KEGG   PATHWAY: rhi00020
Entry
rhi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Sinorhizobium fredii NGR234
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
rhi00020  Citrate cycle (TCA cycle)
rhi00020

Module
rhi_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rhi00020]
rhi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rhi00020]
rhi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rhi00020]
rhi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rhi00020]
rhi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rhi00020]
Other DBs
GO: 0006099
Organism
Sinorhizobium fredii NGR234 [GN:rhi]
Gene
NGR_b02130  fumA; fumarate hydratase protein [KO:K01678] [EC:4.2.1.2]
NGR_b07740  [KO:K27802]
NGR_b11440  sucB1; dihydrolipoamide succinyltransferase component of 2-oxoglutaratedehydrogenase complex [KO:K00658] [EC:2.3.1.61]
NGR_b19370  [KO:K00382] [EC:1.8.1.4]
NGR_b19380  pdhB1; dihydrolipoyllysine-residue acetyltransferase component of pyruvatedehydrogenase complex [KO:K00627] [EC:2.3.1.12]
NGR_b19710  acoC1; Dihydrolipoyllysine-residue acetyltransferase component of acetoincleaving system [KO:K00627] [EC:2.3.1.12]
NGR_b19880  acoC2; dihydrolipoyllysine-residue acetyltransferase component of acetoincleaving system [KO:K00627] [EC:2.3.1.12]
NGR_b20930  [KO:K01647] [EC:2.3.3.1]
NGR_c12820  pdhA2; pyruvate dehydrogenase E1 component alpha subunit [KO:K00161] [EC:1.2.4.1]
NGR_c12830  pdhB3; pyruvate dehydrogenase E1 component beta subunit [KO:K00162] [EC:1.2.4.1]
NGR_c12850  [KO:K00627] [EC:2.3.1.12]
NGR_c12880  [KO:K00382] [EC:1.8.1.4]
NGR_c13470  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
NGR_c16430  icd; NADP isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
NGR_c17050  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
NGR_c29920  lpdA2; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
NGR_c31220  lpdA1; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
NGR_c31260  sucB2; dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
NGR_c31270  sucA; 2-oxoglutarate dehydrogenase, E1 component [KO:K00164] [EC:1.2.4.2]
NGR_c31280  sucD; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
NGR_c31290  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
NGR_c31300  [KO:K00024] [EC:1.1.1.37]
NGR_c31340  sdhB; succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
NGR_c31350  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NGR_c31360  [KO:K00242]
NGR_c31370  [KO:K00241]
NGR_c32380  acnA; aconitate hydratase [KO:K27802]
NGR_c32860  [KO:K01958] [EC:6.4.1.1]
NGR_c33940  pckA; ATP dependant phosphoenolpyruvate carboxykinase [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
rhi00010  Glycolysis / Gluconeogenesis
rhi00053  Ascorbate and aldarate metabolism
rhi00061  Fatty acid biosynthesis
rhi00071  Fatty acid degradation
rhi00190  Oxidative phosphorylation
rhi00220  Arginine biosynthesis
rhi00250  Alanine, aspartate and glutamate metabolism
rhi00280  Valine, leucine and isoleucine degradation
rhi00350  Tyrosine metabolism
rhi00470  D-Amino acid metabolism
rhi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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