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Generate Metabolic Map Poster Authors: Pallavi Subhraveti Ron Caspi Peter Midford Peter D Karp 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. Ingrid Keseler Periplasmic (where appropriate) and extracellular reactions and proteins may also be shown. Pathways are colored according to their cellular function. Gcf_000023265Cyc: Acidimicrobium ferrooxidans DSM 10331 Cellular Overview Connections between pathways are omitted for legibility. Anamika Kothari Macromolecule Modification Fatty Acid and Amine and C1 Compound Lipid Degradation Degradation/ Polyamine Utilization and Utilization/ UDP-N-acetyl- undecaprenyl- sn-glycero-3- apo-[propionyl- a peptidoglycan L-alanyl-γ-D- Biosynthesis tRNA processing Assimilation β Assimilation - Other cob(II)yrinate a,c- Cofactor, Carrier, and Vitamin Biosynthesis oleate -oxidation α-D-glucosamine diphospho-N- 2-methylbutanoate phospho-N- CoA:carbon- 2-oxobutanoate pyruvate dimer (meso- glutamyl-L-lysyl- a protein cob(II)yrinate a,c-diamide flavin biosynthesis I (bacteria and plants) adenosylcobinamide-GDP mycothiol biosynthesis superpathway of thiamine diphosphate biosynthesis II benzimidazolyl adenosylcobamide Fatty Acid and Lipid Biosynthesis ATP roseoflavin biotin RS01180 biotin diamide biosynthesis I putrescine formate acrylonitrile acetylmuramoyl- (arachidonoyl) dioxide ligase diaminopimelate D-alanyl-D-alanine biosynthesis II (late salvage from cobinamide I biosynthesis from adenosylcobinamide-GDP a polycistronic biotin 5'-phosphate ATP-dependent (early cobalt insertion) biosynthesis I oxidation to CO degradation I γ containing) 2 oleate L-alanyl- -D- ethanolamine (ADP-forming)] Clp protease: cobalt incorporation) D-glucopyranose palmitate biosynthesis (type II fatty acid synthase) tRNA precursor acetate- acetolactate uroporphyrinogen-III GTP cob(II)inamide 6-phosphate cys benzimidazole fatty acid elongation -- saturated glutamyl-L-lysyl- penicillin- AFER_RS03920 long-chain-fatty- -CoA synthase + + uroporphyrinogen-III a [ThiS sulfur- arg formate acrylonitrile D-alanyl-D-alanine bifunctional clpX H RS01510 H uroporphyrinogen-III cob(I)yrinic acid inositol-3- UDP-N- ligase: acs glycerophosphodiester biotin/lipoate A/ penicillin- binding uroporphyrinogen-III carrier protein] nicotinate-nucleotide-- formate acid--CoA ligase: large subunit: riboflavin kinase/ C-methyltransferase: bifunctional a,c-diamide phosphate SufS family an acetoacetyl-[acp] acetylglucosamine- phosphodiesterase: B protein ligase: binding protein ATP-dependent C-methyltransferase: dimethylbenzimidazole an acetoacetyl-[acp] dehydrogenase AFER_RS07040 acetate-- AFER_RS08300 FAD synthetase: cobA 3,4-dihydroxy- adenosyltransferase: synthase: cysteine -N-acetylmuramyl- AFER_RS11220 AFER_RS05135 protein 2: mrdA Clp protease cobA a tRNA precursor a tRNA precursor with subunit alpha: fdhF [+ 2 isozymes] CoA ligase: acetolactate AFER_RS03295 precorrin-1 AFER_RS03715 desulfurase: phosphoribosyltransferase: 3-oxoacyl-[acyl- agmatine acrylamide (pentapeptide) 2: mrdA NAD(P) precorrin-1 2-butanone- AFER_RS00185 CO AFER_RS08505 glycerophosphoryl biotin/lipoate A/ proteolytic + + cobT with a 5' extension a 5' extension and 2 synthase: ilvN γ H H 4-phosphate cob(I)yrinic acid D-glyceraldehyde sufS carrier-protein] oleoyl-CoA pyrophosphoryl- diester B protein ligase: L-alanyl- -D- subunit: transhydrogenase uroporphyrinogen-III an [L-cysteine a carboxy- benzimidazole agmatinase: and a long 3' trailer a short 3' extension amidase: AFER_RS08020 roseoflavin uroporphyrinogen-III synthase/GTP a,c-diamide Ins(3)P UDP-N-acetyl- 3-phosphate reductase: fabG undecaprenol N- phosphodiesterase: AFER_RS05380 a peptidoglycan glutamyl-L- D-ala AFER_RS09035 C-methyltransferase: α desulfurase]-S- adenylated-[ThiS adenosylcobinamide- ribotide speB ribonuclease D: ribonuclease acyl-CoA/acyl-ACP AFER_RS01195 (2S)-2- adenine C-methyltransferase: cyclohydrolase II: adenosyltransferase: -D-glucosamine 1-deoxy-D- gly a (3R)-3- acetylglucosamine AFER_RS08065 with D,D cross- D-ala lysyl-D-alanine cobA sulfanyl-L-cysteine sulfur-carrier protein] GDP phosphate AFER_RS08370ribonuclease P protein [+ 2 isozymes] methylbutanoyl- diphosphate a peptide cobA a 3-oxoacyl-[acp] dehydrogenase: transferase: AMP (S)-2-aceto-2- dinucleotide H + RS09415 H + AFER_RS08720 [corrinoid cobO xylulose-5- hydroxybutanoyl-[acp] ribonuclease D: PH: rph component: CoA [propionyl- links (meso- 2,5-diamino-6- D-inositol-3-phosphate putrescine AFER_RS09140 AFER_RS11060 hydroxybutanoate precorrin-2 adenosyltranferase]- phosphate glycine 5-methylbenzimidazolyl adenosylcobamide AFER_RS08370 AFER_RS10560 acrylate ditrans,octacis- UDP CoA:carbon- diaminopimelate precorrin-2 (5-phospho-D- glycosyltransferase: adenosylcobinamide- 3-hydroxyacyl- sn-glycerol cob(II)inamide synthase: oxidase biosynthesis from adenosylcobinamide-GDP (2E,9Z)- undecaprenyldiphospho- anandamide dioxide ligase containing) AFER_RS01840 GDP ACP dehydratase a tRNA precursor with 3-phosphate precorrin-2 C(20)- ribosylamino) AFER_RS02455 ThiO: thiO 3-oxoacyl- octadecenoyl-CoA N-acetyl-(N-acetyl-β-D- (ADP-forming)] a thiocarboxylated- ribazoletransferase: FabZ: fabZ a short 3' extension F0F1 ATP pyrimidin- H + H + methyltransferase: 1-O-(2-acetamido- AIR 1-deoxy-D-xylulose [ThiS sulfur- AFER_RS02740 5-methylbenzimidazole [acyl-carrier- a tRNA precursor glucosaminyl)muramoyl- synthase 4(3H)-one 2-iminoacetate γ cobI [corrinoid 2-deoxy-α-D- 5-phosphate carrier protein] a (2E)-but-2-enoyl-[acp] protein] with a 5' extension L-alanyl- -D-glutamyl-L- sirohydrochlorin bifunctional α α nicotinate-nucleotide-- ribonuclease ribonuclease D: adenosyltranferase]- glucopyranosyl)-1D-myo phosphomethylpyrimidine Co -[ - reductase: (S)-3-hydroxy-(9Z) lysyl-D-alanyl-D-alanine precorrin-3A diaminohydroxyphosphoribosylaminopyrimidine dimethylbenzimidazole beta-ketoacyl- PH: rph AFER_RS08370 synthase ThiC: thiC thiazole synthase: (benzimidazolyl)]-Co enoyl-ACP fabG + + deaminase/5-amino-6-(5-phosphoribosylamino) cob(I)inamide -inositol 3-phosphate phosphoribosyltransferase: ACP synthase II: -octadecenoyl-CoA H RS00750 H AFER_RS05910 β-adenosylcobamide reductase uracil reductase RibD: ribD cob(I)yrinic acid cobT AFER_RS05585 a (3R)-3- quinoxaline-2- a peptidoglycan a uridine 38- an [amino-group HMP-P 5'-phosphate FabI: fabI a 2,3,4-saturated adenosylcobinamide a purine H O carbamoyl a uracil in DNA 5-amino-6-(5- a,c-diamide hydroxyacyl-[acyl- aryl-carrier protein diphosphate 2 asp dimer (E. faeciums) carrier protein]- cobalt- 2-[(2R,5Z)-2-carboxy- thiamine diphosphate salvage II adenosylcobinamide- 5-methylbenzimidazole dipyrromethane carboxyl adenylate 40 in tRNA ATP phospho-D- adenosyltransferase: fatty acyl-[acp] ribonucleoside phosphate tRNA γ sirohydrochlorin 1-(2-acetamido- bifunctional 4-methylthiazol-5(2H)- ribotide phosphate a butanoyl-[acp] 3-hydroxyacyl-carrier protein] biotin C-terminal- - sulfite RS08665 sulfite ribosylamino)uracil GDP cofactor biosynthesis 3-oxo-(9Z)- 5'-triphosphate precorrin-3B D-ribulose AFER_RS03715 2-deoxy-α-D- hydroxymethylpyrimidine ylidene]ethyl phosphate ACP penicillin- pseudouridine (L-glutamate 5- bifunctional 4-amino-2-methyl-5- Coα-[α- an apo-[hydroxymethylbilane an uncharged tRNA octadecenoyl-CoA uracil-DNA N-acetyl- 5-phosphate cob(I)yrinic acid glucopyranosyl)- kinase/ beta-ketoacyl- dehydratase acyl carrier inorganic aspartate/ornithine binding synthase: semialdehyde-2- precorrin-3B C(17)- diaminohydroxyphosphoribosylaminopyrimidine pyrimidinemethanol (benzimidazolyl)]-Co adenosylcobinamide- synthase]-L-cysteine acetyl-CoA C- bifunctional glycosylase: gamma- bifunctional a,c-diamide 1D-myo-inositol phosphomethylpyrimidine ACP synthase II: FabZ: fabZ protein: acpP diphosphatase: carbamoyltransferase: protein AFER_RS10750 biotin--[acetyl- yl)-L-glutamate methyltransferase: deaminase/5-amino-6-(5-phosphoribosylamino) bifunctional β-adenosylcobamide GDP acyltransferase: adenosylcobinamide AFER_RS02255 glutamyl- sulfite RS05780 sulfite 3,4-dihydroxy- adenosyltransferase: N-acetyl-1-D-myo kinase: thiD AFER_RS05585 acyl carrier AFER_RS07715 AFER_RS08605 2: mrdA RluA family CoA-carboxylase] cobalt-factor III cobJ uracil reductase RibD: ribD 2-(2-carboxy-4- hydroxymethylpyrimidine ribazoletransferase: AFER_RS07055 kinase/ uracil-DNA phosphate 2-butanone- cobO -inositol-2-amino- a [hydroxymethylbilane protein: RdgB/HAM1 family pseudouridine ligase: 5-amino-6-(5- HMP-PP methylthiazol-5- kinase/ AFER_RS02740 adenosylcobinamide- aspartate glycosylase: an [amino-groupreductase: precorrin-4 4-phosphate 2-deoxy-α-D- adenosylcobalamin synthase] ES intermediate a 3-oxohexanoyl-[acp] acetyl-CoA C- non-canonical synthase: AFER_RS10855 phospho-D- yl)ethyl phosphate 2 lipoprotein posttranslational AFER_RS07810 carbamoyltransferase a peptidoglycan adenosylcobinamide salvage from cobalamin phosphomethylpyrimidine enoyl-ACP acyltransferase: phosphate AFER_RS04220 carrier protein]-argC serine serine synthase/GTP glucopyranoside Coα-[α-(5- modification Pentose Phosphate Pathways purine NTP AFER_RS06220 γ RS05440 cobalt-precorrin-4/ ribitylamino)uracil kinase: thiD hydroxymethylbilane reductase guanylyltransferase: catalytic subunit: tetramer with a D-ala 38- C-terminal- - cyclohydrolase II: deacetylase: 3-oxotehexanoyl- a trans-2- AFER_RS01350 pyrophosphatase: a pseudouridine thr thr bifunctional cob(I)alamin
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