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Generated by SRI International Pathway Tools Version 25.0, Authors S An online version of this diagram is available at BioCyc.org. Biosynthetic pathways are positioned in the left of the cytoplasm, degradative pathways on the right, and reactions not assigned to any pathway are in the far right of the cytoplasm. Transporters and membrane proteins are shown on the membrane. Periplasmic (where appropriate) and extracellular reactions and proteins may also be shown. Pathways are colored according to their cellular function. Gcf_005222025Cyc: Escherichia coli 121 Cellular Overview Connections between pathways are omitted for legibility. pro a dicarboxylate a dicarboxylate an amino putrescine putrescine thiosulfate a hexose 6- glycine betaine glycine succinate γ-butyrobetaine L-ascorbate acid a dipeptide a dipeptide a dipeptide poly-β-1,6- 1-(β-D O-acetyl-L-serine O-acetyl-L-serine spermidine spermidine D-mannitol galactitol sulfate phosphate phosphate phosphate betaine Fe 3+ an amino an amino D-cellobiose an aromatic an aromatic a dipeptide 6 phosphate phosphate N-acetyl-D- thiamine cys cys spermidine spermidine protoheme 2+ citrate N -(D-fructosyl)-L-lysine L-proline betaine glutamate L-proline betaine L-carnitine acid an amino acid an amino an amino an amino an amino a tripeptide a tripeptide a tripeptide amino acid amino acid ribofuranosyl) (R)- putrescine Fe N-acetyl-D- molybdate phosphate a hydroxamate 3+ 3+ arbutin shikimate enterobactin 2-oxoglutarate N 6 -(D-psicosyl)-L-lysine D-sorbitol D-glucosamine D-mannitol galactitol N-acetylneuraminate N-acetylneuraminate sulfate sulfate sulfate glycine betaine 4-aminobutanoate 4-aminobutanoate glycine betaine ammonium Fe Fe acid acid acid acid acid glucosamine a dipeptide diphosphate nicotinamide pantothenate spermidine enterobactin muramate sulfate predicted Fe 3+ salicin predicted predicted predicted predicted predicted predicted predicted ABC predicted predicted predicted predicted predicted ABC ABC PEP-driven PEP-driven ABC ABC ABC transporter ABC PEP-driven ABC ABC ABC RS23895 RS19745 RS10320 RS02890 RS13700 RS06425 RS18935 transporter transporter RS12765 RS12770 RS08265 RS20570 RS20575 RS06380 RS20470 RS02380 RS07185 RS05795 RS20165 transporter RS01050 transporter RS01730 RS24720 RS03055 RS04525 transporter RS26845 RS07205 RS07260 RS05915 RS26305 RS01665 RS00415 transporter transporter RS25430 RS06010 RS25690 of glycine transporter RS21215 RS24040 transporter RS23175 RS20580 RS21675 transporter RS01435 RS18675 RS19880 RS21035 RS12735 RS27505 transporter RS03765 RS12585 RS25575 RS01645 RS17670 RS05740 RS14010 RS23675 RS20010 transporter of spermidine/ of spermidine/ of D-mannitol of galactitol of sulfate/ of phosphate of phosphate betaine/ of glycine of L- of Fe3+ of an of a dipeptide putrescine putrescine thiosulfate L-proline betaine ascorbate amino acid poly-β-1,6- O-acetyl-L-serine O-acetyl-L-serine an aromatic an aromatic 1-(β-D (R)- putrescine spermidine spermidine protoheme Fe 2+ N-acetyl-D- D-sorbitol D-glucosamine D-mannitol galactitol 1- molybdate phosphate a hydroxamate N-acetyl-D- D-cellobiose 6'-phosphate thiamine shikimate enterobactin 2-oxoglutarate citrate N 6 -(D-fructosyl)-L-lysine N-acetylneuraminate N-acetylneuraminate sulfate sulfate sulfate L-proline betaine glutamate 4-aminobutanoate L-proline betaine ammonium L-carnitine Fe 3+ Fe 3+ an amino an amino an amino an amino an amino an amino an amino a tripeptide a tripeptide a tripeptide a dipeptide ribofuranosyl) cys cys muramate 6- 6-phosphate 6-phosphate 1-phosphate phosphate phosphate phosphate 3+ arbutin-6-phosphate amino acid amino acid diphosphate pantothenate spermidine enterobactin 6 sulfate a hexose 6- Fe glucosamine N -(D-psicosyl)-L-lysine D-mannitol galactitol 1- glycine betaine 4-aminobutanoate glycine betaine γ acid acid acid acid acid acid acid nicotinamide succinate phosphate -butyrobetaine L-ascorbate 3+ a dipeptide a dipeptide a dipeptide salicin 6-phosphate putrescine putrescine 1-phosphate phosphate thiosulfate phosphate phosphate phosphate glycine Fe an amino a dipeptide pro 6-phosphate a dicarboxylate a dicarboxylate spermidine spermidine sulfate betaine acid glycine betaine Cofactor, Carrier, and Vitamin Biosynthesis Degradation/ NADH repair ATP Utilization/ an inactive 4-amino-4- α-Kdo-(2->4)- an O 6 - a DNA containing L-alanyl-γ-D- a mature iron(III)-[N-(2,3- iron(III)-[N-(2,3- an N ω -(1- GDP-α-D- a [protein]- peptidoglycan D- UDP-N-acetyl- a ribonucleoside phosphoenol an L-asparaginyl- an L-cysteinyl- an L-alanyl- superpathway of ubiquinol- Assimilation - Other a reduced adenosylcobinamide a purine α α methylguanine α dihydroxybenzoyl) a lipid II dihydroxybenzoyl)-L- Fermentation mixed acid fermentation biosynthesis superpathway of pyrimidine Nucleoside and Nucleotide Degradation ribonucleoside SAM deoxy- -L- -Kdo-(2->6)- L-cysteine an apurinic/ glutamyl-meso-2,6- peptidoglycan alanyl-DAP crosslink -D-muramoyl- Asn Cys hydroxy-2- mannose Pro a protein biotin biosynthesis I [2Fe-2S] iron-sulfur superpathway of superpathway of tetrahydrofolate biosynthesis and salvage superpathway of tetrahydrofolate biosynthesis flavin biosynthesis I (bacteria and plants) superpathway of coenzyme A biosynthesis I (bacteria) superpathway of thiamine diphosphate biosynthesis I NAD de novo biosynthesis 5-hydroxybenzimidazolyl citrate lyase activation Secondary Metabolite Biosynthesis uracil degradation III superpathway of pyrimidine flavodoxin (n) diphosphate dGDP pyruvate [tRNA ] [tRNA ] [tRNA ] ATP xanthine xanthine lys RS18805 lys 8 biosynthesis (prokaryotic) superpathway of menaquinol-8 biosynthesis I L-cysteine biosynthesis molybdenum cofactor biosynthesis deoxyribonucleosides degradation superpathway of purine deoxyribonucleosides degradation purine nucleotides degradation II (aerobic) UTP and CTP dephosphorylation I triphosphate ribonucleoside arabinopyranosyl lipid IV (E. coli) in DNA apyrimidinic site diaminopimeloyl- UDP-N-acetyl- (meso-DAP L-alanyl-γ-D- -L-serine] complex serine trimer] complex oxopropyl) biotin RS20880 I (from aspartate) 5-methylbenzimidazolyl Polyprenyl Biosynthesis NADH acetoacetate A class 1b HslU--HslV cluster biosynthesis demethylmenaquinol-8 biosynthesis I VI (from L-methionine) adenosylcobamide biosynthesis ribonucleosides degradation 5'-triphosphate α uracil uracil 3-methyl-2- a 5,10- adenosylcobamide biosynthesis degradation reductase ditrans,octacis D-alanine -D-muramate containing) glutamyl-meso-2,6- serine-type ribonucleoside- -[protein]- GDP-mannose peptidase from adenosylcobinamide-GDP 3'-dephospho-CoA methylerythritol phosphate pathway I phosphoenolpyruvate ADP 2'-deoxycytidine uracil UTP bifunctional murein IPP a malonyl-[acp] chorismate oxobutanoate methylenetetrahydrofolate cys from adenosylcobinamide-GDP autoinducer AI-2 biosynthesis I aerobactin myo-inositol polyisoprenoid biosynthesis (E. coli) cytidine (to acetyl CoA) -undecaprenyl bifunctional endonuclease III: diaminopimeloyl- NADPH- D-Ala-D-Ala NADPH- diphosphate aminoacyl-tRNA aminoacyl-tRNA L-arginine mannosyl Cys- ATPase L-cysteine desulfurase chorismate GTP GTP GTP ATP asp flagellum- AMP bifunctional DD-endopeptidase/ malonyl-ACP O- met cys 5-hydroxybenzimidazole NaMN biosynthesis biosynthesis 2'-deoxyguanosine cytidine anaerobic phosphate DNA-binding C9E50_RS12590 UDP-N- lytic D-alanyl-D-alanine dependent carboxypeptidase dependent reductase: pyruvate hydrolase: hydrolase: hydrolase: tRNA(Pro) bifunctional subunit: met RS25515 met isopentenyl- isochorismate methionine L-aspartate 5-methylbenzimidazole NaMN 2-(5''-triphosphoribosyl)- D-glyceraldehyde specific cytidine pyrimidine CTP synthase nucleoside acetoacetate adenosylcobinamide murein LD- uracil RS06870 uracil methyltransferase isochorismate 3-methyl-2-oxobutanoate cysteine pyruvate pyruvate kinase: pyk phosphoenolpyruvate deaminase: cdd ribonucleoside- transcriptional acetylmuramate:L- transglycosylase ferric chelate DacD: dacD ferric chelate nrdF nrdE kinase: pyk C9E50_RS15575 C9E50_RS15575 protein C9E50_RS09445 /Cys- biotin-- hslU diphosphate cysteine synthase GTP GTP adenosyltransferase: oxidase: nadB 3'-dephosphocoenzyme- 3-phosphate D-glucopyranose ATP deaminase: 2'-deoxyadenosine utilization uridine (glutamine triphosphatase acetoacetyl-CoA kinase/ bifunctional DNA- carboxypeptidase: BioC: bioC synthase GTP cyclohydrolase hydroxymethyltransferase: desulfurase cysteine molybdopterin- SAM IPP pyruvate kinase I: carboxylase: pyrimidine 5'- triphosphate lipid IV(A) 4- regulator/O6- alanyl-gamma-D- domain-containing reductase: reductase: deglycase tRNA(Cys) [acetyl-CoA- Delta-isomerase: desulfurase EntC: entC cyclohydrolase cyclohydrolase metK 2-iminosuccinate nicotinate-nucleotide-- A synthase: lys 6-phosphate (R)-NADHX synthase cdd thymidine protein hydrolyzing) NudI: nudI transferase: adenosylcobinamide- formamidopyrimidine mepS serine-type [+ 2 isozymes] ribonucleoside- aminoacyl-tRNA aminoacyl-tRNA GDP-mannose a peptide a malonyl-[acp] methyl ester EntC: entC II: ribA panB CsdA: csdA desulfurase synthase GTP nicotinate-nucleotide-- C9E50_RS12370 C9E50_RS26630 nucleotidase: pyrimidine/purine methylguanine-DNA nfeF nfeF deacylase carboxylase] CsdA: csdA I FolE: folE I FolE: folE SAM dimethylbenzimidazole C9E50_RS20465 1-deoxy-D-xylulose- bifunctional FliI: fliI pyrimidine/purine A: rutA : pyrG C9E50_RS12275 reductase- phosphate amino-4-deoxy-L- glycosylase/ glutamyl- meso- protein: D-Ala-D-Ala diphosphate hydrolase: hydrolase: HchA: hchA mannosyl predicted C9E50_RS04750 isochorismate CsdA: csdA adenylyltransferase dimethylbenzimidazole isopentenyl- C9E50_RS24390 nucleoside methyltransferase
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