-[acyl-carrier_protein] + 0.5664531625 Palmitoleoyl-[acyl-carrier_protein] + 0.3722978383 Palmitoyl-[acyl-carrier_protein] + 0.0580464371 cis-vaccen-2-enoyl-[acyl-carrier_protein] --> 1 acyl-[acyl-carrier_protein]# fatty-acid-composition_succinate-anaerobic : .0080 Myristoyl-[acyl-carrier_protein] + .559 Palmitoleoyl-[acyl-carrier_protein] + .348 Palmitoyl-[acyl-carrier_protein] + .085 cis-vaccen-2-enoyl-[acyl-carrier_protein] --> 1 acyl-[acyl-carrier_protein]# # --- Synthesis of modified saccharides --- # saccharides_UDP-N-acetyl-D-glucosamine-syn_2.6.1.16_L-GLN-FRUCT-6-P-AMINOTRANS-RXN : 1 D-fructose_6-phosphate + 1 L-glutamine --> 1 alpha-D-glucosamine_6-phosphate + 1 L-glutamate # EbN1_C12510 saccharides_UDP-N-acetyl-D-glucosamine-syn_5.4.2.10_5.4.2.10-RXN : 1 D-glucosamine_1-phosphate <=> 1 alpha-D-glucosamine_6-phosphate # EbN1_C27580 saccharides_UDP-N-acetyl-D-glucosamine-syn_2.3.1.157_2.3.1.157-RXN : 1 acetyl-CoA + 1 D-glucosamine_1-phosphate --> 1 N-acetyl-alpha-D-glucosamine_1-phosphate + 1 H+ + 1 CoA # EbN1_C12520 saccharides_UDP-N-acetyl-D-glucosamine-syn_2.7.7.23_NAG1P-URIDYLTRANS-RXN : 1 H+ + 1 N-acetyl-alpha-D-glucosamine_1-phosphate + 1 UTP --> 1 UDP-N-acetyl-alpha-D-glucosamine + 1 diphosphate # EbN1_C12520 saccharides_CMP-KDO-syn_5.3.1.13_DARAB5PISOM-RXN : 1 D-arabinose_5-phosphate <=> 1 D-ribulose_5-phosphate # EbN1_C07240 saccharides_CMP-KDO-syn_2.5.1.55_KDO-8PSYNTH-RXN : 1 D-arabinose_5-phosphate + 1 phosphoenolpyruvate + 1 H2O --> 1 phosphate + 1 3-deoxy-D-manno-octulosonate_8-phosphate # EbN1_C35600 saccharides_CMP-KDO-syn_3.1.3.45_KDO-8PPHOSPHAT-RXN : 1 3-deoxy-D-manno-octulosonate_8-phosphate + 1 H2O --> 1 phosphate + 1 3-deoxy-D-manno-octulosonate # EbN1_C07250, EbN1_C17750 saccharides_CMP-KDO-syn_2.7.7.38_CPM-KDOSYNTH-RXN : 1 3-deoxy-D-manno-octulosonate + 1 CTP --> 1 diphosphate + 1 CMP-3-deoxy-D-manno-octulosonate # EbN1_C29110 saccharides_dTDP-rhamnose-syn_2.7.7.24_DTDPGLUCOSEPP-RXN : 1 H+ + 1 alpha-D-glucose_1-phosphate + 1 dTTP <=> 1 diphosphate + 1 dTDP-alpha-D-glucose # EbN1_C12710 saccharides_dTDP-rhamnose-syn_4.2.1.46_DTDPGLUCDEHYDRAT-RXN : 1 dTDP-alpha-D-glucose --> 1 dTDP-4-dehydro-6-deoxy-alpha-D-glucopyranose + 1 H2O # EbN1_C08460, EbN1_C12720 saccharides_dTDP-rhamnose-syn_5.1.3.13_DTDPDEHYDRHAMEPIM-RXN : 1 dTDP-4-dehydro-6-deoxy-alpha-D-glucopyranose --> 1 dTDP-4-dehydro-beta-L-rhamnose # EbN1_C12700 saccharides_dTDP-rhamnose-syn_1.1.1.133_DTDPDEHYRHAMREDUCT-RXN : 1 H+ + 1 NADPH + 1 dTDP-4-dehydro-beta-L-rhamnose --> 1 NADP+ + 1 dTDP-beta-L-rhamnose # EbN1_C12690 saccharides_UDP-glucose_2.7.7.23_2.7.7.9_GLUC1PURIDYLTRANS-RXN : 1 alpha-D-glucose_1-phosphate + 1 H+ + 1 UTP <=> 1 UDP-alpha-D-glucose + 1 diphosphate # EbN1_C12520 saccharides_UDP-glucuronate_1.1.1.22_UGD-RXN : 1 UDP-alpha-D-glucose + 2 NAD+ + 1 H2O --> 2 NADH + 3 H+ + 1 UDP-alpha-D-glucuronate # EbN1_C04950, EbN1_C09080 saccharides_ADP-L-glycero-beta-D-manno-heptose-syn_5.3.1.28_RXN0-4301 : 1 D-sedoheptulose_7-phosphate <=> 1 D-glycero-beta-D-manno-heptose_7-phosphate # EbN1_C08170 saccharides_ADP-L-glycero-beta-D-manno-heptose-syn_2.7.1.167_RXN0-4341 : 1 D-glycero-beta-D-manno-heptose_7-phosphate + 1 ATP --> 1 D-glycero-beta-D-manno-heptose_1,7-bisphosphate + 1 H+ + 1 ADP # EbN1_C22920 saccharides_ADP-L-glycero-beta-D-manno-heptose-syn_3.1.3.82_RXN0-4361 : 1 D-glycero-beta-D-manno-heptose_1,7-bisphosphate + 1 H2O --> 1 phosphate + 1 D-glycero-beta-D-manno-heptose_1-phosphate # EbN1_C07330, EbN1_C39820 saccharides_ADP-L-glycero-beta-D-manno-heptose-syn_2.7.7.70_RXN0-4342 : 1 H+ + 1 ATP + 1 D-glycero-beta-D-manno-heptose_1-phosphate --> 1 ADP-D-glycero-beta-D-manno-heptose + 1 diphosphate # EbN1_C22920 saccharides_ADP-L-glycero-beta-D-manno-heptose-syn_5.1.3.20_5.1.3.20-RXN : 1 ADP-D-glycero-beta-D-manno-heptose <=> 1 ADP-L-glycero-beta-D-manno-heptose # EbN1_C22910 # --- branched alpha-glucan pathway --- # saccharides_trehalose-syn_2.7.1.175_BR50056 : 1 ATP + 1 maltose --> 1 H+ + 1 ADP + 1 alpha-maltose_1-phosphate # EbN1_C40240 saccharides_trehalose-syn_2.4.99.16_RXN-13028 : 2 alpha-maltose_1-phosphate + 1 alpha-maltose --> 2 phosphate + 1 amylose # EbN1_C40250 saccharides_trehalose-syn_5.4.99.16_BR248 : 1 maltose <=> 1 trehalose # EbN1_C40240 saccharides_alpha-glucan-branching_2.4.1.18_GLYCOGEN-BRANCH-RXN : 2 amylose --> 1 alpha-glucan + 1 H2O # EbN1_C40260 saccharides_trehalose-syn_3.2.1.141_5.4.99.15-RXN : 1 amylose + 2 H2O --> 3 trehalose # EbN1_C39870 saccharides_trehalose-syn_3.2.1.68_GLYCOGEN-BRANCH-RXN : 1 glycogen + 1 H2O --> 1 amylose # EbN1_C39900 saccharides_trehalose-syn_2.7.7.27_GLUC1PADENYLTRANS-RXN : 1 H+ + 1 ATP + 1 alpha-D-glucose_1-phosphate --> 1 diphosphate + 1 ADP-alpha-D-glucose # EbN1_C39880 saccharides_trehalose-syn_2.7.7.27_BS358361 : 1 ATP + 1 alpha-D-mannose_1-phosphate <=> 1 ADP-mannose + 1 diphosphate # EbN1_C39880 saccharides_trehalose-syn_2.7.7.13_2.7.7.13-RXN : 1 H+ + 1 GTP + 1 alpha-D-mannose_1-phosphate --> 1 GDP-alpha-D-mannose + 1 diphosphate # EbN1_C26910 saccharides_trehalose-syn_5.4.2.2_PHOSMANMUT-RXN : 1 alpha-D-mannose_1-phosphate <=> 1 alpha-D-mannose_6-phosphate # EbN1_C05390 saccharides_glycogen-degradation_2.4.1.1_RXN-9025 : 1 phosphate + 1 debranched_limit_dextrin --> 1 maltotriose + 1 alpha-D-glucose_1-phosphate # EbN1_C36030 saccharides_glycogen-degradation_2.4.1.25_RXN-9023 : 1 limit_dextrin + H2O --> 1 debranched_limit_dextrin + 1 maltotetraose # EbN1_C39860 saccharides_glycogen-degradation_2.4.1.1_RXN0-5182 : 1 maltotetraose + 1 phosphate <=> 1 maltotriose + 1 alpha-D-glucose_1-phosphate # EbN1_C36030 saccharides_glycogen-degradation_2.4.1.25_AMYLOMALT-RXN : 1 maltose + 1 maltotriose <=> 1 maltotetraose + 1 alpha-D-glucose # EbN1_C39860 # ========== Cell envelope biosynthesis ========== # # --- Phospholipids --- # (from acyl-ACP = ACP-bound fatty acids) envelope_CDP-diacylglycerol-syn_1.1.1.94_GLYC3PDEHYDROGBIOSYN-RXN_NAD : 1 NADH + 1 H+ + 1 dihydroxyacetone_phosphate --> 1 sn-glycerol-3-phosphate + 1 NAD+ # EbN1_C05710 envelope_CDP-diacylglycerol-syn_1.1.1.94_GLYC3PDEHYDROGBIOSYN-RXN_NADP : 1 H+ + 1 NADPH + 1 dihydroxyacetone_phosphate --> 1 sn-glycerol-3-phosphate + 1 NADP+ # EbN1_C05710 envelope_CDP-diacylglycerol-syn_2.3.1.-_RXN-9590 : 1 acyl-[acyl-carrier_protein] + 1 phosphate --> 1 acyl-phosphate + 1 holo-[acyl-carrier_protein] # EbN1_C22580 envelope_CDP-diacylglycerol-syn_2.3.1.-_RXN-9591 : 1 acyl-phosphate + 1 sn-glycerol-3-phosphate --> 1 phosphate + 1 1-acyl-sn-glycerol-3-phosphate # EbN1_C22580 envelope_CDP-diacylglycerol-syn_2.3.1.51_RXN0-5514 : 1 1-acyl-sn-glycerol-3-phosphate + 1 acyl-[acyl-carrier_protein] --> 1 1,2-diacyl-sn-glycerol-3-phosphate + 1 holo-[acyl-carrier_protein] # EbN1_C18820, EbN1_C32070 envelope_CDP-diacylglycerol-syn_2.3.1.51_new : 1 1-acyl-sn-glycerol-3-phosphate + 1 acyl-CoA --> 1 1,2-diacyl-sn-glycerol-3-phosphate + 1 CoA # EbN1_C18820, EbN1_C32070 envelope_CDP-diacylglycerol-syn_2.7.7.41_RXN0-5515 : 1 CTP + 1 1,2-diacyl-sn-glycerol-3-phosphate + 1 H+ --> 1 diphosphate + 1 CDP-diacylglycerol # EbN1_C34580 envelope_cardiolipin_syn_2.7.8.5-PHOSPHAGLYPSYN-RXN : 1 CDP-diacylglycerol + 1 sn-glycerol-3-phosphate --> 1 H+ + 1 CMP + 1 phosphatidylglycerol-phosphate # EbN1_C31950 envelope_cardiolipin-syn_3.1.3.27-PGPPHOSPHA-RXN : 1 phosphatidylglycerol-phosphate + 1 H2O --> 1 phosphate + 1 phosphatidylglycerol # EbN1_C03250, EbN1_C19380, EbN1_PI02310 envelope_cardiolipin-syn_2.7.8.-_CARDIOLIPSYN-RXN : 2 phosphatidylglycerol --> 1 cardiolipin + 1 glycerol # EbN1_C03190,EbN1_C23600,EbN1_C40100 envelope_phosphatidylethanolamine-syn_2.7.8.8-PHOSPHASERSYN-RXN : 1 CDP-diacylglycerol + 1 L-serine --> 1 H+ + 1 CMP + 1 phosphatidylserine # EbN1_C40910 envelope_phosphatidylethanolamine-syn_4.1.1.65_PHOSPHASERDECARB-RXN : 1 phosphatidylserine + 1 H+ --> 1 CO2 + 1 phosphatidylethanolamine # EbN1_C40900 envelope_phospholipid_deg_3.1.4.46-RXN : 1 H2O + 1 glycerophosphoglycerol --> 1 H+ + 1 sn-glycerol-3-phosphate + 1 glycerol # EbN1_C25820 envelope_phosphatidylcholine-syn_2.1.1.17_2.1.1.17-RXN : 1 phosphatidylethanolamine + 1 S-adenosyl-L-methionine --> 1 H+ + 1 S-adenosyl-L-homocysteine + 1 phosphatidyl-N-methylethanolamine # EbN1_C38600 envelope_phosphatidylcholine-syn_2.1.1.17_2.1.1.71-RXN : 1 S-adenosyl-L-methionine + 1 phosphatidyl-N-methylethanolamine --> 1 phosphatidyl-N-dimethylethanolamine + 1 H+ + 1 S-adenosyl-L-homocysteine # possibly bifunctional with EC 2.1.1.17 # EbN1_C38600 envelope_phosphatidylcholine-syn_2.1.1.17_RXN4FS-2 : 1 phosphatidyl-N-dimethylethanolamine + 1 S-adenosyl-L-methionine --> 1 H+ + 1 phosphatidylcholine + 1 S-adenosyl-L-homocysteine # possibly bifunctional with EC 2.1.1.17 # manually modified # EbN1_C38600 envelope_lipoprotein-processing_2.3.1.269_RXN-17363 : 1 (S-diacyl-sn-glyceryl)-L-cysteinyl-[apolipoprotein] + 1 1,2-diacyl-sn-glycerol-3-phosphate <=> 1 N-acyl-(S-diacyl-sn-glyceryl)-L-cysteinyl-[lipoprotein] + 1 2-acyl-sn-glycerol-3-phosphate + 1 H+ # EbN1_C07360 envelope_lipoprotein-processing_2.5.1.145_BR52417 : 1 [prolipoprotein]-L-cysteine + 1 phosphatidylglycerol + 1 H2O <=> 1 [prolipoprotein]-S-1,2-diacyl-sn-glyceryl-L-cysteine + 1 sn-glycerol_1-phosphate + 3 H+ # EbN1_C10040 envelope_lipoprotein-processing_3.4.23.36_RXN-17362 : 1 [prolipoprotein]-S-1,2-diacyl-sn-glyceryl-L-cysteine + 1 H2O <=> 1 (S-diacyl-sn-glyceryl)-L-cysteinyl-[apolipoprotein] + 1 lipoprotein_signal_peptide # EbN1_C25420 # --- Peptidoglycan --- # envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_6.3.2.4_DALADALALIG-RXN : 1 ATP + 2 D-alanine --> 1 D-alanyl-D-alanine + 1 phosphate + 1 H+ + 1 ADP # EbN1_C08020 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_5.1.1.3_GLUTRACE-RXN : 1 L-glutamate <=> 1 D-glutamate # EbN1_C25480 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_2.5.1.7_UDPNACETYLGLUCOSAMENOLPYRTRANS-RXN : 1 UDP-N-acetyl-alpha-D-glucosamine + 1 phosphoenolpyruvate --> 1 UDP-N-acetyl-alpha-D-glucosamine-enolpyruvate + 1 phosphate # EbN1_C07130 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_1.3.1.98_UDPNACETYLMURAMATEDEHYDROG-RXN : 1 H+ + 1 UDP-N-acetyl-alpha-D-glucosamine-enolpyruvate + 1 NADPH --> 1 NADP+ + 1 UDP-N-alpha-D-acetylmuramate # EbN1_C19420 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_6.3.2.8_UDP-NACMUR-ALA-LIG-RXN : 1 ATP + 1 L-alanine + 1 UDP-N-alpha-D-acetylmuramate --> 1 H+ + 1 ADP + 1 UDP-N-acetylmuramoyl-L-alanine + 1 phosphate # EbN1_C08030 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_6.3.2.9_UDP-NACMURALA-GLU-LIG-RXN : 1 ATP + 1 UDP-N-acetylmuramoyl-L-alanine + 1 D-glutamate --> 1 ADP + 1 phosphate + 1 H+ + 1 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate # EbN1_C08060 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_6.3.2.13_UDP-NACMURALGLDAPLIG-RXN : 1 meso-diaminopimelate + 1 ATP + 1 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate --> 1 phosphate + 1 UDP-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelate + 1 ADP # EbN1_C08090 envelope_UDP-N-acetylmuramoyl-pentapeptide-syn_6.3.2.10_UDP-NACMURALGLDAPAALIG-RXN : 1 D-alanyl-D-alanine + 1 UDP-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelate + 1 ATP --> 1 UDP-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine + 1 phosphate + 1 ADP + 1 H+ # EbN1_C08080 envelope_peptidoglycan-syn_2.7.8.13_PHOSNACMURPENTATRANS-RXN : 1 UDP-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine + 1 di-trans,octa-cis-undecaprenyl_phosphate --> 1 undecaprenyldiphospho-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine + 1 UMP # EbN1_C08070 envelope_peptidoglycan-syn_2.4.1.227_NACGLCTRANS-RXN : 1 undecaprenyldiphospho-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine + 1 UDP-N-acetyl-alpha-D-glucosamine <=> 1 undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine + 1 UDP + 1 H+ # EbN1_C08040 envelope_peptidoglycan-syn_2.4.1.129_RXN0-5405 : 2 undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine --> 1 di-trans,octa-cis-undecaprenyl_diphosphate + 1 a_peptidoglycan_dimer_(meso-diaminopimelate_containing) + 1 H+ # EbN1_C08050, EbN1_C09550, EbN1_C12650, EbN1_C17290 envelope_peptidoglycan-syn_3.4.16.4_RXN-11302 : 2 a_peptidoglycan_dimer_(meso-diaminopimelate_containing) --> 1 a_peptidoglycan_with_D,D_cross-links_(meso-diaminopimelate_containing) + 1 D-alanine # EbN1_C08100, EbN1_C12730, EbN1_C17280, EbN1_C17310 # --- Lipopolysaccharide --- # (assumed to be identical to E. coli LPS) lps_lipid-IVA-syn_2.3.1.129_UDPNACETYLGLUCOSAMACYLTRANS-RXN : 1 UDP-N-acetyl-alpha-D-glucosamine + 1 R-3-hydroxymyristoyl-[acyl-carrier_protein] --> 1 UDP-3-O-[(3R)-3-hydroxymyristoyl]-N-acetyl-alpha-D-glucosamine + 1 holo-[acyl-carrier_protein] # EbN1_C34650 lps_lipid-IVA-syn_3.5.1.108_UDPACYLGLCNACDEACETYL-RXN : 1 UDP-3-O-[(3R)-3-hydroxymyristoyl]-N-acetyl-alpha-D-glucosamine + 1 H2O --> 1 acetate + 1 UDP-3-O-(3-hydroxymyristoyl)-alpha-D-glucosamine # EbN1_C07980 lps_lipid-IVA-syn_2.3.1.191_UDPHYDROXYMYRGLUCOSAMNACETYLTRANS-RXN : 1 R-3-hydroxymyristoyl-[acyl-carrier_protein] + 1 UDP-3-O-(3-hydroxymyristoyl)-alpha-D-glucosamine --> 1 H+ + 1 UDP-2,3-bis[O-(3R)-3-hydroxymyristoyl]-alpha-D-glucosamine + 1 holo-[acyl-carrier_protein] # EbN1_C34630 lps_lipid-IVA-syn_3.6.1.54_LIPIDXSYNTHESIS-RXN : 1 UDP-2,3-bis[O-(3R)-3-hydroxymyristoyl]-alpha-D-glucosamine + 1 H2O --> 1 UMP + 2 H+ + 1 2,3-bis[(3R)-3-hydroxymyristoyl]-alpha-D-glucosaminyl_1-phosphate # EbN1_C27330, EbN1_C32100 lps_lipid-IVA-syn_2.4.1.182_LIPIDADISACCHARIDESYNTH-RXN : 1 2,3-bis[(3R)-3-hydroxymyristoyl]-alpha-D-glucosaminyl_1-phosphate + 1 UDP-2,3-bis[O-(3R)-3-hydroxymyristoyl]-alpha-D-glucosamine --> 1 H+ + 1 lipid_A_disaccharide + 1 UDP # EbN1_C34660 lps_lipid-IVA-syn_2.7.1.130_TETRAACYLDISACC4KIN-RXN : 1 ATP + 1 lipid_A_disaccharide --> 1 ADP + 1 lipid_IVA + 1 H+ # EbN1_C29100 lps_KDO-transfer-to-lipid-IVA_2.4.99.12_KDOTRANS-RXN : 1 CMP-3-deoxy-D-manno-octulosonate + 1 lipid_IVA --> 1 H+ + 1 alpha-Kdo-(2->6)-lipid_IVA + 1 CMP # EbN1_C09090 lps_KDO-transfer-to-lipid-IVA_2.4.99.13_KDOTRANS2-RXN : 1 CMP-3-deoxy-D-manno-octulosonate + 1 alpha-Kdo-(2->6)-lipid_IVA --> 1 H+ + 1 alpha-Kdo-(2->4)-alpha-Kdo-(2->6)-lipid_IVA + 1 CMP # EbN1_C09090 lps_superpathway-of-(KDO)2-lipid-A-syn_(KDO)2-lipid-A-syn_2.3.1.241_LAUROYLACYLTRAN-RXN : 1 alpha-Kdo-(2->4)-alpha-Kdo-(2->6)-lipid_IVA + 1 Dodecanoyl-[acyl-carrier_protein] --> 1 (KDO)2-(lauroyl)-lipid_IVA + 1 holo-[acyl-carrier_protein] # EbN1_C22590 lps_superpathway-of-(KDO)2-lipid-A-syn_(KDO)2-lipid-A-syn_2.3.1.241_MYRISTOYLACYLTRAN-RXN : 1 (KDO)2-(lauroyl)-lipid_IVA + 1 Myristoyl-[acyl-carrier_protein] --> 1 holo-[acyl-carrier_protein] + 1 (KDO)2-lipid_A # EbN1_C22590 lps_Lipid-A-core-syn_2.4.99.-_RXN0-5118 : 1 ADP-L-glycero-beta-D-manno-heptose + 1 (KDO)2-lipid_A --> 1 heptosyl-Kdo2-lipid_A + 1 H+ + 1 ADP # EbN1_C22890 lps_Lipid-A-core-syn_2.4.99.-_RXN0-5061_2 : 1 ADP-L-glycero-beta-D-manno-heptose + 1 heptosyl-Kdo2-lipid_A --> 1 ADP + 1 (heptosyl)2-Kdo2-lipid_A + 1 H+ # EbN1_C03750 lps_Lipid-A-core-syn_2.4.99.-_RXN0-5061 : 1 (heptosyl)2-Kdo2-lipid_A + 1 ATP --> 1 (heptosyl)2-Kdo2-lipid_A_phosphate + 1 ADP + 1 H+ # EbN1_C40310 lps_Lipid-A-core-syn_2.4.1.-_RXN0-5120 : 1 (heptosyl)2-Kdo2-lipid_A_phosphate + 1 UDP-alpha-D-glucose --> 1 glucosyl-(heptosyl)2-Kdo2-lipid_A_phosphate + 1 UDP + 1 H+ # ebA3996 - 2.4.1.B64 lps_Lipid-A-core-syn_definition : 1 glucosyl-(heptosyl)2-Kdo2-lipid_A_phosphate --> 1 lipid_A_core # # lps_O-antigen_synthesis-polymerization : 6 dTDP-beta-L-rhamnose + 1 lipid_A_core --> 1 O-antigen + 6 dTDP + 3 H2O # enzyme unknown # ========== Cofactor biosynthesis ========== # # --- beta-alanine --- # cof_beta-alanine_4.1.1.11 : L-aspartate --> beta-alanine + CO2 # --- SAM and SAH --- # cof_sam-synthesis_2.5.1.6_S-ADENMETSYN-RXN : 1 L-methionine + 1 H2O + 1 ATP --> 1 phosphate + 1 diphosphate + 1 S-adenosyl-L-methionine # EbN1_C22570 cof_sah-synthesis_3.3.1.1_ADENOSYLHOMOCYSTEINASE-RXN : 1 S-adenosyl-L-homocysteine + 1 H2O --> 1 L-homocysteine + 1 adenosine # EbN1_C10360 # --- Coenzyme A --- # metacyc: PANTO-PWY, COA-PWY cof_phosphopantothenate-syn_2.1.2.11_3-CH3-2-OXOBUTANOATE-OH-CH3-XFER-RXN : 1 3-methyl-2-oxobutanoate + 1 H2O + 1 5,10-methylenetetrahydrofolate <=> 1 tetrahydrofolate + 1 2-dehydropantoate # EbN1_C40800 cof_phosphopantothenate-syn_1.1.1.169_2-DEHYDROPANTOATE-REDUCT-RXN : 1 NADP+ + 1 (R)-pantoate <=> 1 NADPH + 1 H+ + 1 2-dehydropantoate # EbN1_C01260 cof_phosphopantothenate-syn_6.3.2.1_PANTOATE-BETA-ALANINE-LIG-RXN : 1 ATP + 1 beta-alanine + 1 (R)-pantoate --> 1 diphosphate + 1 H+ + 1 AMP + 1 (R)-pantothenate # EbN1_C40810 cof_phosphopantothenate-syn_2.7.1.33_PANTOTHENATE-KIN-RXN : 1 ATP + 1 (R)-pantothenate --> 1 ADP + 1 D-4'-phosphopantothenate + 1 H+ # EbN1_C23510 cof_phosphopantothenate-syn_2.7.1.33_PANTETHEINE-KINASE-RXN : 1 ATP + 1 pantetheine --> 1 4'-phosphopantetheine + 1 H+ + 1 ADP # EbN1_C23510 cof_coenzyme-A-syn_6.3.2.5_P-PANTOCYSLIG-RXN : 1 L-cysteine + 1 D-4'-phosphopantothenate + 1 CTP --> 1 diphosphate + 1 H+ + 1 R-4'-phosphopantothenoyl-L-cysteine + 1 CMP # EbN1_C04510 cof_coenzyme-A-syn_4.1.1.36_P-PANTOCYSDECARB-RXN : 1 R-4'-phosphopantothenoyl-L-cysteine + 1 H+ --> 1 4'-phosphopantetheine + 1 CO2 # EbN1_C04510 cof_coenzyme-A-syn_2.7.7.3_PANTEPADENYLYLTRAN-RXN : 1 H+ + 1 ATP + 1 4'-phosphopantetheine --> 1 3'-dephospho-CoA + 1 diphosphate # EbN1_C07700 cof_coenzyme-A-syn_2.7.1.24_DEPHOSPHOCOAKIN-RXN : 1 ATP + 1 3'-dephospho-CoA --> 1 H+ + 1 CoA + 1 ADP # EbN1_C23480 # --- NAD(P) --- # metacyc: PYRIDNUCSYN-PWY cof_NAD-syn_1.4.3.16_L-ASPARTATE-OXID-RXN : 1 L-aspartate + 1 O2 --> 1 hydrogen_peroxide + 1 alpha-iminosuccinate + 1 H+ # EbN1_C31420 cof_NAD-syn_1.4.3.16_RXN-9772 : 1 L-aspartate + 1 fumarate --> 1 succinate + 1 H+ + 1 alpha-iminosuccinate # EbN1_C31420 cof_NAD-syn_2.5.1.72_QUINOLINATE-SYNTHA-RXN : 1 dihydroxyacetone_phosphate + 1 alpha-iminosuccinate --> 1 quinolinate + 2 H2O + 1 phosphate # EbN1_C23580 cof_NAD-syn_2.4.2.19_QUINOPRIBOTRANS-RXN : 1 5-phospho-alpha-D-ribose_1-diphosphate + 1 quinolinate + 2 H+ --> 1 diphosphate + 1 CO2 + 1 beta-nicotinate_D-ribonucleotide # EbN1_C28480 cof_NAD-syn_2.7.7.18_NICONUCADENYLYLTRAN-RXN : 1 beta-nicotinate_D-ribonucleotide + 1 ATP + 1 H+ --> 1 deamido-NAD+ + 1 diphosphate # EbN1_C22720 cof_NAD-syn_6.3.1.5_NAD-SYNTH-NH3-RXN : 1 ammonium + 1 deamido-NAD+ + 1 ATP --> 1 H+ + 1 AMP + 1 NAD+ + 1 diphosphate # EbN1_C40440 cof_NAD-phosphorylation_2.7.1.23_NAD-KIN-RXN : 1 NAD+ + 1 ATP --> 1 NADP+ + 1 H+ + 1 ADP # EbN1_C27460 # --- Flavin (FAD) --- # metacyc: RIBOSYN2-PWY cof_flavin-metabolism_3.1.3.104_RXN0-5187 : 1 FMN + 1 H2O --> 1 riboflavin + 1 phosphate # EbN1_C04640 cof_flavin-syn_3.5.4.25_GTP-CYCLOHYDRO-RXN : 1 GTP + 3 H2O --> 1 2,5-diamino-6-(5-phospho-D-ribosylamino)pyrimidin-4(3H)-one + 1 formate + 1 diphosphate + 2 H+ # EbN1_C17650, EbN1_C20350 cof_flavin-syn_3.5.4.26_RIBOFLAVINSYNDEAM-RXN : 1 H2O + 1 2,5-diamino-6-(5-phospho-D-ribosylamino)pyrimidin-4(3H)-one + 1 H+ --> 1 ammonium + 1 5-amino-6-(5-phospho-D-ribosylamino)uracil # EbN1_C05610 cof_flavin-syn_1.1.1.193_RIBOFLAVINSYNREDUC-RXN : 1 NADPH + 1 H+ + 1 5-amino-6-(5-phospho-D-ribosylamino)uracil --> 1 5-amino-6-(5-phospho-D-ribitylamino)uracil + 1 NADP+ # EbN1_C05610 cof_flavin-syn_4.1.99.12_DIOHBUTANONEPSYN-RXN : 1 D-ribulose_5-phosphate --> 1 1-deoxy-L-glycero-tetrulose_4-phosphate + 1 H+ + 1 formate # EbN1_C20350 cof_flavin-3.1.3.104_RIBOFLAVINSYNREDUC-RXN : 1 5-amino-6-(5-phospho-D-ribitylamino)uracil + 1 H2O --> 1 5-amino-6-(D-ribitylamino)uracil + 1 phosphate # EbN1_C04640 cof_flavin-syn_2.5.1.78_LUMAZINESYN-RXN : 1 5-amino-6-(D-ribitylamino)uracil + 1 1-deoxy-L-glycero-tetrulose_4-phosphate --> 1 6,7-dimethyl-8-(1-D-ribityl)lumazine + 1 H+ + 1 phosphate + 2 H2O # EbN1_C20340 cof_flavin-syn_2.5.1.9_RIBOFLAVIN-SYN-RXN : 2 6,7-dimethyl-8-(1-D-ribityl)lumazine + 1 H+ --> 1 5-amino-6-(D-ribitylamino)uracil + 1 riboflavin # EbN1_C20360 cof_flavin-syn_5,6-dimethylbenzimidazole-syn_2.7.1.26_RIBOFLAVINKIN-RXN : 1 ATP + 1 riboflavin --> 1 H+ + 1 FMN + 1 ADP # EbN1_C25440 cof_flavin-syn_2.7.7.2_FADSYN-RXN : 1 FMN + 1 ATP + 1 H+ --> 1 FAD + 1 diphosphate # EbN1_C25440 # --- Folate --- # metacyc: PWY-6543, PWY-6147, FOLSYN-PWY cof_4-aminobenzoate-syn_2.6.1.85_PABASYN-RXN : 1 chorismate + 1 L-glutamine <=> 1 4-amino-4-deoxychorismate + 1 L-glutamate # EbN1_C23990, EbN1_C36450 cof_4-aminobenzoate-syn_4.1.3.38_ADCLY-RXN : 1 4-amino-4-deoxychorismate <=> 1 pyruvate + 1 4-aminobenzoate + 1 H+ # EbN1_C36450 cof_tetrahydrofolate-syn_3.5.4.16_GTP-CYCLOHYDRO-I-RXN : 1 GTP + 1 H2O --> 1 formate + 1 H+ + 1 7,8-dihydroneopterin_triphosphate # EbN1_C06970, EbN1_C25350, EbN1_C35710 cof_tetrahydrofolate-syn_3.6.1.67_H2NEOPTERINP3PYROPHOSPHOHYDRO-RXN : 1 7,8-dihydroneopterin_triphosphate + 1 H2O --> 1 7,8-dihydroneopterin_3'-phosphate + 1 H+ + 1 diphosphate # EbN1_C24790 cof_tetrahydrofolate-syn_3.6.1.67_DIHYDRONEOPTERIN-MONO-P-DEPHOS-RXN : 1 7,8-dihydroneopterin_3'-phosphate + 1 H2O --> 1 7,8-dihydroneopterin + 1 phosphate # EbN1_C24790 cof_tetrahydrofolate-syn_4.1.2.25_H2NEOPTERINALDOL-RXN : 1 7,8-dihydroneopterin --> 1 glycolaldehyde + 1 6-hydroxymethyl-7,8-dihydropterin # EbN1_C25030 cof_tetrahydrofolate-syn_2.7.6.3_H2PTERIDINEPYROPHOSPHOKIN-RXN : 1 6-hydroxymethyl-7,8-dihydropterin + 1 ATP --> 1 (7,8-dihydropterin-6-yl)methyl_diphosphate + 1 AMP # EbN1_C40780 cof_tetrahydrofolate-syn_2.5.1.15_H2PTEROATESYNTH-RXN : 1 (7,8-dihydropterin-6-yl)methyl_diphosphate + 1 4-aminobenzoate --> 1 diphosphate + 1 7,8-dihydropteroate # EbN1_C27570 cof_tetrahydrofolate-syn_6.3.2.17_6.3.2.12_DIHYDROFOLATESYNTH-RXN : 1 7,8-dihydropteroate + 1 ATP + 1 L-glutamate --> 1 ADP + 1 7,8-dihydrofolate + 1 H+ + 1 phosphate # EbN1_C27280 # --- Ubiquinol --- # (Q8 is the dominant isoprenoid quinone in Betaproteobacteria) # PWY-5855 cof_4-hydroxybenzoate-syn_4.1.3.40_CHORPYRLY-RXN : 1 chorismate --> 1 4-hydroxybenzoate + 1 pyruvate # EbN1_C12820 cof_ubiquinol-8-syn_2.5.1.39_4OHBENZOATE-OCTAPRENYLTRANSFER-RXN : 1 4-hydroxybenzoate + 1 all-trans-octaprenyl_diphosphate --> 1 diphosphate + 1 3-octaprenyl-4-hydroxybenzoate # EbN1_C12810 cof_ubiquinol-8-syn-(prokaryotic)_4.1.1.98_3-OCTAPRENYL-4-OHBENZOATE-DECARBOX-RXN : 1 3-octaprenyl-4-hydroxybenzoate + 1 H+ --> 1 CO2 + 1 2-octaprenylphenol # updated EC number # EbN1_C12750, EbN1_C17720 cof_ubiquinol-8-syn-(prokaryotic)_2.1.1.222_2-OCTAPRENYL-6-OHPHENOL-METHY-RXN : 1 2-octaprenyl-6-hydroxyphenol + 1 S-adenosyl-L-methionine --> 1 H+ + 1 S-adenosyl-L-homocysteine + 1 2-octaprenyl-6-methoxyphenol # EbN1_C05070, EbN1_C24500 cof_ubiquinol-8-syn_1.14.13.-_2-OCTAPRENYL-6-METHOXYPHENOL-HYDROX-RXN : 1 NADPH + 1 O2 + 1 H+ + 1 2-octaprenyl-6-methoxyphenol --> 1 H2O + 1 NADP+ + 1 2-octaprenyl-6-methoxyquinol # EbN1_C06160 cof_ubiquinol-8-syn_2.1.1.201_2-OCTAPRENYL-METHOXY-BENZOQ-METH-RXN : 1 S-adenosyl-L-methionine + 1 2-octaprenyl-6-methoxyquinol --> 1 2-octaprenyl-3-methyl-6-methoxyquinol + 1 H+ + 1 S-adenosyl-L-homocysteine # EbN1_C17150 cof_ubiquinol-8-syn_1.14.99.60_OCTAPRENYL-METHYL-METHOXY-BENZOQ-OH-RXN : 1 2-octaprenyl-3-methyl-6-methoxyquinol + 1 O2 + 1 NADPH + 1 H+ --> 1 H2O + 1 NADP+ + 1 3-demethylubiquinol-8 # EbN1_C05150 cof_ubiquinol-8-syn_2.1.1.64_DHHB-METHYLTRANSFER-RXN : 1 S-adenosyl-L-methionine + 1 3-demethylubiquinol-8 --> 1 H+ + 1 ubiquinol-8 + 1 S-adenosyl-L-homocysteine # EbN1_C05070 cof_ubiquinol-8-syn-(anaerobic)_1.14.13.-_2-OCTAPRENYLPHENOL-HYDROX-RXN : 1 2-octaprenylphenol + 1 NAD+ + 1 H2O --> 1 2-octaprenyl-6-hydroxyphenol + 1 H+ + 1 NADH # EbN1_C06160 cof_ubiquinol-8-syn-(prokaryotic)_1.14.13.240_2-OCTAPRENYLPHENOL-HYDROX-RXN : 1 2-octaprenylphenol + 1 NADPH + 1 O2 + 1 H+ --> 1 2-octaprenyl-6-hydroxyphenol + 1 H2O + 1 NADP+ # EbN1_C23420 cof_ubiquinol-8-syn-(anaerobic)_1.14.13.-_2-OCTAPRENYL-6-METHOXYPHENOL-HYDROX-RXN : 1 NAD+ + 1 H2O + 1 2-octaprenyl-6-methoxyphenol --> 1 H+ + 1 NADH + 1 2-octaprenyl-6-methoxyquinol # EbN1_C06160 cof_ubiquinol-8-syn-(anaerobic)_1.14.99.60_OCTAPRENYL-METHYL-METHOXY-BENZOQ-OH-RXN : 1 2-octaprenyl-3-methyl-6-methoxyquinol + 1 NAD+ + 1 H2O --> 1 H+ + 1 NADH + 1 3-demethylubiquinol-8 # EbN1_C05150 # --- Thiamin diphosphate --- # metacyc: PWY-6890, PWY-6892 cof_4-amino-2-methyl-5-diphosphomethylpyrimidine-syn_4.1.99.17_PYRIMSYN1-RXN : 1 5-amino-1-(5-phospho-beta-D-ribosyl)imidazole + 1 S-adenosyl-L-methionine --> 1 formate + 1 L-methionine + 3 H+ + 1 5'-deoxyadenosine + 1 carbon_monoxide + 1 4-amino-2-methyl-5-phosphomethylpyrimidine # EbN1_C09400 cof_4-amino-2-methyl-5-diphosphomethylpyrimidine-syn_2.7.4.7_PYRIMSYN3-RXN : 1 ATP + 1 4-amino-2-methyl-5-phosphomethylpyrimidine --> 1 4-amino-2-methyl-5-diphosphomethylpyrimidine + 1 ADP # EbN1_C09390 cof_thiazole-syn_2.8.1.7_RXN0-308 : 1 L-Cysteine-Desulfurase + 1 L-cysteine --> 1 S-sulfanyl-[IscS] + 1 L-alanine # modified # EbN1_C36810, EbN1_C37040, EbN1_C37050 cof_thiazole-syn_2.7.7.73_RXN-9789 : 1 [sulfur-carrier_protein_ThiS] + 1 ATP --> 1 Adenylated-[sulfur-carrier_protein_ThiS] + 1 diphosphate # EbN1_C13880 cof_thiazole-syn_2.8.1.7_RXN-14382 : 1 S-sulfanyl-[IscS] + 1 Sulfur-Carrier-Proteins-ThiI <=> 1 ThiI-S-sulfanylcysteine + 1 L-Cysteine-Desulfurase # modified # EbN1_C36810, EbN1_C37040, EbN1_C37050 cof_thiazole-syn_2.8.1.-_RXN-9788 : 1 Adenylated-[sulfur-carrier_protein_ThiS] + 1 ThiI-S-sulfanylcysteine --> 1 Sulfur-Carrier-Proteins-ThiI + 1 AMP + 1 Thiocarboxyadenylated-[sulfur-carrier_protein_ThiS] # EbN1_C37050,EbN1_C36810 cof_thiazole-syn_spontaneous_BR50098 : 1 H+ + 1 2-iminoacetate + 1 H2O <=> 1 glyoxylate + 1 ammonium # spontaneous cof_thiazole-syn_2.8.1.10_THIAZOLSYN2-RXN : 1 2-iminoacetate + 1 Thiocarboxyadenylated-[sulfur-carrier_protein_ThiS] + 1 1-deoxy-D-xylulose_5-phosphate --> 2 H2O + 1 2-[(2R,5Z)-2-carboxy-4-methylthiazol-5(2H)-ylidene]ethyl_phosphate + 1 [sulfur-carrier_protein_ThiS] # EbN1_C13100 cof_thiamin-diphosphate-syn_2.5.1.3_RXN-12611 : 1 2-[(2R,5Z)-2-carboxy-4-methylthiazol-5(2H)-ylidene]ethyl_phosphate + 2 H+ + 1 4-amino-2-methyl-5-diphosphomethylpyrimidine --> 1 diphosphate + 1 thiamin_phosphate + 1 CO2 # EbN1_C09580, EbN1_C23460 cof_thiamin-diphosphate-syn_thiamin-salvage_2.7.4.16_THI-P-KIN-RXN : 1 ATP + 1 thiamin_phosphate --> 1 thiamin_diphosphate + 1 ADP # EbN1_C19390 # --- Tetrapyrrole --- # metacyc: PWY-5188 cof_tetrapyrrole-syn-tRNA-charging_6.1.1.17_RXN-9386 : ATP + L-glutamate + tRNAGlu <=> AMP + diphosphate + L-glutamyl-tRNAGlu # EbN1_C39580 cof_tetrapyrrole-syn-tRNA-charging_6.3.5.7-RXN : ATP + L-glutamyl-tRNAGln + L-glutamine + H2O <=> ADP + phosphate + L-glutaminyl-tRNAGln + L-glutamate # EbN1_C17230 cof_tetrapyrrole-syn_1.2.1.70_GLUTRNAREDUCT-RXN : 1 L-glutamyl-tRNAGlu + 1 NADPH --> 1 glutamate-1-semialdehyde + 1 tRNAGlu + 1 NADP+ # EbN1_C06340 cof_tetrapyrrole-syn_5.4.3.8_GSAAMINOTRANS-RXN : 1 glutamate-1-semialdehyde --> 1 5-amino-levulinate # EbN1_C09570 cof_tetrapyrrole-syn_4.2.1.24_PORPHOBILSYNTH-RXN : 2 5-amino-levulinate --> 1 porphobilinogen + 2 H2O + 1 H+ # EbN1_C05770 cof_tetrapyrrole-syn_2.5.1.61_OHMETHYLBILANESYN-RXN : 4 porphobilinogen + 1 H2O --> 1 hydroxymethylbilane + 4 ammonium # EbN1_C06240 cof_tetrapyrrole-syn_4.2.1.75_UROGENIIISYN-RXN : 1 hydroxymethylbilane --> 1 H2O + 1 uroporphyrinogen-III # EbN1_C06230 # --- Heme b --- # metacyc: HEMESYN2-PWY cof_heme-b-syn_4.1.1.37_UROGENDECARBOX-RXN : 1 uroporphyrinogen-III + 4 H+ --> 1 coproporphyrinogen-III + 4 CO2 # EbN1_C15980 cof_heme-b-syn_1.3.98.3_HEMN-RXN : 1 coproporphyrinogen-III + 2 S-adenosyl-L-methionine --> 2 L-methionine + 2 5'-deoxyadenosine + 1 protoporphyrinogen-IX + 2 CO2 # EbN1_C29580 cof_heme-b-syn_1.3.3.3_RXN0-1461 : 1 O2 + 2 H+ + 1 coproporphyrinogen-III --> 1 protoporphyrinogen-IX + 2 H2O + 2 CO2 # EbN1_C06200 cof_heme-b-syn_1.3.3.3_BS436556 : 2 protoporphyrinogen-IX + 3 O2 <=> 2 protoporphyrin_IX + 6 H2O # EbN1_C06200 cof_heme-b-syn_4.99.1.1_PROTOHEMEFERROCHELAT-RXN : 1 protoporphyrin_IX + 1 Fe2+ --> 2 H+ + 1 protoheme_IX # EbN1_C27440 cof_heme-b-syn_2.5.1.141_BS427516 : 1 protoheme_IX + 1 (2E,6E)-farnesyl_diphosphate + 1 H2O <=> 1 ferroheme_O + 1 diphosphate # EbN1_C24190 # --- Cobalamin (incomplete) --- # metacyc: P381-PWY cof_adenosylcobalamin-syn_2.1.1.107_UROPORIIIMETHYLTRANSA-RXN : 1 S-adenosyl-L-methionine + 1 uroporphyrinogen-III <=> 1 H+ + 1 precorrin-1 + 1 S-adenosyl-L-homocysteine # EbN1_C04850, EbN1_C06220, EbN1_C23050 cof_adenosylcobalamin-syn_2.1.1.107_UROPORIIIMETHYLTRANSA-RXN2 : 1 S-adenosyl-L-methionine + 1 precorrin-1 <=> 1 H+ + 1 precorrin-2 + 1 S-adenosyl-L-homocysteine # EbN1_C04850, EbN1_C06220, EbN1_C23050 # 2.1.1.130, 1.14.13.83, 2.1.1.132 and 5.4.99.61 are missing! cof_adenosylcobalamin-syn_6.3.5.11_RXN-8769 : 2 L-glutamine + 2 ATP + 1 cobyrinate + 2 H2O --> 2 H+ + 2 L-glutamate + 2 phosphate + 2 ADP + 1 cob(II)yrinate_a,c-diamide # EbN1_C23060 cof_adenosylcobalamin-syn_6.6.1.2_BR48015 : 1 hydrogenobyrinate_a,c-diamide + 1 Co2+ + 1 ATP + 1 H2O <=> 1 H+ + 1 cob(II)yrinate_a,c-diamide + 1 ADP + 1 phosphate # EbN1_PI00580 cof_adenosylcobalamin-syn_2.5.1.17_R344-RXN : 2 ATP + 2 cob(II)yrinate_a,c-diamide + 1 a_reduced_flavoprotein --> 2 triphosphate + 2 adenosyl-cobyrinate_a,c-diamide + 1 an_oxidized_flavoprotein # EbN1_C05480, EbN1_C23040 cof_adenosylcobalamin-syn_6.3.5.10_R345-RXN : 4 H2O + 4 ATP + 1 adenosyl-cobyrinate_a,c-diamide + 4 L-glutamine --> 1 adenosylcobyrate + 4 phosphate + 4 H+ + 4 ADP + 4 L-glutamate # EbN1_C21000 cof_adenosylcobalamin-syn_4.1.1.81_4.1.1.81-RXN : 1 L-threonine_3-O-phosphate + 1 H+ --> 1 CO2 + 1 (R)-1-amino-2-propanol_O-2-phosphate # EbN1_C11990 cof_adenosylcobalamin-syn_6.3.1.10_RXN-6261 : 1 adenosylcobyrate + 1 ATP + 1 (R)-1-amino-2-propanol_O-2-phosphate --> 1 phosphate + 1 H+ + 1 adenosyl-cobinamide_phosphate + 1 ADP # EbN1_C12000, EbN1_C29820 cof_adenosylcobalamin-syn_2.7.7.62_COBINPGUANYLYLTRANS-RXN : 1 adenosyl-cobinamide_phosphate + 1 GTP + 1 H+ <=> 1 adenosylcobinamide-GDP + 1 diphosphate # EbN1_C22990 cof_adenosylcobalamin-syn_1.13.11.79_RXN-8771 : 1 FMNH2 + 1 O2 --> 1 5,6-dimethylbenzimidazole + 1 D-erythrose_4-phosphate + 1 dialurate # EbN1_C23080 cof_adenosylcobalamin-syn_2.4.2.21_DMBPPRIBOSYLTRANS-RXN : 1 5,6-dimethylbenzimidazole + 1 beta-nicotinate_D-ribonucleotide --> 1 nicotinate + 1 H+ + 1 alpha-ribazole_5'-phosphate # EbN1_C22980 cof_adenosylcobalamin-syn_2.7.8.26_COBALAMIN5PSYN-RXN : 1 adenosylcobinamide-GDP + 1 alpha-ribazole --> 1 GMP + 1 H+ + 1 adenosylcobalamin # EbN1_C22950 # --- 8-amino-7-oxononanoate --- # needed for biotin synthesis # metacyc: PWY-6519 cof_8-amino-7-oxononanoate-syn_2.1.1.197_RXN-11475 : 1 malonyl-[acyl-carrier_protein] + 1 S-adenosyl-L-methionine --> 1 S-adenosyl-L-homocysteine + 1 malonyl-[acyl-carrier_protein]-methyl-ester # EbN1_C05750, EbN1_C34710 cof_8-amino-7-oxononanoate-syn_2.3.1.179_2.3.1.41_RXN-11474 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 malonyl-[acyl-carrier_protein]-methyl-ester --> 1 holo-[acyl-carrier_protein] + 1 CO2 + 1 3-ketoglutaryl-[acyl-carrier_protein]-methyl-ester # EbN1_C31400 cof_8-amino-7-oxononanoate-syn_1.1.1.100_RXN-11476 : 1 NADPH + 1 H+ + 1 3-ketoglutaryl-[acyl-carrier_protein]-methyl-ester --> 1 NADP+ + 1 3-hydroxyglutaryl-[acyl-carrier_protein]-methyl-ester # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 cof_8-amino-7-oxononanoate-syn_4.2.1.59_RXN-11477 : 1 3-hydroxyglutaryl-[acyl-carrier_protein]-methyl-ester --> 1 H2O + 1 enoylglutaryl-[acyl-carrier_protein]-methyl-ester # EbN1_C34640, EbN1_C40570 cof_8-amino-7-oxononanoate-syn_1.3.1.9_RXN-11478 : 1 NADH + 1 H+ + 1 enoylglutaryl-[acyl-carrier_protein]-methyl-ester --> 1 NAD+ + 1 glutaryl-[acyl-carrier_protein]-methyl-ester # EbN1_C38480 cof_8-amino-7-oxononanoate-syn_2.3.1.179_2.3.1.41_RXN-11479 : 1 malonyl-[acyl-carrier_protein] + 1 H+ + 1 glutaryl-[acyl-carrier_protein]-methyl-ester --> 1 holo-[acyl-carrier_protein] + 1 CO2 + 1 3-ketopimeloyl-[acyl-carrier_protein]-methyl-ester # EbN1_C31400 cof_8-amino-7-oxononanoate-syn_1.1.1.100_RXN-11480 : 1 H+ + 1 3-ketopimeloyl-[acyl-carrier_protein]-methyl-ester + 1 NADPH --> 1 3-hydroxypimeloyl-[acyl-carrier_protein]-methyl-ester + 1 NADP+ # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 cof_8-amino-7-oxononanoate-syn_4.2.1.59_RXN-11481 : 1 3-hydroxypimeloyl-[acyl-carrier_protein]-methyl-ester --> 1 H2O + 1 enoylpimeloyl-[acyl-carrier_protein]-methyl-ester # EbN1_C34640, EbN1_C40570 cof_8-amino-7-oxononanoate-syn_1.3.1.9_RXN-11482 : 1 enoylpimeloyl-[acyl-carrier_protein]-methyl-ester + 1 H+ + 1 NADH --> 1 NAD+ + 1 pimeloyl-[acyl-carrier_protein]-methyl-ester # EbN1_C38480 cof_8-amino-7-oxononanoate-syn_3.1.1.85_RXN-11483 : 1 pimeloyl-[acyl-carrier_protein]-methyl-ester + 1 H2O --> 1 pimeloyl-[acyl-carrier_protein] + 1 H+ + 1 methanol # EbN1_C34720 cof_8-amino-7-oxononanoate-syn_2.3.1.47_RXN-11484 : 1 L-alanine + 1 H+ + 1 pimeloyl-[acyl-carrier_protein] --> 1 holo-[acyl-carrier_protein] + 1 CO2 + 1 8-amino-7-oxononanoate # EbN1_C34730 cof_8-amino-7-oxononanoate-syn_2.3.1.47_7KAPSYN-RXN : 1 pimeloyl-CoA + 1 L-alanine + 1 H+ --> 1 CO2 + 1 CoA + 1 8-amino-7-oxononanoate # EbN1_C34730 cof_B6_4.3.3.6_RXN-11322 : 1 D-glyceraldehyde_3-phosphate + 1 L-glutamine + 1 D-ribose_5-phosphate --> 1 L-glutamate + 1 phosphate + 1 pyridoxal_5'-phosphate + 3 H2O # # # --- Biotin --- # metacyc: PWY0-1507 cof_biotin-syn_2.6.1.62_DAPASYN-RXN : 1 S-adenosyl-L-methionine + 1 8-amino-7-oxononanoate <=> 1 S-adenosyl-4-methylthio-2-oxobutanoate + 1 7,8-diaminopelargonate # EbN1_C34740 cof_biotin-syn_6.3.3.3_DETHIOBIOTIN-SYN-RXN : 1 CO2 + 1 ATP + 1 7,8-diaminopelargonate --> 1 dethiobiotin + 1 phosphate + 1 ADP + 3 H+ # EbN1_C34700 cof_biotin-syn_2.8.1.6_BS360047 : 1 dethiobiotin + 1 hydrogen_sulfide + 2 S-adenosyl-L-methionine + 2 reduced_ferredoxin <=> 1 biotin + 2 L-methionine + 2 5'-deoxyadenosine + 2 oxidized_ferredoxin # EbN1_C05740 cof_biotin-BCCP-assembly_6.3.4.15_BIOTINLIG-RXN : 1 biotin + 1 BCCP-monomer + 1 ATP --> 1 AMP + 1 diphosphate + 1 BCCP-biotin-monomer # EbN1_C23520 # --- Molybopterin --- # cof_molybdenum-cofactor-syn_2.7.7.80_RXN-11361 : 1 ATP + 1 [MPT-Synthases] --> 1 carboxyadenylated-[MPT-synthases] + 1 diphosphate # EbN1_C05620 cof_molybdenum-cofactor-syn_2.8.1.7_RXN-12473 : 1 carboxyadenylated-[MPT-synthases] + 1 [IscS]-S-sulfanyl-L-cysteine + 1 NADPH --> 1 thiocarboxylated-[MPT-synthases] + 1 [IscS]-L-cysteine + 1 AMP + 1 NADP+ + 1 H+ # EbN1_C36810, EbN1_C37040, EbN1_C37050 cof_molybdenum-cofactor-syn_2.8.1.7_RXN0-308 : 1 L-cysteine + 1 [IscS]-L-cysteine <=> 1 L-alanine + 1 [IscS]-S-sulfanyl-L-cysteine # modified # EbN1_C36810, EbN1_C37040, EbN1_C37050 cof_molybdenum-cofactor-syn_4.1.99.22_RXN-8340 : 1 GTP + 1 S-adenosyl-L-methionine + 1 NADPH --> 1 (8S)-3',8-cyclo-7,8-dihydroguanosine_5'-triphosphate + 1 5'-deoxyadenosine + 1 L-methionine + 1 NADP+ # EbN1_C31180 cof_molybdenum-cofactor-syn_4.6.1.17_BR427248 : 1 (8S)-3',8-cyclo-7,8-dihydroguanosine_5'-triphosphate --> 1 cyclic_pyranopterin_phosphate + 1 diphosphate # EbN1_C41210 cof_molybdenum-cofactor-syn_2.8.1.12_RXN-8342 : 1 cyclic_pyranopterin_phosphate + 2 thiocarboxylated-[MPT-synthases] + 1 H2O --> 2 [MPT-Synthases] + 1 molybdopterin # EbN1_C38540, EbN1_C38550 cof_molybdenum-cofactor-syn_2.7.7.75_RXN-8344 : 1 ATP + 1 molybdopterin + 1 H+ --> 1 molybdopterin_adenine_dinucleotide + 1 diphosphate # EbN1_C05510 cof_tungsten-cofactor : 1 molybdopterin_adenine_dinucleotide + 1 tungstate + 1 molybdopterin + 2 H+ --> 1 bis_tungstenpterin_cofactor + 1 H2O + 1 AMP cof_molybdenum-cofactor-syn_2.10.1.1_RXN-8348 : 1 molybdate + 1 molybdopterin_adenine_dinucleotide + 1 H+ --> 1 AMP + 1 H2O + 1 molybdenum_cofactor # EbN1_C05800, EbN1_C38560 cof_guanylyl-molybdenum-cofactor-syn_2.7.7.77_RXN0-262 : 1 molybdenum_cofactor + 1 GTP + 3 H+ <=> 1 guanylyl_molybdenum_cofactor + 1 diphosphate # EbN1_C16720 cof_guanylyl-molybdenum-cofactor-syn_2.7.7.76_RXN0-6254 : 1 molybdenum_cofactor + 1 CTP + 1 H+ <=> 1 cytidylylmolybdenum_cofactor + 1 diphosphate # EbN1_C11700 cof_guanylyl-molybdenum-cofactor-syn_2.8.1.7_RXN-21548 : 1 cytidylylmolybdenum_cofactor + 1 L-cysteine + 1 NADH <=> 1 sulfurylated_cytidylylmolybdenum_cofactor + 1 L-alanine + 1 NAD+ # EbN1_C36810, EbN1_C37040, EbN1_C37050 # --- F420 --- # from flavin cof_factor-420-syn_2.5.1.147_RXN-8079 : 1 S-adenosyl-L-methionine + 1 5-amino-6-(D-ribitylamino)uracil + 1 L-tyrosine --> 1 5-amino-5-(4-hydroxybenzyl)-6-(D-ribitylimino)-5,6-dihydrouracil + 1 2-iminoacetate + 1 5'-deoxyadenosine + 1 L-methionine + 2 H+ # EbN1_PII01700 cof_factor-420-syn_2.7.7.105_BR53119 : 1 phosphoenolpyruvate + 1 GTP + 1 H+ <=> 1 enolpyruvoyl-2-diphospho-5'-guanosine + 1 diphosphate # EbN1_PII01660 cof_factor-420-syn_2.7.8.28_RXN-8078 : 1 7,8-didemethyl-8-hydroxy-5-deazariboflavin + 1 enolpyruvoyl-2-diphospho-5'-guanosine --> 1 GMP + 1 H+ + 1 coenzyme_F420-0 # EbN1_PII01670 cof_factor-420-syn_4.3.1.32 : 1 S-adenosyl-L-methionine + 1 5-amino-5-(4-hydroxybenzyl)-6-(D-ribitylimino)-5,6-dihydrouracil --> 1 7,8-didemethyl-8-hydroxy-5-deazariboflavin + 1 5'-deoxyadenosine + 1 L-methionine + 1 ammonium + 1 H+ # EbN1_PII01700 cof_factor-420-polyglutamylation_6.3.2.31_RXN-8080 : 1 coenzyme_F420-0 + 1 L-glutamate + 1 GTP --> 1 GDP + 1 H+ + 1 phosphate + 1 coenzyme_F420-1 # EbN1_PII01680 cof_factor-420-polyglutamylation_6.3.2.34_RXN-8081 : 1 GTP + 1 coenzyme_F420-1 + 1 L-glutamate --> 1 GDP + 1 coenzyme_F420 + 1 H+ + 1 phosphate # EbN1_PII01680 # --- preQ0 --- # cof_preQ0-syn_4.1.2.50_RXN0-5507 : 1 7,8-dihydroneopterin_triphosphate + 1 H2O --> 1 acetaldehyde + 1 6-carboxy-5,6,7,8-tetrahydropterin + 1 triphosphate + 2 H+ # EbN1_C03430 cof_preQ0-syn_4.3.99.3_RXN0-6575 : 1 H+ + 1 6-carboxy-5,6,7,8-tetrahydropterin --> 1 7-carboxy-7-deazaguanine + 1 ammonium # EbN1_C15080 cof_preQ0-syn_6.3.4.20_RXN-12093 : 1 ammonium + 1 ATP + 1 7-carboxy-7-deazaguanine --> 1 H2O + 1 ADP + 1 H+ + 1 preQ0 + 1 phosphate # EbN1_C15090 polyamine_putrescine_4.1.1.17,4.1.1.19_ORNDECARBOX-RXN : 1 H+ + 1 L-ornithine --> 1 CO2 + 1 putrescine # EbN1_C25270 # --- involved in multiple pathways --- # Methanol_1.1.1.1_BR29280 : 1 methanol + 1 NAD+ <=> 1 H+ + 1 formaldehyde + 1 NADH # an alcohol dehydrogenase, e.g. EbN1_C17640, EbN1_C26430, EbN1_PII01610 # ========== Catabolism ========== # # --- Acetate metabolism --- # acetate-metabolism_2.7.2.1_ACETATEKIN-RXN : 1 acetate + 1 ATP --> 1 ADP + 1 acetyl_phosphate # EbN1_C12540, EbN1_C28610 acetate-metabolism_6.2.1.13 : 1 acetate + 1 ATP + 1 CoA --> 1 acetyl-CoA + 1 ADP + 1 phosphate acetate-metabolism_2.3.1.8_PHOSACETYLTRANS-RXN : 1 acetyl-CoA + 1 phosphate <=> 1 acetyl_phosphate + 1 CoA # EbN1_C12530 acetate-metabolism_1.2.1.3_BS189125 : 1 acetaldehyde + 1 H2O + 1 NAD+ <=> 1 acetate + 1 NADH + 1 H+ # EbN1_C12500, EbN1_C17640, EbN1_C28730, EbN1_C28740, EbN1_C28750 acetate-metabolism_6.2.1.1_ACETATE=COA-LIGASE-RXN : 1 acetate + 1 ATP + 1 CoA --> 1 AMP + 1 diphosphate + 1 acetyl-CoA # EbN1_C00960, EbN1_C26860 # --- Phenylalanine (anaerobic & aerobic) --- # Phe-degradation_Pat_2.6.1.57 : 1 L-phenylalanine + 1 2-oxoglutarate --> 1 phenylpyruvate + 1 L-glutamate # EbN1_C03170 Phe-degradation_Pdc_4.1.1.74 : 1 phenylpyruvate --> 1 phenylacetaldehyde + 1 CO2 # EbN1_C37840 Phe-degradation_AorABC_1.2.7.5 : 1 phenylacetaldehyde + 2 oxidized_ferredoxin + 1 H2O --> 1 phenylacetate + 2 reduced_ferredoxin + 1 H+ # EbN1_C30730 Phe-degradation_PadJ/PaaK1_6.2.1.30 : 1 phenylacetate + 1 ATP + 1 CoA --> 1 phenylacetyl-CoA + 1 AMP + 1 diphosphate # EbN1_C13340, EbN1_C20170, EbN1_C31000, EbN1_C32930 Phe-degradation_Pat_1.2.1.39 : 1 phenylacetaldehyde + 1 NADP+ + 1 H2O <=> 1 phenylacetate + 1 NADPH + 1 H+ # EbN1_C28460 Phe-degradation-(anaerobic)_lorBA_1.2.7.8 : 1 phenylpyruvate + 2 oxidized_ferredoxin + 1 CoA --> 1 phenylacetyl-CoA + 2 reduced_ferredoxin + 1 CO2 # EbN1_C00650, EbN1_C00660 # --- Phenylacetyl-CoA (anaerobic) --- # PheAc-degradation-(anaerobic)_PadJ_6.2.1.30_RXN-10819 : 1 ATP + 1 phenylacetate + 1 CoA --> 1 AMP + 1 phenylacetyl-CoA + 1 diphosphate # EbN1_C13340, EbN1_C20170, EbN1_C31000, EbN1_C32930 PheAc-degradation-(anaerobic)-PadBCD_1.17.5.1_PHENACEOX-RXN : 1 phenylacetyl-CoA + 2 ubiquinone-8 + 1 H2O --> 2 H+ + 1 phenylglyoxylyl-CoA + 2 ubiquinol-8 # EbN1_C30920, EbN1_C30930, EbN1_C30940 PheAc-degradation-(anaerobic)-PadK_3.1.2.- : 1 phenylglyoxylyl-CoA + 1 H2O --> 1 phenylglyoxylate + 1 CoA # EbN1_C31020 PheAc-degradation-(anaerobic)_1.2.1.58_PHENGLYOXRED-RXN : 1 phenylglyoxylate + 1 CoA + 1 NAD+ --> 1 benzoyl-CoA + 1 CO2 + 1 NADH + 1 H+ # EbN1_C30950, EbN1_C30960, EbN1_C30970, EbN1_C30980, EbN1_C30990 # --- Phenylacetyl-CoA (aerobic) --- # PheAc-degradation-(aerobic)_PaaK1_6.2.1.30 : 1 ATP + 1 phenylacetate + 1 CoA --> 1 AMP + 1 phenylacetyl-CoA + 1 diphosphate # EbN1_C13340, EbN1_C20170, EbN1_C31000, EbN1_C32930 PheAc-degradation-(aerobic)_PaaABCE_1.14.13.149 : 1 phenylacetyl-CoA + 1 NADPH + 1 H+ + 1 O2 --> 1 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA + 1 NADP+ + 1 H2O # EbN1_C20180, EbN1_C20190, EbN1_C20200, EbN1_C20210, EbN1_C20220, EbN1_C32870, EbN1_C32880, EbN1_C32890, EbN1_C32900, EbN1_C32910 PheAc-degradation-(aerobic)_PaaG_5.3.3.18 : 1 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA --> 1 2-oxepin-2(3H)-ylideneacetyl-CoA # EbN1_C20140 PheAc-degradation-(aerobic)_PaaZ_3.3.2.12 : 1 2-oxepin-2(3H)-ylideneacetyl-CoA + 1 H2O --> 1 3-oxo-5,6-dehydrosuberyl-CoA_semialdehyde + 1 H+ # EbN1_C20130, EbN1_C32920 PheAc-degradation-(aerobic)_PaaZ_1.2.1.91 : 1 3-oxo-5,6-dehydrosuberyl-CoA_semialdehyde + 1 NADP+ + 1 H2O --> 1 3-oxo-5,6-dehydrosuberyl-CoA + 1 NADPH + 1 H+ # EbN1_C20130, EbN1_C32920 PheAc-degradation-(aerobic)_PaaJ_2.3.1.223 : 1 3-oxo-5,6-dehydrosuberyl-CoA + 1 CoA --> 1 trans-2,3-dehydroadipyl-CoA + 1 acetyl-CoA # EbN1_C10410, EbN1_C32940 PheAc-degradation-(aerobic)_PaaF_4.2.1.17 : 1 trans-2,3-dehydroadipyl-CoA + 1 H2O --> 1 (3S)-3-hydroxyadipyl-CoA # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 PheAc-degradation-(aerobic)_PaaH_1.1.1.35 : 1 (3S)-3-hydroxyadipyl-CoA + 1 NAD+ --> 1 3-oxoadipyl-CoA + 1 NADH + 1 H+ # EbN1_C10670, EbN1_C10680, EbN1_C12950, EbN1_C12980, EbN1_C29400, EbN1_C30560, EbN1_C32380 PheAc-and-Bz-degradation-(aerobic)_PaaJ_2.3.1.174 : 1 3-oxoadipyl-CoA + 1 CoA --> 1 succinyl-CoA + 1 acetyl-CoA # EbN1_C10410, EbN1_C15700, EbN1_C32940 # --- 3-(4-Hydroxyphenyl)propanoate (anaerobic & aerobic) --- # 4HPP-degradation_EbA5317_6.2.1.34 : 1 3-(4-hydroxyphenyl)propanoate + 1 ATP + 1 CoA --> 1 3-(4-hydroxyphenyl)propanoyl-CoA + 1 AMP + 1 diphosphate # EbN1_C30530 4HPP-degradation_EbA5321_1.3.8.1 : 1 3-(4-hydroxyphenyl)propanoyl-CoA + 1 ETF-Oxidized --> 1 p-coumaroyl-CoA + 1 ETF-Reduced # EbN1_C30570, EbN1_C37600 4HPP-degradation_EbA5318_4.2.1.17 : 1 p-coumaroyl-CoA + 1 H2O --> 1 3-hydroxy-3-(4-hydroxyphenyl)propanoyl-CoA # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 4HPP-degradation_EbA5320_1.1.1.35 : 1 3-hydroxy-3-(4-hydroxyphenyl)propanoyl-CoA + 1 NAD+ --> 1 4-hydroxybenzoyl-acetyl-CoA + 1 NADH # EbN1_C10670, EbN1_C10680, EbN1_C12950, EbN1_C12980, EbN1_C29400, EbN1_C30560, EbN1_C32380 4HPP-degradation_EbA5319_2.3.1.9 : 1 4-hydroxybenzoyl-acetyl-CoA + 1 CoA --> 1 4-hydroxybenzoyl-CoA + 1 acetyl-CoA # EbN1_C11490, EbN1_C12990, EbN1_C20760, EbN1_C29830, EbN1_C30550, EbN1_PII01950 # --- 3-Hydroxybenzoate (anaerobic) --- # 3HBz-degradation-(anaerobic)_HbcL_6.2.1.37 : 1 3-hydroxybenzoate + 1 ATP + 1 CoA --> 1 3-hydroxybenzoyl-CoA + 1 AMP + 1 diphosphate # EbN1_C03800 3HBz-degradation-(anaerobic)_HbrABCD_1.3.7.8 : 2 reduced_ferredoxin + 2 ATP + 1 3-hydroxybenzoyl-CoA + 2 H2O --> 2 ADP + 1 3-hydroxycyclohex-1,5-diene-1-carbonyl-CoA + 2 phosphate + 2 oxidized_ferredoxin # EbN1_C03880, EbN1_C03890, EbN1_C03900, EbN1_C03910, EbN1_C30310, EbN1_C30320, EbN1_C30330, EbN1_C30340 3HBz-degradation-(anaerobic)_EbA736a_1.3.8.7 : 1 3-hydroxycyclohex-1,5-diene-1-carbonyl-CoA + 1 ETF-Reduced --> 1 5-hydroxycyclohex-2-ene-1-carbonyl-CoA + 1 ETF-Oxidized # EbN1_C03840, EbN1_C13000, EbN1_PII01820 3HBz-degradation-(anaerobic)_EbA720,2a_4.2.1.17_1 : 1 5-hydroxycyclohex-2-ene-1-carbonyl-CoA + 1 H2O --> 1 2,5-dihydroxycyclohexane-1-carbonyl-CoA # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 3HBz-degradation-(anaerobic)_EbA720,2a_4.2.1.17_2 : 1 2,5-dihydroxycyclohexane-1-carbonyl-CoA --> 1 6-hydroxycyclohex-2-ene-1-carbonyl-CoA + 1 H2O # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 3HBz-degradation-(anaerobic)_EbA720,2a_4.2.1.17_3 : 1 6-hydroxycyclohex-2-ene-1-carbonyl-CoA + 1 H2O --> 1 2,6-dihydroxycyclohexane-1-carbonyl-CoA # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 3HBz-degradation-(anaerobic)_Had_1.1.1.100 : 1 2,6-dihydroxycyclohexane-1-carbonyl-CoA + 1 NADP+ --> 1 2-oxo-6-hydroxycyclohexane-1-carbonyl-CoA + 1 NADPH + 1 H+ # EbN1_C03780, EbN1_C30430, EbN1_C31380, EbN1_C40580, EbN1_PII01600 3HBz-degradation-(anaerobic)_Oah_3.7.1.21 : 1 2-oxo-6-hydroxycyclohexane-1-carbonyl-CoA + 1 H2O --> 1 3-hydroxypimeloyl-CoA # EbN1_C30420 # --- 3-Hydroxybenzoate (aerobic) --- # check 3HBz-degradation-(aerobic)_MhbM_1.14.13.24 : 1 3-hydroxybenzoate + 1 NADH + 1 H+ + 1 O2 --> 1 gentisate + 1 NAD+ + 1 H2O # EbN1_C07600, EbN1_C32340 3HBz-degradation-(aerobic)_MhbD_1.13.11.4 : 1 gentisate + 1 O2 --> 1 maleylpyruvate + 1 H+ # EbN1_C07580, EbN1_C32350 3HBz-degradation-(aerobic)_MhbI_5.2.1.4 : 1 maleylpyruvate --> 1 fumarylpyruvate # EbN1_C07610 3HBz-degradation-(aerobic)_MhbH_3.7.1.20 : 1 fumarylpyruvate + 1 H2O --> 1 pyruvate + 1 fumarate # EbN1_C07590 # --- Benzoate (anaerobic) --- # Bz-degradation-(anaerobic)_Bcl1_6.2.1.25 : 1 benzoate + 1 ATP + 1 CoA --> 1 benzoyl-CoA + 1 AMP + 1 diphosphate # EbN1_C15630, EbN1_C30440 Bz-degradation-(anaerobic)_BcrABCD_1.3.7.8 : 1 benzoyl-CoA + 2 reduced_ferredoxin + 2 ATP + 2 H2O --> 1 cyclohex-1,5-diene-1-carbonyl-CoA + 2 oxidized_ferredoxin + 2 ADP + 2 phosphate # EbN1_C03880, EbN1_C03890, EbN1_C03900, EbN1_C03910, EbN1_C30310, EbN1_C30320, EbN1_C30330, EbN1_C30340 Bz-degradation-(anaerobic)_Dch_4.2.1.100 : 1 cyclohex-1,5-diene-1-carbonyl-CoA + 1 H2O --> 1 6-hydroxycyclohex-1-ene-1-carbonyl-CoA # EbN1_C30400 Bz-degradation-(anaerobic)_Had_1.1.1.368 : 1 6-hydroxycyclohex-1-ene-1-carbonyl-CoA + NAD+ <=> 1 6-oxo-cyclohex-1-ene-1-carbonyl-CoA + NADH + 1 H+ # EbN1_C30410 Bz-degradation-(anaerobic)_Oah_3.7.1.21 : 1 6-oxo-cyclohex-1-ene-1-carbonyl-CoA + 2 H2O --> 1 3-hydroxypimeloyl-CoA # EbN1_C30420 # --- Benzoate (aerobic) --- # Bz-degradation-(aerobic)_Bcl2_6.2.1.25 : 1 benzoate + 1 ATP + 1 CoA --> 1 benzoyl-CoA + 1 AMP + 1 diphosphate # EbN1_C15630, EbN1_C30440 Bz-degradation-(aerobic)_BoxBA_1.14.13.208 : 1 benzoyl-CoA + 1 NADPH + 1 H+ + 1 O2 --> 1 2,3-epoxy-2,3-dihydrobenzoyl-CoA + 1 H2O + 1 NADP+ # EbN1_C15680, EbN1_C15690 Bz-degradation-(aerobic)_BoxC_4.1.2.44 : 1 2,3-epoxy-2,3-dihydrobenzoyl-CoA + 2 H2O --> 1 3,4-dehydroadipyl-CoA_semialdehyde + 1 formate # EbN1_C15670 Bz-degradation-(aerobic)_BoxD_1.2.1.77 : 1 3,4-dehydroadipyl-CoA_semialdehyde + 1 NADP+ + 1 H2O --> 1 3,4-dehydroadipyl-CoA + 1 NADPH + 1 H+ # EbN1_C15650 Bz-degradation-(aerobic)_4.2.1.17 : 1 3,4-dehydroadipyl-CoA + 1 H2O --> 1 (3S)-3-hydroxyadipyl-CoA # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 # --- beta-oxidation --- # Beta-oxidation_1.1.1.35_BR22610 : 1 3-hydroxypimeloyl-CoA + 1 NAD+ <=> 1 H+ + 1 NADH + 1 3-oxopimeloyl-CoA # EbN1_C10670, EbN1_C10680, EbN1_C12950, EbN1_C12980, EbN1_C29400, EbN1_C30560, EbN1_C32380 beta-oxidation_2.3.1.16_RXN-8032 : 1 3-oxopimeloyl-CoA + 1 CoA <=> 1 glutaryl-CoA + 1 acetyl-CoA # EbN1_C12940, EbN1_C29830, EbN1_PII01880, EbN1_PII01950 glutaryl-CoA-degradation_1.3.8.6_GLUTARYL-COA-DEHYDROGENASE-RXN : 1 glutaryl-CoA + 1 ETF-Oxidized + 2 H+ --> 1 crotonyl-CoA + 1 ETF-Reduced + 1 CO2 # manually added 2 H+ to lhs # EbN1_C17000 glutaryl-CoA-degradation_1.1.1.35_RXN-11662 : 1 NAD+ + 1 (S)-3-hydroxybutanoyl-CoA <=> 1 acetoacetyl-CoA + 1 H+ + 1 NADH # EbN1_C10670, EbN1_C10680, EbN1_C12950, EbN1_C12980, EbN1_C29400, EbN1_C30560, EbN1_C32380 # ===== other degradation pathways ===== # # --- phenol (anaerobic) --- # phenol-degradation-(anaerobic)_2.7.-.-_phenol_water_dikinase : 1 phenol + 1 ATP + 1 H2O --> 1 phenyl-phosphate + 1 AMP + 1 phosphate + 2 H+ # ebD7,EbN1_C17790,EbN1_C17780 phenol-degradation-(anaerobic)_6.4.1.-_PHENYLPCARB-RXN : 1 CO2 + 1 phenyl-phosphate + 1 H2O <=> 1 phosphate + 1 H+ + 1 4-hydroxybenzoate # EbN1_C26810,EbN1_C26800 4HBz-degradation-(anaerobic)_6.2.1.27_4-HYDROXYBENZOATE=COA-LIGASE-RXN : 1 CoA + 1 ATP + 1 4-hydroxybenzoate --> 1 AMP + 1 diphosphate + 1 4-hydroxybenzoyl-CoA # EbN1_C30790 4HBz-degradation-(anaerobic)_1.1.7.1_OHBENZCOARED-RXN : 2 H+ + 2 reduced_ferredoxin + 1 4-hydroxybenzoyl-CoA <=> 2 oxidized_ferredoxin + 1 benzoyl-CoA + 1 H2O # EbN1_C20550, EbN1_C20560, EbN1_C20570 4HBz-degradation_3.1.2.2_RXN : 1 4-hydroxybenzoyl-CoA + 1 H2O --> 1 H+ + 1 CoA + 1 4-hydroxybenzoate # EbN1_C39380 # --- 3-hydroxybutanoate --- # 3-hydroxybutanoate-degradation_1.1.1.30_3-HYDROXYBUTYRATE-DEHYDROGENASE-RXN : 1 (R)-3-hydroxybutanoate + 1 NAD+ <=> 1 acetoacetate + 1 NADH + 1 H+ # EbN1_C33530 3-hydroxybutanoate-degradation_2.8.3.5_RXNI-2 : 1 acetoacetate + 1 succinyl-CoA <=> 1 succinate + 1 acetoacetyl-CoA # EbN1_C26870, EbN1_C26880 3-hydroxybutanoate-degradation_2.3.1.9_ACETYL-COA-ACETYLTRANSFER-RXN : 2 acetyl-CoA <=> 1 acetoacetyl-CoA + 1 CoA # EbN1_C11490, EbN1_C12990, EbN1_C20760, EbN1_C29830, EbN1_C30550, EbN1_PII01950 # --- 4-cresol (anaerobic) --- # 4-cresol-degradation_1.17.9.1_1.17.9.1-RXN : 1 4-cresol + 1 H2O + 2 NAD+ --> 2 H+ + 2 NADH + 1 4-hydroxybenzaldehyde # EbN1_C01630, EbN1_C17940, EbN1_C30840 4-cresol-degradation_1.2.1.96_HYDROXYBENZALDEHYDE-OXIDATION-NAD-RXN : 1 4-hydroxybenzaldehyde + 1 NADP+ + 1 H2O <=> 1 NADPH + 2 H+ + 1 4-hydroxybenzoate # EbN1_C17910, EbN1_C30850 # --- toluene (anaerobic) --- # toluene-degradation-(anaerobic)_4.1.99.11_RXN-863 : 1 fumarate + 1 toluene --> 1 (R)-2-benzylsuccinate # EbN1_C10500, EbN1_C10510, EbN1_C10520 toluene-degradation-(anaerobic)_2.8.3.15_RXN-864 : 1 (R)-2-benzylsuccinate + 1 succinyl-CoA <=> 1 succinate + 1 (R)-benzylsuccinyl-CoA # EbN1_C10650, EbN1_C10660 toluene-degradation-(anaerobic)_1.3.8.3_RXN-865 : 1 (R)-benzylsuccinyl-CoA + 1 ETF-Oxidized + 1 H+ --> 1 ETF-Reduced + 1 (E)-2-benzylidenesuccinyl-CoA # EbN1_C10630 toluene-degradation-(anaerobic)_bbsH_4.2.1.-_RXN-902 : 1 (E)-2-benzylidenesuccinyl-CoA + 1 H2O <=> 1 2-carboxymethyl-3-hydroxyphenylpropanoyl-CoA # EbN1_C10620 toluene-degradation-(anaerobic)_bbsD_1.1.1.35_RXN-905 : 1 2-carboxymethyl-3-hydroxyphenylpropanoyl-CoA + 1 NAD+ <=> 1 benzoylsuccinyl-CoA + 1 NADH + 1 H+ # EbN1_C10670, EbN1_C10680, EbN1_C12950, EbN1_C12980, EbN1_C29400, EbN1_C30560, EbN1_C32380 toluene-degradation-(anaerobic)_bbsB_2.3.1.-_RXN-904 : 1 benzoylsuccinyl-CoA + 1 CoA --> 1 benzoyl-CoA + 1 succinyl-CoA # EbN1_C10690 # --- 4-ethylphenol (anaerobic) --- # 4-ethylphenol-degradation-(anaerobic)_1.17.9.1_BS287763 : 1 4-ethylphenol + 1 H2O + 1 NAD+ <=> 1 1-(4'-hydroxyphenyl)ethanol + 1 NADH # EbN1_C01630, EbN1_C17940, EbN1_C30840 4-ethylphenol-degradation-(anaerobic)_1.1.1.-_RXN-9832 : 1 NAD+ + 1 1-(4'-hydroxyphenyl)ethanol --> 1 NADH + 1 H+ + 1 4-hydroxyacetophenone # EbN1_C01610 4-ethylphenol-degradation-(anaerobic)_6.4.1.8_RXN-9833 : 2 H2O + 1 CO2 + 1 4-hydroxyacetophenone + 2 ATP --> 2 ADP + 1 4-hydroxybenzoyl-acetate + 3 H+ + 2 phosphate # EbN1_C13350, EbN1_C13360, EbN1_C13370, EbN1_C13380, EbN1_C13390 4-ethylphenol-degradation-(anaerobic)_6.2.1.16_RXN-9834 : 1 CoA + 1 4-hydroxybenzoyl-acetate + 1 ATP --> 1 diphosphate + 1 AMP + 1 4-hydroxybenzoyl-acetyl-CoA # EbN1_C01690, EbN1_C26650, EbN1_C33080 # --- phthalate (anaerobic) --- from DOI:10.1038/ismej.2016.91 phthalate-degradation-(anaerobic)_2.5.1.129 : 1 FMNH2 + 1 dimethylallyl_diphosphate <=> 1 prenylated_FMNH2 + 1 diphosphate # EbN1_C17710, EbN1_C32670, EbN1_PII00620, EbN1_PII00700 phthalate-degradation-(anaerobic)_2.8.3.- : 1 phthalate + 1 succinyl-CoA --> 1 phthaloyl-CoA + 1 succinate # prenylated_FMNH2 is a cofactor for this enyzme # EbN1_PII00590 phthalate-degradation-(anaerobic)_4.1.1.- : 1 phthaloyl-CoA --> 1 CO2 + 1 benzoyl-CoA # EbN1_PII00690 # --- benzaldehyde (anaerobic) --- # benzaldehyde-degradation-(anaerobic)_1.2.1.28 : 1 benzaldehyde + 1 H2O + 1 NAD+ <=> 1 benzoate + 1 NADH + 1 H+ # EbN1_C32470 # --- benzylamine (anaerobic) --- # benzylamine-degradation-(anaerobic)_1.4.-.-_BS259107 : 1 benzylamine + 1 H2O + 1 NADP+ <=> 1 benzaldehyde + 1 NH3 + 1 NADPH # EbN1_C12450,EbN1_C12420,ebC14 # cofactor unknown # --- cyclohexanecarboxylate --- # cyclohexanecarboxylate-degradation_6.2.1.-_R281-RXN : 1 cyclohexanecarboxylate + 1 CoA + 1 ATP + 1 H2O --> 1 H+ + 1 cyclohexanecarboxyl-CoA + 1 AMP + 1 diphosphate # EbN1_C10980 Cyclohexanecarboxylate-degradation_1.3.99.-_R282-RXN : 1 cyclohexanecarboxyl-CoA + 1 ETF-Oxidized + 1 H+ <=> 1 cyclohex-1-ene-1-carbonyl-CoA + 1 ETF-Reduced # EbN1_C10970 cyclohexanecarboxylate-degradation_4.2.1.17_4.2.1.100_R266-RXN : 1 cyclohex-1-ene-1-carbonyl-CoA + 1 H2O --> 1 2-hydroxycyclohexane-1-carbonyl-CoA # EbN1_C30400 cyclohexanecarboxylate-degradation_1.1.1.-_R267-RXN : 1 2-hydroxycyclohexane-1-carbonyl-CoA + 1 NAD+ <=> 1 H+ + 1 2-ketocyclohexane-1-carboxyl-CoA + 1 NADH # EbN1_C10950 cyclohexanecarboxylate-degradation_4.1.3.-_R268-RXN : 1 2-ketocyclohexane-1-carboxyl-CoA + 1 H2O --> 1 H+ + 1 pimeloyl-CoA # EbN1_C10940 Cyclohexanecarboxylate-degradation_1.3.99.-_RXN : 1 pimeloyl-CoA + 1 NAD+ <=> 1 NADH + 1 H+ + 1 6-carboxyhex-2-enoyl-CoA # no gene candidate, only needed to catabolize cyclohexanecarboxylate cyclohexanecarboxylate-degradation_4.2.1.-_RXN-8031 : 1 6-carboxyhex-2-enoyl-CoA + 1 H2O --> 1 3-hydroxypimeloyl-CoA # EbN1_C10990 # --- ethylbenzene (anaerobic) --- # ethylbenzene-degradation-(anaerobic)_1.17.99.2_RXN-1301 : 1 ethylbenzene + 1 H2O + 1 NAD+ --> 1 NADH + 1 H+ + 1 (S)-1-phenylethanol # # EbN1_C13190, EbN1_C13200, EbN1_C13210, EbN1_C33270, EbN1_C33280, EbN1_C33290 ethylbenzene-degradation-(anaerobic)_1.1.1.311_RXN-1302 : 1 (S)-1-phenylethanol + 1 NAD+ <=> 1 H+ + 1 acetophenone + 1 NADH # EbN1_C13170, EbN1_C33260 ethylbenzene-degradation-(anaerobic)_6.4.1.8_RXN-1303 : 1 H2O + 2 ATP + 1 bicarbonate + 1 acetophenone --> 2 ADP + 1 3-oxo-3-phenylpropanoate + 2 phosphate + 2 H+ # EbN1_C13350, EbN1_C13360, EbN1_C13370, EbN1_C13380, EbN1_C13390 ethylbenzene-degradation-(anaerobic)_6.2.1.30_RXN-1304 : 1 CoA + 1 3-oxo-3-phenylpropanoate + 1 ATP --> 1 3-oxo-3-phenylpropionyl-CoA + 1 AMP + 1 diphosphate # EbN1_C13340, EbN1_C20170, EbN1_C31000, EbN1_C32930 ethylbenzene-degradation-(anaerobic)_2.3.1.16_RXN-2006 : 1 CoA + 1 3-oxo-3-phenylpropionyl-CoA --> 1 benzoyl-CoA + 1 acetyl-CoA # EbN1_C12940, EbN1_C29830, EbN1_PII01880, EbN1_PII01950 # --- 3-hydroxybutanoyl --- # 3-hydroxybutanoyl-degradation_4.2.1.116_BR51003 : 1 (S)-3-hydroxybutanoyl-CoA <=> 1 H2O + 1 crotonyl-CoA # EbN1_C12250 # --- 3-hydroxypropanoyl-CoA --- # 3-hydroxypropanoyl-CoA-degradataion_4.2.1.17_RXN-6383 : 1 3-hydroxypropanoyl-CoA <=> 1 H2O + 1 acryloyl-CoA # EbN1_C03750, EbN1_C03770, EbN1_C07280, EbN1_C10430, EbN1_C10990, EbN1_C12950, EbN1_C12980, EbN1_C21010, EbN1_C30540, EbN1_C32950, EbN1_C37660, EbN1_PII01650, EbN1_PII01860 3-hydroxypropanoyl-CoA-degradation_1.3.1.84_BR49115 : 1 propanoyl-CoA + 1 NADP+ <=> 1 acryloyl-CoA + 1 NADPH + 1 H+ # EbN1_C20830, EbN1_C41390 # --- propanoyl-CoA --- # propanoyl-CoA-degradation_6.4.1.3_PROPIONYL-COA-CARBOXY-RXN : 1 ATP + 1 bicarbonate + 1 propanoyl-CoA --> 1 ADP + 1 (S)-methylmalonyl-CoA + 1 phosphate + 1 H+ # EbN1_C21290, EbN1_C21300 propanoyl-CoA-degradation_5.1.99.1_METHYLACYL-COA-EPIM-RXN : 1 (R)-methylmalonyl-CoA <=> 1 (S)-methylmalonyl-CoA # EbN1_C21340 propanoyl-CoA-degradation_5.4.99.2_METHYLMALONYL-COA-MUT-RXN : 1 (R)-methylmalonyl-CoA <=> 1 succinyl-CoA # EbN1_C21260 # --- glycolaldehyde --- # glycolaldehyde_degradation_1.2.1.3_GLYCOLALD-DEHYDROG-RXN : 1 glycolaldehyde + 1 NAD+ + 1 H2O --> 1 glycolate + 1 NADH + 2 H+ # EbN1_C12500, EbN1_C17640, EbN1_C28730, EbN1_C28740, EbN1_C28750 glycolate_and_glyoxylate_degradation_1.1.99.14 : 1 NAD+ + 1 glycolate <=> 1 NADH + 1 H+ + 1 glyoxylate # EbN1_C25700, EbN1_C25710, EbN1_C25720 # --- indoleacetate (anaerobic) --- # from PMC3370604 indoleacetate-degradation-(anaerobic)_iaaIJK_1.17.-.-_RXN-3181 : 1 (indol-3-yl)acetate + 1 H2O + 1 NAD+ <=> 1 (2-oxo-2,3-dihydroindol-3-yl)acetate + 1 NADH + 1 H+ # EbN1_C11570,EbN1_C11580 indoleacetate-degradation-(anaerobic)_iaaCE_3.5.2.- : 1 (2-oxo-2,3-dihydroindol-3-yl)acetate + 1 ATP + 2 H2O --> 1 2-(2-aminophenyl)butanedioate + 1 ADP + 1 phosphate # EbN1_C11530 indoleacetate-degradation-(anaerobic)_iaaB_6.2.1.-_BS172 : 1 2-(2-aminophenyl)butanedioate + 1 ATP + 1 CoA --> 1 2-(2-aminophenyl)-succinyl-CoA + 1 AMP + 1 diphosphate # EbN1_C11500 indoleacetate-degradation-(anaerobic)_iaaL_2.8.3.- : 1 2-(2-aminophenyl)butanedioate + 1 succinyl-CoA --> 1 2-(2-aminophenyl)-succinyl-CoA + 1 succinate # EbN1_C11600 indoleacetate-degradation-(anaerobic)_iaaGH_5.4.99.- : 1 2-(2-aminophenyl)-succinyl-CoA --> 1 2-aminobenzylmalonyl-CoA # EbN1_C11560 indoleacetate-degradation-(anaerobic)_iaaF_1.3.-.- : 1 2-aminobenzylmalonyl-CoA --> 1 (2E)-3-(2-aminophenyl)prop-2-enoyl-CoA + 2 H+ + 1 CO2 # EbN1_C11540 indoleacetate-degradation-(anaerobic)_iaaP_4.2.1.- : 1 (2E)-3-(2-aminophenyl)prop-2-enoyl-CoA + 1 H2O --> 1 3-(2-aminophenyl)-3-hydroxypropanoyl-CoA # EbN1_C11460 indoleacetate-degradation-(anaerobic)_iaaP_1.1.1.- : 1 3-(2-aminophenyl)-3-hydroxypropanoyl-CoA + 1 NAD+ --> 1 3-(2-aminophenyl)-3-oxopropanoyl-CoA + 1 NADH + 1 H+ # EbN1_C11460 indoleacetate-degradation-(anaerobic)_iaaA_2.3.1.9 : 1 3-(2-aminophenyl)-3-oxopropanoyl-CoA + 1 CoA --> 1 anthraniloyl-CoA + 1 acetyl-CoA # EbN1_C11490, EbN1_C12990, EbN1_C20760, EbN1_C29830, EbN1_C30550, EbN1_PII01950 indoleacetate-degradation-(anaerobic)_3.1.2.-_BS398635 : 1 anthraniloyl-CoA + 1 H2O --> 1 4-aminobenzoate + 1 CoA # EbN1_C39380 indoleacetate-degradation-(anaerobic)_1.3.7.8 : 1 anthraniloyl-CoA + 2 reduced_ferredoxin <=> 1 2-amino-cyclohex-1,5-diene-1-carbonyl-CoA + 2 oxidized_ferredoxin # EbN1_C03880, EbN1_C03890, EbN1_C03900, EbN1_C03910, EbN1_C30310, EbN1_C30320, EbN1_C30330, EbN1_C30340 indoleacetate-degradation-(anaerobic)_spontaneous : 1 2-amino-cyclohex-1,5-diene-1-carbonyl-CoA + 1 H2O --> 1 6-oxo-cyclohex-1-ene-1-carbonyl-CoA + 1 NH3 # spontaneous # --- phenylpropionate --- # phenylpropionate-degradation_6.2.1.25_BS368990 : 1 ATP + 1 phenylpropionate + 1 CoA --> 1 AMP + 1 diphosphate + 1 phenylpropionyl-CoA # EbN1_C15630, EbN1_C30440