KEGG   PATHWAY: har00020
Entry
har00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Herminiimonas arsenicoxydans
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
har00020  Citrate cycle (TCA cycle)
har00020

Module
har_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:har00020]
har_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:har00020]
har_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:har00020]
har_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:har00020]
Other DBs
GO: 0006099
Organism
Herminiimonas arsenicoxydans [GN:har]
Gene
HEAR1773  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
HEAR1783  acnA; Aconitate hydratase (Citrate hydro-lyase) (Aconitase) [KO:K01681] [EC:4.2.1.3]
HEAR3467  icd2; Isocitrate dehydrogenase [NADP] (Oxalosuccinate decarboxylase) (IDH) [KO:K00031] [EC:1.1.1.42]
HEAR3270  icd1; Isocitrate dehydrogenase, NAD-dependent [KO:K00030] [EC:1.1.1.41]
HEAR1772  sucA; 2-oxoglutarate dehydrogenase E1 component (Alpha-ketoglutarate dehydrogenase) [KO:K00164] [EC:1.2.4.2]
HEAR1771  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex (E2) (Dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex) [KO:K00658] [EC:2.3.1.61]
HEAR3352  Putative dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
HEAR1770  odhL; Dihydrolipoyl dehydrogenase (E3 component of 2-oxoglutarate dehydrogenase complex) (Dihydrolipoamide dehydrogenase) [KO:K00382] [EC:1.8.1.4]
HEAR0748  lpdA; Dihydrolipoyl dehydrogenase (E3 component of pyruvate and 2-oxoglutarate dehydrogenases complexes) (Dihydrolipoamide dehydrogenase) (Glycine cleavage system L protein) [KO:K00382] [EC:1.8.1.4]
HEAR0344  sucD; Succinyl-CoA ligase [ADP-forming] subunit alpha (Succinyl-CoA synthetase subunit alpha) (SCS-alpha) [KO:K01902] [EC:6.2.1.5]
HEAR0343  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
HEAR1776  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HEAR1775  sdhB; succinate dehydrogenase (ubiquinone), Fe-S protein [KO:K00240] [EC:1.3.5.1]
HEAR1778  sdhC; Succinate dehydrogenase cytochrome b556 subunit (Cytochrome b-556) [KO:K00241]
HEAR1777  sdhD; Succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
HEAR3333  Putative succinate dehydrogenase [KO:K00244] [EC:1.3.5.1]
HEAR3327  Succinate dehydrogenase/fumarate reductase Fe-S protein subunit [KO:K00245] [EC:1.3.5.1]
HEAR3328  Putative fumarate reductase respiratory complex transmembrane subunit [KO:K00246]
HEAR3329  Putative fumarate reductase [KO:K00247]
HEAR0919  putative fumarate hydratase class I, aerobic (Fumarase) (FumA-like) [KO:K01676] [EC:4.2.1.2]
HEAR2526  fumC; Fumarate hydratase class II (fumarase C) [KO:K01679] [EC:4.2.1.2]
HEAR1780  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
HEAR0746  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
HEAR0747  pdhB; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex (E2) (Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex) [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
har00010  Glycolysis / Gluconeogenesis
har00061  Fatty acid biosynthesis
har00071  Fatty acid degradation
har00190  Oxidative phosphorylation
har00220  Arginine biosynthesis
har00250  Alanine, aspartate and glutamate metabolism
har00280  Valine, leucine and isoleucine degradation
har00350  Tyrosine metabolism
har00470  D-Amino acid metabolism
har00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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