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_000091785Cyc: Legionella longbeachae NSW150 Cellular Overview Connections between pathways are omitted for legibility. Anamika Kothari sn-glycerol spermidine 3-phosphate putrescine a sulfonate nitrate hydrogencarbonate predicted predicted ABC ABC transporter transporter RS16610 of sn- of spermidine/ glycerol 3- putrescine phosphate a sulfonate nitrate spermidine hydrogencarbonate putrescine sn-glycerol 3-phosphate Amino Acid Degradation Amine and Polyamine Biosynthesis Hormone Biosynthesis Aldehyde Degradation glutaminyl-tRNA gln Aminoacyl-tRNA Charging N 6 -(3-methylbut- a 1-palmitoyl-2- L-alanyl-γ-D- L-alanyl-γ-D- a [bis(guanylyl a [protein] biosynthesis via transamidation core a peptide with homospermidine homospermidine indole-3-acetate L-leucine degradation I a sulfurated 2-en-1-yl)- acyl-sn-glycerol glutamyl-meso-2,6- glutamyl-meso- UDP-N-acetyl- a [glutamine- γ-L-glutamyl- Polyprenyl Biosynthesis L-proline degradation I L-tyrosine degradation I methylglyoxal degradation I oligosaccharide- ATP molybdopterin) cys a type IV prepilin gly an N-terminal C-terminal glu biosynthesis II L-arginine degradation [sulfur carrier] 37 synthetase]- ATP biosynthesis I biosynthesis TCA cycle TCA cycle I (prokaryotic) adenosine lipid A (E. coli 3-phosphate diaminopimeloyl- UDP-N-acetyl- diaminopimelate α-D-muramate cofactor D-alanine L-alanine L-glutamate biotin II (AST pathway) L-tyrosine glu IV (bacteria) L-histidine degradation I in tRNA K-12 core type) D-alanine α-D-muramate chaperone]- putrescine putrescine (indole-3-yl) octaprenyl di-trans,poly-cis leu methylglyoxal diphosphate -undecaprenyl acetyl-CoA pro tyr (no GlcNAc) UDP-N- L-cysteine prepilin glutathione aminopeptidase homospermidine homospermidine acetonitrile arg lactoylglutathione tRNA (N6-isopentenyl 30S tyr tyr nitrile hydratase bifunctional acetylmuramate:L- bifunctional [glutamate- peptidase: synthetase: N: pepN biotin-- synthase: synthase: biosynthesis phosphate biosynthesis arginine N- his lyase: UDP-N- ribosomal RS12835 gln subunit beta: 4-methyl-2- proline adenosine(37)-C2)- lipid IV(A) alanyl-gamma-D- -ammonia ligase]- [acetyl-CoA- LLO_RS16880 LLO_RS16880 (2E,6E)-farnesyl (2E,6E)-farnesyl oxaloacetate 3-(4- LLO_RS17315 acetylmuramate:L- IscS subfamily LLO_RS08110 LLO_RS17480 aminopeptidase protein sym- sym- LLO_RS09720 IPP IPP succinyltransferase: histidine (R)-S- methylthiotransferase adenylyl-L-tyrosine carboxylase] trp trp an L-glutamyl- diphosphate diphosphate 2-methylcitrate oxopentanoate dehydrogenase/L- hydroxyphenyl) palmitoyltransferase alanyl-gamma-D- glutamyl- meso- cysteine prepilin glutathione N: pepN S6--L- tyr tyr (indol-3-yl) 2 LLO_RS08720 ammonia- lactoylglutathione MiaB: miaB imidazole Gln homospermidine homospermidine N -succinyl- glutamate gamma- PagP: pagP diaminopimelate phosphorylase/ ligase: [tRNA ] acetamide synthase: prpC pyruvate lyase: hutH glutamyl- meso- desulfurase: peptidase: synthase: glutamate RS12840 L-arginine semialdehyde [+ 2 isozymes] ligase: mpl [glutamate-- LLO_RS10545 glycerol isoprenyl malate dehydrogenase:citrate (Si)-synthase: gltA urocanate hydroxyacylglutathione diaminopimelate LLO_RS11720 LLO_RS08195 gshB ligase: rimK Asp-tRNA(Asn) amidase: octaprenyl 4-hydroxyphenylpyruvate ammonia-ligase] trp trp phosphate LLO_RS12985 N-succinylarginine dehydrogenase hydrolase: gloB 6 a 2-acyl-sn a hepta- ligase: mpl /Glu-tRNA(Gln) LLO_RS08515 diphosphate transferase: 3-methylbutanoyl- dioxygenase: hppD N -(3-methylbut- cysteine ala a peptide V-type ATP synthase: PutA: putA urocanate 5'-deoxyadenosine an unsulfurated adenylyltransferase: + + synthase: LLO_RS13650 malate dehydrogenase: dihydrolase: astB (S)-1-pyrroline- 2-en-1-yl)-2- met -glycerol 3- acylated core UDP-N-acetyl- desulfurase: a [protein] C- biotinyl-5'- H H hisF hisH amidotransferase: amidase: CoA hydratase: (R)-lactate [sulfur carrier] glnE a cleaved type synthase LLO_RS13530 LLO_RS14435 2 5-carboxylate homogentisate (methylsulfanyl) phosphate oligosaccharide UDP-N-acetylmuramoyl- α-D-muramoyl- LLO_RS15510 a peptide norophthalmate terminal α-L- adenylate gatC gatA gatB LLO_RS08535 isovaleryl-CoA N -succinyl- LLO_RS07520 IV prepilin [+ 7 isozymes] di-trans,octa-cis (S)-malate citrate adenosine 37 lipid A (E. coli γ L-alanyl-γ-D- glutamate-α- a 5-phosphooxy- octaprenyl dehydrogenase: L-ornithine L-alanyl- -D- (indol-3-yl)acetate -undecaprenyl homogentisate 4-imidazolone- in tRNA K-12 type) glutamyl-meso-2,6- a [glutamine L-glutamate ammonium L-glutamyl- diphosphate LLO_RS05520 glutamyl-meso-2,6- a [bis(guanylyl 1,2-dioxygenase: + F0F1 ATP + Gln diphosphate 5-propanoate synthetase]-O H H [tRNA ] synthase: aconitate hydratase: diaminopimeloyl- diaminopimelate ala molybdopterin) 3-methylcrotonyl- LLO_RS05895 4 -(5'-adenylyl) synthase LLO_RS02325 L-glutamate-5- imidazolonepropionase: pyruvate D-alanine cofactor LLO_RS16895 CoA N 2 -succinyl- 4-maleyl- -L-tyrosine Asp-tRNA(Asn) [+ 4 isozymes] semialdehyde LLO_RS04200 chaperone]-S- class II fumarate methylcrotonoyl- L-glutamate 5- /Glu-tRNA(Gln) all-trans- di-trans,octa-cis acetoacetate sulfanyl-L-cysteine hydratase: fumC CoA carboxylase: semialdehyde bifunctional N-formimino- met RS05480 met amidotransferase: octaprenyl -undecaprenyl fumarate maleylacetoacetate cis-aconitate LLO_RS05505 succinylglutamate- proline gatC gatA gatB diphosphate phosphate aconitate hydratase: isomerase: maiA L-glutamate semialdehyde dehydrogenase/L- a mature peptidoglycan a carboxy- a [glutamine L-alanyl-γ-D- L-alanyl-γ-D- LLO_RS02325 3-methylglutaconyl- a [DNA]-3'- a 5'-phospho- + formimidoylglutamase: NAD + menadione NADH H an acyl-CoA H O a D-tyrosyl- succinate dehydrogenase dehydrogenase: glutamate gamma- 4-fumaryl- (meso-diaminopimelate adenylated- synthetase]-O glutamyl-meso-2,6- glutamyl-L-lysyl- 2 ser sec thr thr [+ 4 isozymes] CoA Secondary Metabolite hydroxyl [DNA] cys [tRNA Tyr ] ATP roseoflavin a tRNA an L-glutaminyl- LLO_RS04190 4 flavoprotein subunit: sdhA astD semialdehyde acetoacetate containing) [ThiS sulfur- -(5'-adenylyl) diaminopimeloyl- D-alanyl-D-alanine RS13265 [tRNA Gln ] methylglutaconyl- Degradation 5'-phosphate 2 dehydrogenase -L-tyrosine tRNA charging CoA hydratase: N - carrier protein] D-alanine serine serine glu DNA ligase: NADH-quinone tol-pal system- LLO_RS05500 succinylglutamate PutA: putA myo-inositol degradation I lytic murein penicillin- D-tyrosyl- serine- LLO_RS05160 oxidoreductase: associated a sugar RS14200 a sugar succinate D-threo-isocitrate transglycosylase LD- binding tRNA(Tyr) bifunctional -tRNA IscS subfamily LLO_RS01430 bifunctional [glutamate- acyl-CoA gln Gln NADP-dependent isocitrate HMG-CoA glu fumarate NAD- riboflavin a tRNA myo-inositol B: mltB cysteine -ammonia ligase]- carboxypeptidase: protein deacylase: ligase: Ala asp ser dependent LLO_RS01435 thioesterase: a tRNA ala tRNA asp ser a tRNA dehydrogenase: icd LLO_RS02355 2: mrdA LLO_RS05405 kinase/FAD serS elongator ADP-forming succinate- hydroxymethylglutaryl- [+ 4 isozymes] DNA ligase desulfurase: nuoE nuoF adenylyl-L-tyrosine ybgC phe a tRNA Phe gly a tRNA Gly met initiator tRNA Met met thr a tRNA Thr asn tRNA Asn pro a tRNA Pro val a tRNA Val lys a tRNA Lys cys a tRNA Cys glu a tRNA glu his a tRNA His trp a tRNA Trp ile a tRNA Ile leu a tRNA Leu arg a tRNA Arg tyr a tRNA Tyr inositol 2- synthetase: a sugar RS11370 a sugar Met -CoA ligase: sucC sucD glu LLO_RS11720 phosphorylase/ LD- [+ 2 isozymes] tRNA glutamine-- CoA lyase: L-citrulline degradation dehydrogenase: LigA: ligA LLO_RS01450 [+ 3 isozymes] ribF a mature peptidoglycan cysteine [glutamate-- carboxypeptidase: alanine- tRNA ligase/ aspartate- serine- LLO_RS05490 a mature peptidoglycan nuoH nuoI an L-seryl- iolG γ ammonia-ligase] γ a tRNA Tyr with (L-alanyl- -D- strand (non- desulfurase: LLO_RS01465 LLO_RS03860 L-alanyl- -D- D-tyrosine sec phenylalanine- glycine--tRNA methionine-- methionine-- threonine- asparagine- proline-- valine-- -tRNA lysine- YqeY domain cysteine-- glutamate- histidine- -tRNA tryptophan-- isoleucine- leucine-- arginine-- tyrosine-- -tRNA acetoacetate L-methionine degradation roseoflavin [tRNA ] L-citrulline glutamyl-meso-2,6- reducing terminus) [DNA] NMN LLO_RS15510 nuoK nuoN adenylyltransferase: glutamyl-L- D-ala a carboxylate sulfate RS13435 sulfate -tRNA ligase: ligase: glyQ tRNA ligase: tRNA ligase: -tRNA -tRNA tRNA ligase: tRNA ligase: ligase: -tRNA fusion protein: tRNA ligase: -tRNA -tRNA ligase: tRNA ligase: -tRNA tRNA ligase: tRNA ligase: tRNA ligase: ligase: succinyl-CoA 2-oxoglutarate I (to L-homocysteine) scyllo-inosose adenine ornithine diaminopimeloyl-D- AMP glnE L-alanyl-γ-D- lysyl-D-alanine pheS pheT LLO_RS05430 LLO_RS01010 LLO_RS01010 ligase: thrS ligase: asnS LLO_RS04140 LLO_RS04215 alaS ligase: lysS LLO_RS06005 LLO_RS06010 ligase: gltX ligase: hisS aspS LLO_RS09060 ligase: ileS LLO_RS11855 LLO_RS12750 LLO_RS13340 serS dinucleotide alanine) tetrapeptide L-serine degradation met carbamoyltransferase: myo-inosose-2 a thiocarboxylated- D-ala glutamyl-meso- an L-methionyl- argF dehydratase: iolE ala [ThiS sulfur-