KEGG   PATHWAY: rep00020
Entry
rep00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Rhizobium etli bv. phaseoli IE4803
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
rep00020  Citrate cycle (TCA cycle)
rep00020

Module
rep_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rep00020]
rep_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rep00020]
rep_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rep00020]
rep_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rep00020]
Other DBs
GO: 0006099
Organism
Rhizobium etli bv. phaseoli IE4803 [GN:rep]
Gene
IE4803_CH01982  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
IE4803_CH02198  citrate synthase protein [KO:K01647] [EC:2.3.3.1]
IE4803_CH02199  citA; citrate synthase [KO:K01647] [EC:2.3.3.1]
IE4803_CH04328  acnA; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
IE4803_CH02360  icd; isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
IE4803_CH04272  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
IE4803_CH04270  sucB; dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
IE4803_CH04265  dihydrolipoamide dehydrogenase protein [KO:K00382] [EC:1.8.1.4]
IE4803_CH03691  lpdA-2; dihydrolipoamide dehydrogenase 2 [KO:K00382] [EC:1.8.1.4]
IE4803_CH01995  lpdA-1; dihydrolipoamide dehydrogenase 1 [KO:K00382] [EC:1.8.1.4]
IE4803_PD00073  lpdV; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
IE4803_CH04273  sucD; succinyl-CoA synthetase (ADP-forming) subunit alpha [KO:K01902] [EC:6.2.1.5]
IE4803_CH04274  sucC; succinyl-CoA synthetase (ADP-forming) subunit beta [KO:K01903] [EC:6.2.1.5]
IE4803_CH04280  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
IE4803_CH04279  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
IE4803_CH04282  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
IE4803_CH04281  sdhD; succinate dehydrogenase SdhD subunit [KO:K00242]
IE4803_CH02429  fumA; fumarate hydratase class 1 [KO:K01676] [EC:4.2.1.2]
IE4803_CH02426  fumC; fumarate hydratase class 2 [KO:K01679] [EC:4.2.1.2]
IE4803_CH04275  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
IE4803_CH04388  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
IE4803_CH00036  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
IE4803_CH01990  pdhA; pyruvate dehydrogenase alpha subunit [KO:K00161] [EC:1.2.4.1]
IE4803_CH01991  pdhB-1; pyruvate dehydrogenase subunit beta 1 [KO:K00162] [EC:1.2.4.1]
IE4803_CH03678  acoC-2; dihydrolipoyllysine-residue acetyltransferase component of acetoin cleaving system 2 [KO:K00627] [EC:2.3.1.12]
IE4803_CH03692  pdhC-2; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex 2 [KO:K00627] [EC:2.3.1.12]
IE4803_CH03665  acoC-1; dihydrolipoyllysine-residue acetyltransferase component of acetoin cleaving system 1 [KO:K00627] [EC:2.3.1.12]
IE4803_CH01992  pdhC-1; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex 1 [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
rep00010  Glycolysis / Gluconeogenesis
rep00053  Ascorbate and aldarate metabolism
rep00061  Fatty acid biosynthesis
rep00071  Fatty acid degradation
rep00190  Oxidative phosphorylation
rep00220  Arginine biosynthesis
rep00250  Alanine, aspartate and glutamate metabolism
rep00280  Valine, leucine and isoleucine degradation
rep00350  Tyrosine metabolism
rep00470  D-Amino acid metabolism
rep00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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