KEGG   PATHWAY: yro00020
Entry
yro00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia rohdei
Description
The citrate cycle (TCA cycle, Krebs cycle) is an important aerobic pathway for the final steps of the oxidation of carbohydrates and fatty acids. The cycle starts with acetyl-CoA, the activated form of acetate, derived from glycolysis and pyruvate oxidation for carbohydrates and from beta oxidation of fatty acids. The two-carbon acetyl group in acetyl-CoA is transferred to the four-carbon compound of oxaloacetate to form the six-carbon compound of citrate. In a series of reactions two carbons in citrate are oxidized to CO2 and the reaction pathway supplies NADH for use in the oxidative phosphorylation and other metabolic processes. The pathway also supplies important precursor metabolites including 2-oxoglutarate. At the end of the cycle the remaining four-carbon part is transformed back to oxaloacetate. According to the genome sequence data, many organisms seem to lack genes for the full cycle [MD:M00009], but contain genes for specific segments [MD:M00010 M00011].
Class
Metabolism; Carbohydrate metabolism
Pathway map
yro00020  Citrate cycle (TCA cycle)
yro00020

Module
yro_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:yro00020]
yro_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:yro00020]
yro_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:yro00020]
yro_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:yro00020]
yro_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:yro00020]
Other DBs
GO: 0006099
Organism
Yersinia rohdei [GN:yro]
Gene
CH64_3781  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
CH64_515  acnA; aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
CH64_3320  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
CH64_898  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
CH64_3786  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
CH64_3787  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
CH64_3316  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CH64_2716  glucose inhibited division A family protein [KO:K00382] [EC:1.8.1.4]
CH64_3789  sucD; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
CH64_3788  sucC; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
CH64_3784  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CH64_3785  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CH64_3782  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
CH64_3783  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
CH64_2991  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
CH64_2990  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
CH64_2989  frdC; fumarate reductase subunit C [KO:K00246]
CH64_2988  frdD; fumarate reductase subunit D [KO:K00247]
CH64_3426  hydrolyase, tartrate alpha subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
CH64_1333  hydrolyase, tartrate beta subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
CH64_561  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
CH64_2958  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
CH64_3042  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
CH64_2404  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
CH64_3314  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
CH64_3315  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
CH64_646  nifJ; ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
Compound
C00022  Pyruvate
C00024  Acetyl-CoA
C00026  2-Oxoglutarate
C00036  Oxaloacetate
C00042  Succinate
C00068  Thiamin diphosphate
C00074  Phosphoenolpyruvate
C00091  Succinyl-CoA
C00122  Fumarate
C00149  (S)-Malate
C00158  Citrate
C00311  Isocitrate
C00417  cis-Aconitate
C05125  2-(alpha-Hydroxyethyl)thiamine diphosphate
C05379  Oxalosuccinate
C05381  3-Carboxy-1-hydroxypropyl-ThPP
C15972  Enzyme N6-(lipoyl)lysine
C15973  Enzyme N6-(dihydrolipoyl)lysine
C16254  [Dihydrolipoyllysine-residue succinyltransferase] S-succinyldihydrolipoyllysine
C16255  [Dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine
Reference
  Authors
Nishizuka Y (ed).
  Title
[Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1980)
Reference
  Authors
Nishizuka Y, Seyama Y, Ikai A, Ishimura Y, Kawaguchi A (eds).
  Title
[Cellular Functions and Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1997)
Reference
  Authors
Michal G.
  Title
Biochemical Pathways
  Journal
Wiley (1999)
Related
pathway
yro00010  Glycolysis / Gluconeogenesis
yro00053  Ascorbate and aldarate metabolism
yro00061  Fatty acid biosynthesis
yro00071  Fatty acid degradation
yro00190  Oxidative phosphorylation
yro00220  Arginine biosynthesis
yro00250  Alanine, aspartate and glutamate metabolism
yro00280  Valine, leucine and isoleucine degradation
yro00350  Tyrosine metabolism
yro00470  D-Amino acid metabolism
yro00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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