KEGG   PATHWAY: svm00020
Entry
svm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Shewanella vesiculosa
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
svm00020  Citrate cycle (TCA cycle)
svm00020

Module
svm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:svm00020]
svm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:svm00020]
svm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:svm00020]
Other DBs
GO: 0006099
Organism
Shewanella vesiculosa [GN:svm]
Gene
KDH10_002809  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
KDH10_003385  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
KDH10_000681  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
KDH10_000150  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
KDH10_000613  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
KDH10_000614  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
KDH10_003381  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
KDH10_000616  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
KDH10_000615  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
KDH10_000611  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
KDH10_000612  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
KDH10_000609  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
KDH10_000610  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
KDH10_002559  fumarate reductase flavoprotein subunit [KO:K00233] [EC:1.3.5.1 7.1.1.12]
KDH10_002558  fumarate reductase iron-sulfur subunit [KO:K25995] [EC:1.3.5.1 7.1.1.12]
KDH10_002560  fumarate reductase cytochrome b subunit [KO:K25996]
KDH10_003463  flavocytochrome c [KO:K26318] [EC:1.3.2.4]
KDH10_001124  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
KDH10_002810  aspA; aspartate ammonia-lyase [KO:K01679] [EC:4.2.1.2]
KDH10_002320  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
KDH10_002950  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
KDH10_003379  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
KDH10_003380  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
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
svm00010  Glycolysis / Gluconeogenesis
svm00061  Fatty acid biosynthesis
svm00071  Fatty acid degradation
svm00190  Oxidative phosphorylation
svm00220  Arginine biosynthesis
svm00250  Alanine, aspartate and glutamate metabolism
svm00280  Valine, leucine and isoleucine degradation
svm00350  Tyrosine metabolism
svm00470  D-Amino acid metabolism
svm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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