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 me Periplasmic (where appropriate) and extracellular reactions and proteins may also be shown. Pathways are colored according to their cellular functio E3m17Cyc: Aidingimonas sp. E3M17 Cellular Overview Connections between pathways are omitted for legibility. a siderophore a siderophore a siderophore Fe 3+ Fe 3+ Fe 3+ cis-vaccenate cis-vaccenate a siderophore a siderophore a siderophore a siderophore a siderophore choline Fe 3+ a 2,3,4-saturated fatty acid a 2,3,4-saturated fatty acid Fe 3+ Fe 3+ Fe 3+ Fe 3+ Fe 3+ ammonium ammonium ethanolamine Ferric Ferric Ferric siderophore siderophore siderophore Long- Long- Ferric Ferric Ferric Ferric Ferric Iron(III) PnuC-like transport transport transport Ammonium Ammonium chain-fatty- chain-fatty- siderophore siderophore siderophore siderophore siderophore dicitrate transporter system, system, system, transporter transporter acid--CoA acid--CoA transport transport transport transport transport transport linked to periplasmic biopolymer periplasmic ligase (EC ligase (EC system, system, system, system, system, system binding transport binding protein TonB protein ExbB protein TonB ammonium ammonium choline cis-vaccenoyl-CoA cis-vaccenoyl-CoA a siderophore a siderophore a siderophore a siderophore a siderophore ethanolamine Fe 3+ a 2,3,4-saturated fatty acyl CoA a 2,3,4-saturated fatty acyl CoA Fe 3+ Fe 3+ Fe 3+ Fe 3+ Fe 3+ a siderophore a siderophore a siderophore Fe 3+ Fe 3+ Fe 3+ Macromolecule Modification Cofactor, Prosthetic Group, Electron Carrier, and Vitamin Biosynthesis Aldehyde Degradation Other Biosynthesis Hormone Biosynthesis Secondary C1 Compound Utilization and Assimilation Metabolite a long-chain 2,3,4- (6Z,9Z,12Z,15Z,18Z)-3- (2E,6Z,9Z,12Z,15Z,18Z) GlcNAc-1,6- a peptidoglycan 3S-(4-hydroxyphenyl)-3- a peptide with 3-oxo-2-(cis-2'-pentenyl) N-acetyl-α- (6R)-6,7- (2E,9Z)- (11Z)-(S)-3- (S)-3- 24-hydroxy-3- a (3R)-3- a (3R)-3- a (3R)-3- a (3R)-3- a uridine 516 a glucosylated tRNA-uridine 2-thiolation (bacteria) a [procollagen]-L-proline α ω 3-hydroxyisovaleryl-CoA sn-glycero-3- uroporphyrinogen-III (3Z,5E)-dodeca- 2-deoxygluconate superpathway of ubiquinol-8 biosynthesis (prokaryotic) Biosynthesis alginate degradation Polymeric Compound Degradation methylglyoxal degradation I 2-oxoglutarate , -9Z-octadecenedioate anhMurNAc- an alkylated DNA an N-terminal -cyclopentane-1-(3R- D-muramoyl- hydroxyhexadec- hydroxybutanoyl- oxocholest-4- hydroxyhexacosanoyl- hydroxydocosanoyl- hydroxyicosanoyl- hydroxypimeloyl- glycogenin a cerotoyl-[acp] superpathway of coenzyme A biosynthesis I (bacteria) polyisoprenoid biosynthesis (E. coli) 10 Aromatic Compound Biosynthesis L-dopa and L- indole-3-acetate formaldehyde oxidation saturated fatty acid oxotetracosapentaenoyl-CoA -tetracosahexaenoyl-CoA H O ATP dimer with hydroxy-propanoyl-CoA phosphoethanolamine dihydrobiopterin hexadecenoyl-CoA 3,5-dienoyl-CoA in 16S rRNA [2Fe-2S] iron-sulfur cluster biosynthesis N -formyl-tetrahydrofolate biosynthesis glycogen degradation II chitin degradation III (Serratia) formaldehyde oxidation 2 superpathway of geranylgeranyl superpathay of heme b NAD biosynthesis from 2- myo-inositol VII (THF pathway) Similar to eukaryotic Long-chain-fatty- Long-chain-fatty- 3-ketoacyl-CoA thiolase Enoyl-CoA hydratase L-Ala-γ-D-Glu- pentapeptide Enoyl-CoA hydratase Enoyl-CoA hydratase Glycerophosphoryl DNA-3- Xaa-L-proline hydroxyhexanoyl)-CoA Siroheme synthase / L-alanine(1-) Oxygen- Enoyl-CoA 11-enoyl-CoA CoA en-26-oyl-CoA [acp] 2-deoxy-D- [acp] [acp] [acp] methyl ester Ribosomal 1,4-alpha- flavin biosynthesis I (bacteria and plants) NAD phosphorylation and dephosphorylation 5-hydroxybenzimidazolyl dopachrome biosynthesis IV (bacteria) II (glutathione-dependent) DJ-1/YajL/PfpI Enoyl-CoA N-acetylmuramoyl- Enoyl-CoA Enoyl-CoA Enoyl-CoA 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- Enoyl-[acyl- diphosphate biosynthesis II (via MEP) biosynthesis from glutamate amino-3-carboxymuconate cys Peptidyl prolyl 4- acid--CoA ligase acid--CoA ligase (EC 2.3.1.16) @ Acetyl- GMP synthase DAP-D-AlaN-acetylmuramoyl- stems (meso- (EC 4.2.1.17): Enoyl- (EC 4.2.1.17): Enoyl- diester methyladenine Precorrin-2 oxidase insensitive NAD(P) hydratase Enoyl-CoA gluconate 3- glucan 3-methyl-2- a 5,10- biosynthesis biosynthesis alginate methylglyoxal (EC 4.2.1.17) / Delta(3)- superfamily, hydratase (EC L-alanine hydratase (EC [acyl-carrier- [acyl-carrier- [acyl-carrier- [acyl-carrier- small subunit carrier- IPP a tetrahydrofolate semialdehyde adenosylcobamide biosynthesis enterobactin biosynthesis a glycogen chitin hydroxylase, alpha subunit (EC 6.2.1.3): Long- (EC 6.2.1.3): Long- [glutamine-hydrolyzing], L-alanine CoA hydratase CoA hydratase hydratase (EC hydratase (EC hydratase (EC D-glyceraldehyde L-cysteine desulfurase oxobutanoate methylenetetrahydrofolate IPP 2-amino-3- (indole-3-yl)acetonitrile formaldehyde Lactoylglutathione CoA acetyltransferase cis-delta(2)-trans-enoyl- diaminopimelateN-acetylmuramoyl- phosphodiesterase glycosylase: 4.2.1.17): Enoyl- (EC 1.3.1.76) / amidase (EC H nitroreductase (EC 4.2.1.17) 4.2.1.17) / Delta(3) protein] dehydrogenase protein] protein] protein] pseudouridine (glycogen) pyruvate NAD + from adenosylcobinamide-GDP D-glucopyranose formaldehyde includes 4.2.1.17) / Delta(3) 4.2.1.17) / Delta(3) 4.2.1.17) / Delta(3) protein] 3-phosphate glu tyr Cysteine lyase (EC 4.4.1.5): (EC 1.14.11.2): Similar to chain-fatty-acid- chain-fatty-acid- (EC 2.3.1.9): 3- CoA isomerase (EC amidotransferase amidase (EC containing)L-alanine (EC 4.2.1.17) CDS (EC 4.2.1.17) CDS (EC 3.1.4.46): DNA-3- CoA hydratase Sirohydrochlorin 3.5.1.28): N- (EC 1.-.-.-) / : Enoyl-CoA -cis-delta(2) dehydratase, (EC 1.1.1.125) dehydratase, dehydratase, synthase A branching GTP 3-methyl-2-oxobutanoate carboxymuconate- indole-3-acetonitrile 6-phosphate Glycogen chaperone -cis-delta(2) -cis-delta(2) dehydratase, reductase glutamate-tRNA 5-hydroxybenzimidazole NaMN chorismate desulfurase Lactoylglutathione eukaryotic Peptidyl prolyl -CoA ligase (EC -CoA ligase (EC ketoacyl-CoA thiolase 5.3.3.8) / 3-hydroxyacyl- subunit (EC 6.3.5.2) 3.5.1.28): N- amidase (EC Glycerophosphoryl methyladenine ferrochelatase Dihydropteridine hydratase -cis-delta(2) : 2-deoxy-D- (EC 4.2.1.70) enzyme, GH- 1-deoxy-D- Cysteine hydroxymethyltransferase 6-semialdehyde Tyrosinase nitrile hydratase: Polyguluronate Alginate phosphorylase Enoyl-CoA hydratase Enoyl-CoA hydratase protein YajL (EC 4.2.1.17) CDS acetylmuramoyl- -trans-enoyl- -trans-enoyl- -trans-enoyl- FabA form FabA form FabA form FabZ form [FMN] (EC ligase: glutamyl-Q- a 5,10- (EC 2.3.1.16) @ / GMP synthase acetylmuramoyl- 3.5.1.28): N- diester glycosylase (EC (EC 4.99.1.4) / reductase (EC (EC 4.2.1.17) -trans-enoyl- gluconate 3- 13-type (EC desulfurase 5-methyltetrahydrofolate- Nicotinate-nucleotide-- (EC FIG003879: Predicted (EC 2.8.1.7) lyase precursor lyase (EC 2.4.1.1) S-(hydroxymethyl) lyase (EC Similar to eukaryotic Long-chain-fatty- Long-chain-fatty- CoA dehydrogenase (EC 4.2.1.17) / Delta(3)- (EC 4.2.1.17) / Delta(3)- (former ThiJ), L-alanine CoA isomerase (EC 4.2.1.59): (EC 4.2.1.59): (EC 4.2.1.59): (EC 4.2.1.59): : Ribosomal 1.3.1.9), xylulose 5- tRNA synthetase CDS (EC 2.1.2.11): 3- Isochorismate β methylenetetrahydrofolate [glutamine-hydrolyzing], L-alanine CoA isomerase CoA isomerase CoA isomerase 2.4.1.18): 1,4- (EC 2.8.1.7) 3,4-dihydroxy- asp NAD(P) dimethylbenzimidazole 1.14.18.1): amidohydrolase / : Cysteine (EC 4.2.2.11): precursor chitin [(1->4)- -N-acetyl-D- glutathione 4.4.1.5) CDS Peptidyl prolyl 4- acid--CoA ligase acid--CoA ligase 3-ketoacyl-CoA thiolase (EC 1.1.1.35) / 3- acetylmuramoyl- cis-delta(2)-trans-enoyl- Enoyl-CoA Uroporphyrinogen- amidase (EC 1.5.1.34): Oxygen- CDS (EC 5.3.3.8) / 3- 3-hydroxyacyl- dehydrogenase 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- small subunit DMAPP phosphate methyl-2-oxobutanoate -homocysteine quinolinate synthase (EC Ins(3)P : Glycogen (R)-S- cis-delta(2)-trans-enoyl- Glycerophosphoryl DNA-3- parkinsonism- (EC 5.3.3.8) / 3- (EC 5.3.3.8) / 3- inferred Glutamyl-tRNA 2-butanone DMAPP phosphoribosyltransferase desulfurase Polyguluronate chitin degradation II (Vibrio) glucosaminyl] -(1->4)-2- Methylenetetrahydrofolate hydroxybutyryl-CoA ATP pyrophosphatase amidase (EC L-alanine hydratase (EC III methyltransferase insensitive NAD(P) (EC 5.3.3.8) / 3- (EC pseudouridine alpha-glucan synthase : Cysteine methyltransferase transhydrogenase: G1RF3-3957 (indol-3-yl)acetamide (EC 4.2.2.3) phosphorylase Endo- n S-(hydroxymethyl) hydroxylase, alpha subunit (EC 6.2.1.3): Long- (EC 6.2.1.3): Long- (EC 2.3.1.16) @ Acetyl- CoA isomerase (EC CoA isomerase (EC diester methyladenine associated hydroxyacyl-CoA hydroxyacyl-CoA [acyl-carrier- [acyl-carrier- [acyl-carrier- [acyl-carrier- for PFA Aspartate 1- 5.4.4.2) of lactoylglutathione subunit (EC 6.3.5.2) amidase (EC 4.2.1.17) / Delta(3) N-acetylmuramoyl- H nitroreductase Enoyl-CoA hydroxyacyl-CoA hydroxyacyl-CoA (glycogen) desulfurase synthetase (EC 6.1.1.17) 4-phosphate 2-dehydropantoate (EC 2.1.1.13): 5- Quinolinate NAD(P) ATP-NAD (EC 2.4.2.21): dopaquinone (EC 2.8.1.7) lyase : Alginate chitinase: Endo- (acetylamino)-2-deoxy- dehydrogenase (EC 1.14.11.2): Similar to chain-fatty-acid- chain-fatty-acid- CoA acetyltransferase