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_000754405Cyc: Flavobacterium psychrophilum FPG3 Cellular Overview Connections between pathways are omitted for legibility. Anamika Kothari phosphate phosphate phosphate phosphate predicted ABC RS10325 RS01900 transporter RS10755 of phosphate phosphate phosphate phosphate phosphate Fatty Acid and Metabolic Regulator Lipid Degradation Carbohydrate Biosynthesis Degradation ditrans,octacis- a peptidoglycan with a nascent a [bis(guanylyl a peptidoglycan oleate β-oxidation a purine an N-modified an L-asparaginyl- an L-cysteinyl- [2Fe-2S] iron-sulfur Cofactor, Carrier, and Vitamin Biosynthesis undecaprenyldiphospho- (L-alanyl-γ-D-glutamyl- adenosylcobinamide peptidoglycan molybdopterin) cys dimer (meso- superpathway of tetrahydrofolate biosynthesis superpathway of coenzyme A biosynthesis I (bacteria) NAD de novo biosynthesis adenosylcobinamide-GDP thiamine diphosphate ppGpp metabolism D-mannose ribonucleoside aminoacyl-[tRNA] [tRNA Asn ] [tRNA Cys ] dGDP cluster biosynthesis thiamine diphosphate TCA cycle TCA cycle I (prokaryotic) N-acetyl-(N-acetyl-β-D- L-lysyl-D-alanyl-D- (meso-DAP cofactor diaminopimelate II (from tryptophan) salvage from cobinamide I biosynthesis III biosynthesis II (Bacillus) oleate degradation alanine) pentapeptide 5'-triphosphate chaperone]- containing) ribonucleoside- 3-methyl-2- a 5,10- glucosaminyl)muramoyl- containing) (Staphylococcus) γ diphosphate L-cysteine desulfurase cob(II)inamide pppGpp acetyl-CoA D-mannopyranose L-alanyl- -D-glutamyl-L- L-cysteine aminoacyl- aminoacyl- aminoacyl- GTP oxobutanoate methylenetetrahydrofolate HMP-PP trp long-chain fatty bifunctional reductase cob(I)yrinic acid HMP-PP 6-phosphate lysyl-D-alanyl-D-alanine tRNA penicillin- tRNA tRNA thiamine tryptophan 2,3- bifunctional (p)ppGpp acid--CoA ligase: class I mannose- adenosylcobinamide lytic subunit alpha: cysteine 3-methyl-2-oxobutanoate a,c-diamide thiamine menaquinol-7 biosynthesis hydrolase: binding hydrolase: hydrolase: GTP phosphate dioxygenase: synthetase/guanosine- oxaloacetate FPG3_RS09065 6-phosphate kinase/ transglycosylase cysteine FPG3_RS02335 desulfurase: hydroxymethyltransferase: adenosyltransferase: phosphate guanosine 3'- arfB protein arfB arfB cyclohydrolase synthase: FPG3_RS01205 all-trans- 3',5'-bis(diphosphate) 3'- isomerase: monofunctional adenosylcobinamide- domain-containing desulfurase: FPG3_RS11525 panB N-Formyl-L- FPG3_RS05140 synthase: diphosphate 5'- citrate synthase: 2: mrdA ribonucleoside- I FolE: folE FPG3_RS02195 [corrinoid heptaprenyl 1,4-dihydroxy- pyrophosphohydrolase: oleoyl-CoA FPG3_RS08730 biosynthetic phosphate protein: FPG3_RS05750 aminoacyl-tRNA aminoacyl-tRNA aminoacyl-tRNA cysteine kynurenine FPG3_RS02195 triphosphate 3'- malate:quinone FPG3_RS02855 diphosphate asp adenosyltranferase]- diphosphate 2-naphthoate FPG3_RS08340 F6P peptidoglycan guanylyltransferase: FPG3_RS07600 cysteine hydrolase: hydrolase: hydrolase: desulfurase: GTP thiamine thiamine diphosphatase: oxidoreductase: acyl-CoA reductase: cob(II)inamide transglycosylase: cobU endolytic desulfurase: FPG3_RS01215 a peptidoglycan FPG3_RS01215 FPG3_RS01215 FPG3_RS05750 cyclohydrolase 2-dehydropantoate phosphate FPG3_RS08340 FPG3_RS08905 dehydrogenase: FPG3_RS02340 aspartate 1- phosphate malate dehydrogenase: mtgA transglycosylase FPG3_RS11525 with D,D cross- D-ala I FolE: folE synthase: synthase: FPG3_RS03425 adenosyl- GDP an S-sulfanyl-[L- 7,8- decarboxylase: FPG3_RS04900 MltG: mltG links (meso- FPG3_RS02205 FPG3_RS02205 [+ 3 isozymes] cobinamide an N-modified an uncharged cysteine desulfurase] dihydroneopterin flavin biosynthesis I (bacteria and plants) FPG3_RS00585 thiamine L-kynurenine [corrinoid Secondary Metabolite Degradation a peptidoglycan with di-trans,octa-cis a purine a [bis(guanylyl diaminopimelate asn tRNA Asn cys a tRNA Cys thiamine demethylmenaquinol-7 GTP ppGpp (S)-malate citrate phosphate tRNA phosphate adenosyltranferase]- (2E,9Z)- (L-alanyl-γ-D-glutamyl- -undecaprenyl amino acid containing) 3'-triphosphate β phosphate ribonucleoside a mature a nascent ala molybdopterin) -alanine kynurenine 3- octadecenoyl-CoA diphosphate (R)-pantoate thiamine- cob(I)inamide bifunctional anhydromuropeptides recycling I L-lysyl-D-alanyl-D- 5'-diphosphate peptidoglycan peptidoglycan cofactor monooxygenase: GTP phosphate cob(I)yrinic acid demethylmenaquinone nucleoside- alanine) pentapeptide with (L-alanyl- (meso-DAP chaperone]-S- an S-sulfanyl-[cysteine FPG3_RS10790 fumarate hydratase: 7,8- pantoate--beta- kinase: thiL a,c-diamide methyltransferase/2- diphosphate GDP aconitate hydratase: GlcNAc-1,6- γ-D-glutamyl- containing) with sulfanyl-L-cysteine desulfurase]-[disordered- adenosyltransferase: kinase: pyrophosphokinase: bifunctional (p)ppGpp FPG3_RS08565 dihydroneopterin GTP alanine ligase: thiamine 3-hydroxy- thiamine methoxy-6-polyprenyl- FPG3_RS03555 (S)-3-hydroxy-(9Z) anhMurNAc- meso-2,6- GlcNAc terminus form scaffold FPG3_RS04585 synthetase/guanosine- γ 3'-phosphate cyclohydrolase FPG3_RS00590 L-kynurenine FPG3_RS05140 1,4-benzoquinol FPG3_RS08340 class II fumarate -octadecenoyl-CoA L-Ala- -D-Glu- diaminopimeloyl- protein] complex diphosphate 3',5'-bis(diphosphate) 3'- [cysteine desulfurase]-S- II: ribB thiamine methylase UbiE: ubiE hydratase: fumC DAP-D-Ala D-alanine) 2,5-diamino-6- kynureninase: adenosylcobinamide pyrophosphohydrolase: fumarate cis-aconitate 3-hydroxyacyl-CoA sulfanylcysteine:[acceptor diphosphokinase: dehydrogenase: tetrapeptide (5-phospho-D- (R)-pantothenate kynU menaquinol-7 FPG3_RS08340 aconitate hydratase: protein]-cysteine bifunctional FPG3_RS08835 FPG3_RS10310 D-erythro-7,8- chorismate ribosylamino) superpathway of thiamine diphosphate biosynthesis I GDP succinate dehydrogenase/ FPG3_RS03555 sulfurtransferase: pyrimidin- type III 3-hydroxyanthranilate adenosylcobinamide thiamine fumarate reductase 3-oxo-(9Z)- dihydroneopterin N-acetyl-β-D- L-alanyl-γ-D- UDP-N-acetyl-α-D-muramoyl- ditrans,octacis- a peptidoglycan a ribonucleoside a [protein] FPG3_RS05750 pantothenate kinase/ diphosphate D-alanyl-D-alanine an adenine in DNA a D-tyrosyl- aminodeoxychorismate/ 4(3H)-one iron-sulfur subunit: octadecenoyl-CoA γ a malonyl-[acp] a palmitoleoyl-[acp] undecaprenyldiphospho- dimer (generic) Tyr C-terminal glu a [cysteine desulfurase]- dihydroneopterin cys 3-hydroxyanthranilate glucosamine-1,6- glutamyl-meso-2,6- L-alanyl- -D-glutamyl-L-lysine diphosphate [tRNA ] dADP anthranilate synthase bifunctional kinase: adenosylcobinamide- FPG3_RS00510 acetyl-CoA C- N-acetyl-(N- type I restriction- L-glutamate S-sulfanyl-[disordered- aldolase: folB 3,4-dioxygenase: anhydro-N-acetyl- diaminopimeloyl- ribonucleoside- component II: diaminohydroxyphosphoribosylaminopyrimidine FPG3_RS11750 phosphate acyltransferase: β acetylglucosaminyl) modification ribonucleoside- form scaffold cysteine FPG3_RS10905 -D-muramate D-alanine lytic diphosphate 6-(hydroxymethyl) FPG3_RS04820 deaminase/5-amino-6-(5-phosphoribosylamino) (R)-4'- guanylyltransferase: succinate FPG3_RS09040 bifunctional UDP- muramoyl-L-alanyl-γ- system subunit M: diphosphate protein] complex desulfurase: 2-amino-3- Secondary Metabolite Biosynthesis D-threo-isocitrate glcNAc-1,6- LD- beta- transglycosylase reductase D-tyrosyl- 30S cysteine -7,8-dihydropterin uracil reductase RibD: ribD cobU N-acetylmuramoyl- β FPG3_RS04735 reductase 4-amino-4- phosphopantothenate carboxymuconate- isocitrate dehydrogenase acetyl-CoA C- anhMurNAcaminidase: carboxypeptidase: ketoacyl- D-isoglutaminyl-N-( - domain-containing subunit alpha: tRNA(Tyr) ribosomal desulfurase: 5-amino-6-(5- FPG3_RS11525 ADP-forming tripeptide:D-alanyl-D- subunit alpha: 2-amino-4-hydroxy-6- deoxychorismate bifunctional adenosyl-cobinamide (NADP(+)): FPG3_RS08310 acyltransferase: FPG3_RS05985 FPG3_RS00335 ACP D-asparaginyl)-L-lysyl- Dam family site- FPG3_RS02335 deacylase: phospho-D- cysteine 6-semialdehyde fluoroacetate and alanine ligase/alanine protein: protein FPG3_RS02335 FPG3_RS11525 hydroxymethyldihydropteridine phosphopantothenoylcysteine phosphate pyridoxal 5'-phosphate biosynthesis I preQ biosynthesis succinate--CoA ligase synthase D-alanyl-D-alanine specific DNA- FPG3_RS01305 0 FPG3_RS06045 1,6-anhydro-N- LD- FPG3_RS07600 ribonucleoside- S6--L- cysteine diphosphokinase: folK ribosylamino)uracil desulfurase: fluorothreonine biosynthesis subunit beta: sucC racemase: FPG3_RS10640 (adenine-N6)- ribonucleoside- decarboxylase/ bifunctional acetyl-β-muramate carboxypeptidase: II: fabF diphosphate glutamate (7,8-dihydropterin- D-ribulose bifunctional FPG3_RS05750 D-erythrose (7Z)-hexadecenoyl-CoA UDP-N-acetylmuramoyl- endolytic fluoride RS08685 fluoride desulfurase: phosphopantothenate-- succinate--CoA ligase FPG3_RS01775 monofunctional methyltransferase: reductase: ligase: rimK diphosphate 6-yl)methyl 5-phosphate diaminohydroxyphosphoribosylaminopyrimidine an [L-cysteine adenosylcobinamide fluoride anhydro-N- transglycosylase FPG3_RS05750 cysteine ligase CoaBC: coaBC 4-phosphate subunit alpha: sucD L-alanyl-γ-D- tripeptide--D-alanyl- FPG3_RS06440 Tyr reductase: