KEGG   PATHWAY: skm00020
Entry
skm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Sinorhizobium kummerowiae
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
skm00020  Citrate cycle (TCA cycle)
skm00020

Module
skm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:skm00020]
skm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:skm00020]
skm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:skm00020]
skm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:skm00020]
skm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:skm00020]
Other DBs
GO: 0006099
Organism
Sinorhizobium kummerowiae [GN:skm]
Gene
PZL22_000009  acnA; aconitate hydratase AcnA [KO:K27802]
PZL22_000797  [KO:K00658] [EC:2.3.1.61]
PZL22_001606  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
PZL22_001607  [KO:K00162] [EC:1.2.4.1]
PZL22_001608  [KO:K00627] [EC:2.3.1.12]
PZL22_001611  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PZL22_001670  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
PZL22_002046  [KO:K00031] [EC:1.1.1.42]
PZL22_002114  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PZL22_003252  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PZL22_003370  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PZL22_003374  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
PZL22_003375  [KO:K00164] [EC:1.2.4.2]
PZL22_003376  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
PZL22_003377  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
PZL22_003378  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PZL22_003391  [KO:K00240] [EC:1.3.5.1]
PZL22_003392  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PZL22_003393  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
PZL22_003394  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
PZL22_003501  acnA; aconitate hydratase AcnA [KO:K27802]
PZL22_003550  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
PZL22_003654  [KO:K01610] [EC:4.1.1.49]
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
skm00010  Glycolysis / Gluconeogenesis
skm00053  Ascorbate and aldarate metabolism
skm00061  Fatty acid biosynthesis
skm00071  Fatty acid degradation
skm00190  Oxidative phosphorylation
skm00220  Arginine biosynthesis
skm00250  Alanine, aspartate and glutamate metabolism
skm00280  Valine, leucine and isoleucine degradation
skm00350  Tyrosine metabolism
skm00470  D-Amino acid metabolism
skm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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