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Generated by SRI International Pathway Tools Version 25.0, Authors S Authors: Pallavi Subhraveti Peter D Karp Ingrid Keseler 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. Anamika Kothari Periplasmic (where appropriate) and extracellular reactions and proteins may also be shown. Pathways are colored according to their cellular function. Gcf_000686625Cyc: Sphingobacterium thalpophilum DSM 11723 Cellular Overview Connections between pathways are omitted for legibility. Ron Caspi a dicarboxylate an amino an amino acid acid RS0110840 RS0123010 an amino an amino acid acid a dicarboxylate Carbohydrate Degradation Aromatic Compound Macromolecule Modification tRNA-uridine 2-thiolation Aminoacyl-tRNA Charging tRNA charging Degradation ditrans,octacis- a peptidoglycan with ditrans,octacis- a nascent a peptidoglycan UDP-N-acetyl- an N-terminal- and selenation (bacteria) a 5-L-glutamyl- a lipid II an L-cysteinyl- D-galactose degradation I (Leloir pathway) undecaprenyldiphospho- (L-alanyl-γ-D-glutamyl- an amino acid undecaprenyldiphospho- peptidoglycan dimer (meso- α-D-muramoyl- 3',5'-ADP sulfite a [glutamine- L-methionyl-L- Tetrapyrrole Biosynthesis fucose degradation D-arabinose degradation I [peptide] ATP [tRNA Cys ] ATP roseoflavin protocatechuate N-acetyl-(N-acetyl-β-D- L-lysyl-D-alanyl-D- N-acetyl-(N- (meso-DAP diaminopimelate L-alanyl-γ-D- synthetase]- alanyl-[protein] Phe 5'-phosphate phe a tRNA cys degradation II (ortho- L-tyrosine β-D-galactopyranose glucosaminyl)muramoyl- alanine) pentapeptide acetylglucosaminyl) containing) containing) glutamyl-meso-2,6- penicillin-binding predicted tetrapyrrole biosynthesis β-L-fucopyranose D-arabinopyranose cleavage pathway) γ γ siroheme biosynthesis L-alanyl- -D-glutamyl-L- gamma- muramoyl-L-alanyl- - diaminopimeloyl- protein 2: phosphoadenosine type I methionyl aminoacyl-tRNA ABC tyr a tRNA Tyr gln a tRNA Gln I (from glutamate) cysteine galactose mutarotase: β L-fucose isomerase: protocatechuate lysyl-D-alanyl-D-alanine glutamyltransferase: D-isoglutaminyl-N-( - lytic penicillin-binding D-alanyl-D-alanine BS55_RS0118780 phosphosulfate adenylyltransferase/ aminopeptidase: hydrolase: bifunctional met transporter met phenylalanine--tRNA asn Asn desulfurase: BS55_RS0102535 tRNA BS55_RS0110910 D-asparaginyl)-L-lysyl- reductase: cytidyltransferase BS55_RS0120105 BS55_RS0126020 riboflavin kinase/ of L- ligase subunit alpha: uroporphyrinogen-III BS55_RS0102235 BS55_RS0110760 transglycosylase protein 2: D-alanyl-D-alanine trp a tRNA Trp leu a tRNA Leu thr a tRNA Thr pro a tRNA Pro arg a tRNA Arg elongator tRNA Met met initiator tRNA Met met lys a tRNA Lys a tRNA Ala ala val a tRNA Val his a tRNA His glu a tRNA glu gly a tRNA Gly cys a tRNA Cys ser a tRNA ser tRNA asp asp ile a tRNA Ile glu [+ 2 isozymes] D-alanyl-D-alanine BS55_RS0120305 FAD synthetase: BS55_RS0114950 L-arabinose monofunctional gamma- domain-containing BS55_RS0118780 penicillin-binding family protein: [+ 2 isozymes] aminoacyl-tRNA methionine tyrosine--tRNA ligase: glutamine--tRNA uroporphyrinogen-III [+ 4 isozymes] α-L-fucopyranose D-ribulose 3-carboxy-cis carboxypeptidase/ BS55_RS0101600 glutamate-- α-D-galactopyranose degradation I biosynthetic glutamyltransferase: protein: protein 2: phosphoadenylyl- BS55_RS0106880 hydrolase: BS55_RS0114450 phenylalanine--tRNA ligase/YqeY domain asparagine-- C-methyltransferase: an [L-cysteine ,cis-muconate D-alanyl-D-alanine D-alanyl-D-alanine- Peptide RS0118415 Peptide tRNA ligase: peptidoglycan BS55_RS0114880 BS55_RS27815 BS55_RS0118780 sulfate reductase: [+ 3 isozymes] BS55_RS0123225 tryptophan--tRNA ligase: leucine--tRNA ligase: threonine--tRNA ligase: proline--tRNA ligase: arginine--tRNA ligase: methionine--tRNA ligase: methionine--tRNA ligase: lysine--tRNA ligase: alanine--tRNA ligase: valine--tRNA ligase: tyrosine--tRNA ligase: histidine--tRNA ligase: ligase subunit beta: glutamate--tRNA ligase: fusion protein: glycine--tRNA ligase: cysteine--tRNA ligase: serine--tRNA ligase: aspartate--tRNA ligase: tRNA ligase: isoleucine--tRNA ligase: BS55_RS0112700 desulfurase]-S- L-fucose isomerase: monofunctional carboxypeptidase/ endopeptidase: an N-terminal L- BS55_RS0121475 L-arabinopyranose transglycosylase: BS55_RS0112690 roseoflavin BS55_RS0100155 BS55_RS0101575 BS55_RS0101750 BS55_RS0102045 BS55_RS0105550 BS55_RS0106945 BS55_RS0106945 BS55_RS0107775 BS55_RS0109820 BS55_RS0113530 BS55_RS0105445 BS55_RS0114625 BS55_RS0104140 BS55_RS0121475 BS55_RS0121600 BS55_RS0121980 BS55_RS0122730 BS55_RS0124185 BS55_RS0124445 BS55_RS0125670 BS55_RS0125940 an L-glutamyl- uroporphyrinogen-III sulfanyl-L-cysteine galactokinase: BS55_RS0110760 biosynthetic endolytic D-alanyl-D-alanine- D-alanyl-D-alanine BS55_RS0125200 met alanyl-[protein] Glu L-arabinose adenine [tRNA ] BS55_RS0120990 BS55_RS0125475 an α-(5-L- peptidoglycan transglycosylase endopeptidase: carboxypeptidase/ a [glutamine C-methyltransferase: D-ribulose isomerase: dinucleotide L-fuculose (2-carboxy- transglycosylase: BS55_RS0125200 synthetase]-O Cys potassium- glutamyl-tRNA BS55_RS0109250 1-phosphate glutamyl)- a peptide MltG: D-alanyl-D-alanine- a N- cys a tRNA Trp Leu Thr Pro Arg Met Met Lys Ala Val Tyr His Phe Glu Gln Gly Cys ser asp Asn Ile α-D-galactose 1-phosphate UDP-α-D-glucose BS55_RS0122160 2,5-dihydro- PAPS 4 -(5'-adenylyl) K + transporting K + an L-tryptophanyl-[tRNA ] an L-leucyl-[tRNA ] an L-threonyl-[tRNA ] an L-prolyl-[tRNA ] an L-arginyl-[tRNA ] an L-methionyl-[elongator tRNA ] an L-methionyl-[initiator tRNA ] an L-lysyl-[tRNA ] an L-alanyl-[tRNA ] an L-valyl-[tRNA ] an L-tyrosyl-[tRNA ] an L-histidyl-[tRNA ] an L-phenylalanyl-[tRNA ] an L-glutamyl-[tRNA ] an L-glutaminyl-[tRNA ] a glycyl-[tRNA ] an L-cysteinyl-[tRNA ] an L-seryl-[tRNA ] an L-aspartyl-[tRNA ] an L-asparaginyl-[tRNA ] an L-isoleucyl-[tRNA ] reductase: precorrin-1 a [TusA sulfur- a peptidoglycan with di-trans,octa-cis amino acid BS55_RS0125475 BS55_RS0124300 endopeptidase: D-ala acetylglucosamine- L-ribulose 5-oxofuran- γ -L-tyrosine ATPase BS55_RS0119585 carrier protein]-S- (L-alanyl- -D-glutamyl- -undecaprenyl a peptidoglycan BS55_RS0125200 -N-acetylmuramyl- uroporphyrinogen-III 2-yl)-acetate L-lysyl-D-alanyl-D- diphosphate (S)-4-amino-5- sulfanyl-L-cysteine ribulokinase: a peptidoglycan di-trans,octa-cis a mature a nascent with D,D cross- D-ala (tetrapeptide) C-methyltransferase: L-fuculose carboxymuconolactone BS55_RS0122150 alanine) pentapeptide dimer (E. faeciums) -undecaprenyl links (meso- pyrophosphoryl- Cd 2+ RS0107740 Cd 2+ oxopentanoate decarboxylase: peptidoglycan peptidoglycan UDP-N- BS55_RS0112700 1-phosphate DHAP glycolaldehyde ribulokinase: diphosphate glutamate-1- BS55_RS0110570 with (L-alanyl- (meso-DAP diaminopimelate D-ala acetylmuramoyl- undecaprenol uroporphyrinogen-III Metabolic Regulator semialdehyde- a [TusD sulfur- BS55_RS0110770 (4,5-dihydro- γ-D-glutamyl- containing) with containing) L-alanyl-γ-D- C-methyltransferase: Nucleoside and Nucleotide Biosynthesis Biosynthesis 2,1-aminomutase: carrier protein]-S- L-ribulose 5- 5-oxofuran- meso-2,6- GlcNAc terminus glutamyl-meso-2,6- + + Na RS0110900 Na BS55_RS0109250 sulfanyl-L-cysteine phosphate 2-yl)-acetate diaminopimeloyl- diaminopimeloyl- ppGpp metabolism BS55_RS0119600 superpathway of purine nucleotides de novo biosynthesis I DHAP (S)-lactaldehyde glycolate L-ribulose-5- D-alanine) D-alanine Fatty Acid and Lipid Biosynthesis superpathway of pyrimidine superpathway of superpathway of pyrimidine deoxyribonucleoside salvage guanine and precorrin-2 5-aminolevulinate phosphate 4- tetrapeptide ribonucleotides de novo biosynthesis adenosine nucleotides guanosine salvage pppGpp bifunctional precorrin- epimerase: palmitate biosynthesis II PRPP de novo biosynthesis I 2'-deoxycytidine Aromatic Compound Biosynthesis porphobilinogen a [TusE sulfur 2 dehydrogenase/ araD 3-oxoadipate 34 carrier protein]-S γ N-acetyl-D- an N-terminal- an N-terminal- GDP-α-D- (bacteria and plant cytoplasm) fatty acid elongation -- saturated gln bifunctional (p)ppGpp synthase: a uridine in tRNA ditrans,octacis- a peptidoglycan L-alanyl- -D- a [protein] D-sedoheptulose sirohydrochlorin 34 a proteinogenic leukotriene-C4 amidophosphoribosyltransferase: hydrogencarbonate nucleoside 2'-deoxycytidine guanosine synthetase/guanosine- BS55_RS0119595 -sulfanylcysteine D-xylulose a 5,10-gly a uridine undecaprenyldiphospho- dimer (E. faeciums) glutamyl-L-lysyl- galactosamine C-terminal glu L-methionyl-L- L-methionyl- mannose IMP asp guanosine 3'- chorismate biosynthesis I D-arabinose degradation II amino acid hypoxanthine 1,7-bisphosphate BS55_RS0110925 purine-nucleoside dipicolinate biosynthesis ferrochelatase: 5-phosphate methylenetetrahydrofolate in tRNA D-alanyl-D-alanine 6-phosphate seryl-[protein] glycyl-[protein] an acetoacetyl-[acp] deaminase: kinase: 3',5'-bis(diphosphate) 3'- diphosphate 5'- PRPP N-acetyl-(N- L-glutamate an acetoacetyl-[acp] β phosphorylase: porphobilinogen BS55_RS0112695 tRNA 2- UDP-glucose-- 5-phospho- - gly carbamoyl- BS55_RS0119700 BS55_RS0100160 pyrophosphohydrolase: triphosphate 3'- D-erythrose UDP-glucose 4- acetylglucosaminyl) penicillin-binding GDP-mannose BS55_RS0121350 thiouridine(34) hexose-1-phosphate D-arabinopyranose class I fructose- 3-oxoacyl-[acyl- D-ribosylamine phosphate synthase adenylosuccinate cytidine deaminase: BS55_RS0112750 diphosphatase: 4-phosphate hydroxymethylbilane sirohydrochlorin
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