KEGG   PATHWAY: avi00020
Entry
avi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Allorhizobium ampelinum
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
avi00020  Citrate cycle (TCA cycle)
avi00020

Module
avi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:avi00020]
avi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:avi00020]
avi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:avi00020]
avi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:avi00020]
Other DBs
GO: 0006099
Organism
Allorhizobium ampelinum [GN:avi]
Gene
Avi_2563  cisY; citrate synthase [KO:K01647] [EC:2.3.3.1]
Avi_4187  acnA; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Avi_1913  icdA; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Avi_4122  sucA; oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
Avi_4121  sucB; dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
Avi_2120  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Avi_4116  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Avi_4124  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
Avi_4127  sucC; succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
Avi_0516  coenzyme A transferase [KO:K18118] [EC:2.8.3.18]
Avi_4135  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Avi_4134  sdhB; succinate dehydrogenase iron-sulfur [KO:K00240] [EC:1.3.5.1]
Avi_4137  sdhC; succinate dehydrogenase cytochrome B-556 subunit [KO:K00241]
Avi_4136  sdhD; succinate dehydrogenase hydrophobic membrane anchor [KO:K00242]
Avi_2076  fumarate hydratase protein class I [KO:K01676] [EC:4.2.1.2]
Avi_2077  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
Avi_4129  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Avi_0851  mqo; malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Avi_4375  pycA; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
Avi_0042  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
Avi_2112  pdhA; pyruvate dehydrogenase alpha subunit [KO:K00161] [EC:1.2.4.1]
Avi_2114  pdhB; pyruvate dehydrogenase beta subunit [KO:K00162] [EC:1.2.4.1]
Avi_2115  pyruvate dehydrogenase complex dihydrolipoamide 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
avi00010  Glycolysis / Gluconeogenesis
avi00053  Ascorbate and aldarate metabolism
avi00061  Fatty acid biosynthesis
avi00071  Fatty acid degradation
avi00190  Oxidative phosphorylation
avi00220  Arginine biosynthesis
avi00250  Alanine, aspartate and glutamate metabolism
avi00280  Valine, leucine and isoleucine degradation
avi00350  Tyrosine metabolism
avi00470  D-Amino acid metabolism
avi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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