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Generated by SRI International Pathway Tools Version 25.0, Authors S 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_000321585Cyc: Enterococcus faecium E0680 Cellular Overview Connections between pathways are omitted for legibility. Anamika Kothari ammonium 4-aminobutanoateglutamate uracil lactose lactose D-cellobiose D-cellobiose dCTP D-cellobiose D-cellobiose predicted PEP-driven RS13075 RS10115 RS06900 RS13360 RS17540 RS15525 RS11505 transporter of D- cellobiose uracil dCTP ammonium lactose 6'-phosphate lactose 6'-phosphate D-cellobiose 4-aminobutanoate D-cellobiose 6'-phosphate D-cellobiose 6'-phosphate 6'- glutamate phosphate D-cellobiose 6'- phosphate Nucleoside and Nucleotide Biosynthesis Fermentation a glycopeptide- a ribonucleoside a (3R)-3- a (3R)-3- a (3R,5Z)-3- a (3R,6Z)-3- superpathway of pyrimidine Nucleoside and Nucleotide Degradation 4 a malonyl-[acp] glycerophosphoserine a (4Z)-hexadec- a (3R,7Z)-3-hydroxy- a (3R,5Z)-3-hydroxy- DHAP superpathway of guanosine UMP biosynthesis III guanine and xanthine and heterolactic fermentation D-mannosyl-N a malonyl-[acp] a malonyl-[acp] 2',3'-cyclic hydroxyhexacosanoyl- hydroxydocosanoyl- hydroxydodec- hydroxyoctadec- deoxyribonucleotides de novo biosynthesis adenine and superpathway of pyrimidine deoxyribonucleoside salvage methyl ester 4-enoyl-[acp] hexadec-7-enoyl-[acp] tetradec-5-enoyl-[acp] IMP Aminoacyl-tRNA Charging -(N-acetyl-D- glycerophosphodiester phosphate [acp] [acp] 5-enoyl-[acp] 6-enoyl-[acp] NAD(P)H- nucleotides de novo biosynthesis I adenosine salvage III guanosine salvage II xanthosine salvage 3-oxoacyl-[acyl- 3-oxoacyl-[acyl- 3-hydroxyacyl-[acyl- 3-hydroxyacyl-[acyl- multifunctional 2',3'- 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- superpathway of purine deoxyribonucleosides degradation glucosaminyl) phosphodiesterase: dependent GMP reductase: 2'-deoxycytidine β-D-fructofuranose purine nucleotides degradation II (aerobic) carrier-protein] carrier-protein] carrier-protein] carrier-protein] cyclic-nucleotide 2'- [acyl-carrier- [acyl-carrier- [acyl-carrier- [acyl-carrier- gln hydrogencarbonate gln hydrogencarbonate -asparaginemannosyl-glycoprotein OGK_RS16040 glycerol-3- OGK_RS10735 tRNA charging 2 reductase: reductase: dehydratase FabZ: dehydratase FabZ: protein] protein] protein] protein] gln endo-beta-N- phosphodiesterase/ IMP adenine guanosine xanthosine glutaminyl-tRNA phosphate guanosine 5'- cytidine deaminase: acetylglucosaminidase: OGK_RS15125 glycerophosphoryl OGK_RS15125 OGK_RS10370 OGK_RS10370 5'-nucleotidase/ dehydratase dehydratase dehydratase dehydratase carbamoyl- carbamoyl- purine-nucleoside purine biosynthesis via transamidation fructokinase: 2'-deoxyguanosine dehydrogenase: monophosphate OGK_RS12265 purine-nucleoside AMP beta-ketoacyl- diester beta-ketoacyl- 3-hydroxyacyl-[acyl- 3-hydroxyacyl-[acyl- 3'-nucleotidase: FabZ: FabZ: FabZ: FabZ: nucleosidase: arginine-- OGK_RS18645 OGK_RS16585 oxidoreductase: phosphate IMP phosphate phosphorylase: phosphorylase: arg phosphodiesterase: OGK_RS15110 OGK_RS15110 OGK_RS10370 OGK_RS15110 OGK_RS07725 dCMP tRNA ligase: 2'-deoxyadenosine [acyl-carrier- [acyl-carrier- carrier-protein] carrier-protein] OGK_RS14895 synthase: dehydrogenase: synthase: OGK_RS12300 OGK_RS07470 OGK_RS12295 glu mannosyl-glycoprotein a ribonucleoside OGK_RS18325 2'-deoxyuridine OGK_RS08550 D-glucopyranose multifunctional 2',3'- protein] OGK_RS08365 protein] dehydratase FabZ: dehydratase FabZ: NAD(P)H- OGK_RS12050 guanine an L-arginyl- endo-beta-N- 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- OGK_RS10095 OGK_RS10095 purine-nucleoside (d)CMP kinase: purine-nucleoside F6P sn-glycerol 3'-phosphate dependent GMP [tRNA Arg ] purine-nucleoside cyclic-nucleotide 2'- acetylglucosaminidase: synthase II: ser synthase II: OGK_RS15110 OGK_RS15110 [acyl-carrier- [acyl-carrier- [acyl-carrier- [acyl-carrier- OGK_RS10100 OGK_RS10100 phosphorylase: OGK_RS11295 3-phosphate a (2E,7Z)-hexadeca- a (2E,5Z)-tetradeca- thymidine kinase: phosphorylase: a tRNA Arg adenosine phosphorylase: phosphodiesterase/ IMP a glycopeptide- OGK_RS15120 OGK_RS15120 protein] protein] protein] glycerol-3- XMP xanthine N-acetyl-D-OGK_RS13015 a (6Z)-3- protein] OGK_RS12295 OGK_RS14455 dCDP OGK_RS12300 glucokinase: OGK_RS12300 5'-nucleotidase/ D-mannosyl- a 3-oxoglutaryl- 2,7-dienoyl-[acp] 2,5-dienoyl-[acp] phosphate carbamoyl carbamoyl phosphoribosyltransferase: glucose-6- deaminase: glucosamine- acyl-carrier protein acyl-carrier protein oxooctadec- dehydratase dehydratase dehydratase dehydratase asp asp adenosine xanthine 4 [+ 4 isozymes] thymidine OGK_RS08470 OGK_RS08720 3'-nucleotidase: GMP N -N-acetyl- [acp] methyl ester dehydrogenase: phosphate phosphate OGK_RS10845 UDP kinase: an L-glutamyl- gln phosphate purine-nucleoside IMP asparagine 6-enoyl-[acp] FabZ: FabZ: FabZ: FabZ: xanthosine-5'- OGK_RS14895 D-glucosamine OGK_RS14780 OGK_RS07870 xanthine Gln isomerase: purine-nucleoside phosphorylase: dehydrogenase: OGK_RS10370 OGK_RS10370 OGK_RS15110 OGK_RS10370 aspartate phosphate:L- aspartate adenosine hypoxanthine [tRNA ] a (2E,6Z)- dUMP phosphoribosyltransferase: carbamoyl- OGK_RS12295 multifunctional 2',3'- OGK_RS12050 a (2E)-hexacos- a (2E)-docos- a (2E,5Z)-dodeca- sn-glycerol carbamoyltransferase carbamoyltransferase deaminase: phosphoribosyltransferase: thymidine kinase: nucleoside- cysteine-- pgi phosphorylase: octadecadienoyl- glutamine cys Asp-tRNA(Asn) adenosine 2-enoyl-[acp] 2-enoyl-[acp] 3,5-dienoyl-[acp] 3-phosphate OGK_RS16225 OGK_RS14455 OGK_RS10845 phosphate 2'-deoxyinosine OGK_RS12300 cyclic-nucleotide 2'- catalytic subunit: amido-ligase catalytic subunit: OGK_RS08720 thymidylate diphosphate kinase: tRNA ligase: /Glu-tRNA(Gln) [acp] synthase: phosphodiesterase/ XMP OGK_RS10110 (AMP-forming): OGK_RS10110 synthase: [+ 4 isozymes] OGK_RS06790 OGK_RS16505 an L-cysteinyl- purine-nucleoside amidotransferase: OGK_RS10095 adenosine 5'-nucleotidase/ OGK_RS12235 inosine GMP OGK_RS11225 XMP [tRNA Cys ] purine-nucleoside phosphorylase: N-carbamoyl- N-carbamoyl- dCTP OGK_RS08930 OGK_RS10100 D-glucopyranose deaminase: 3'-nucleotidase: 5'-chloro-5'- adenosine a (3R)-3- a uracil 1939 a (3R)-3- a (3R,9Z)-3- a tRNA Cys phosphorylase: OGK_RS12295 multifunctional 2',3'- a glutaryl-[acp] DNA with lesion gatA OGK_RS08940 6-phosphate a malonyl-[acp] a palmitoleoyl-[acp] a malonyl-[acp] glycerophosphoglycerol a purine a purine 2'- 2',3'-cyclic hydroxytetracosanoyl- hydroxyicosanoyl- hydroxy-octadec- L-aspartate L-aspartate [+ 7 isozymes] OGK_RS08720 OGK_RS14895 cyclic-nucleotide 2'- deoxyadenosine in 23S rRNA dIDP GMP purine-nucleoside CMP pyrimidine a 5-phosphooxy- OGK_RS12300 methyl ester + 3-oxoacyl-[acyl- 3-oxoacyl-[acyl- glycerophosphoryl ribonucleoside deoxyribonucleoside purine-nucleoside monophosphate [acp] 23S rRNA [acp] 9-enoyl-[acp] excinuclease phosphorylation ribonucleosides salvage I NADP -dependent phosphodiesterase/ multifunctional 2',3'- 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- dihydroorotase: dihydroorotase: phosphorylase: L-glutamyl- purine-nucleoside diester purine-nucleoside purine-nucleoside phosphorylase: (uracil(1939)-C(5)) ABC subunit UDP kinase: ammonium glucose-6- inosine guanosine 5'-nucleotidase/ carrier-protein] carrier-protein] cyclic-nucleotide 2'- [acyl-carrier- [acyl-carrier- [acyl-carrier- OGK_RS10105 guanylate kinase: OGK_RS10105 OGK_RS12300 CMP [tRNA Gln ] phosphorylase: phosphodiesterase: phosphorylase: phosphorylase: OGK_RS12295 -methyltransferase UvrC: OGK_RS07870 cytidine phosphate 3'-nucleotidase: reductase: reductase: phosphodiesterase/ protein] protein] protein] OGK_RS16355 (d)CMP kinase: dTMP OGK_RS12295 OGK_RS12295 OGK_RS12295 RlmD: nucleoside- purine-nucleoside dehydrogenase: purine-nucleoside purine-nucleoside OGK_RS15125 OGK_RS15125 OGK_RS08365 purine-nucleoside dehydratase dehydratase dehydratase OGK_RS07280 superpathway of pyrimidine gln Asp-tRNA(Asn) OGK_RS14895 5'-nucleotidase/ (S)-dihydroorotate guanylate kinase: (S)-dihydroorotate phosphorylase: OGK_RS11295 cytidine purine-nucleoside purine-nucleoside phosphorylase: OGK_RS15235 diphosphate dTMP kinase: nucleobases salvage OGK_RS15565 2-deoxy-α-D-ribose 1-phosphate phosphorylase: phosphorylase: beta-ketoacyl- beta-ketoacyl- glycerophosphodiester 3'-nucleotidase: FabZ: FabZ: FabZ: excinuclease CDP /Glu-tRNA(Gln) phosphorylase: phosphorylase: kinase: OGK_RS09775 OGK_RS12295 OGK_RS15900 deaminase: an L-glutaminyl- 6-phospho OGK_RS12300 OGK_RS12300 phosphodiesterase: OGK_RS12300 OGK_RS15110 23S rRNA OGK_RS15110 OGK_RS10370 ABC: dihydroorotate amidotransferase: xanthosine [acyl-carrier- [acyl-carrier- OGK_RS14895 dihydroorotate uracil OGK_RS12265 Gln OGK_RS12300 2-deoxy-α- OGK_RS12300 5-chloro-5- OGK_RS06790 UDP kinase: CMP [tRNA ] D-glucono- phosphopentomutase: purine-nucleoside purine-nucleoside protein] protein] OGK_RS16040 α (uracil(1939)-C(5)) OGK_RS08760 oxidase: dehydrogenase dTDP Gln OGK_RS08930 -D-ribose- 3'-AMP 3-hydroxyacyl- 3-hydroxyacyl- 3-hydroxyacyl- GDP hypoxanthine OGK_RS07870 bifunctional pyr operon a tRNA 1,5-lactone OGK_RS12290 sn-glycerol a purine base D-ribose 1- a purine base adenine deoxyribose -methyltransferase
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