KEGG   PATHWAY: bja00020
Entry
bja00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Bradyrhizobium diazoefficiens USDA 110
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
bja00020  Citrate cycle (TCA cycle)
bja00020

Module
bja_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bja00020]
bja_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bja00020]
bja_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bja00020]
bja_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bja00020]
bja_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bja00020]
Other DBs
GO: 0006099
Organism
Bradyrhizobium diazoefficiens USDA 110 [GN:bja]
Gene
bll0182  cisZ; citrate synthase [KO:K01647] [EC:2.3.3.1]
bll0284  mqo; malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
bll0286  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
bll0449  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
bll0451  sucB; dihydrolipoamide S-succinyltransferase [KO:K00658] [EC:2.3.1.61]
bll0452  sucA; alpha-ketoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
bll0453  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
bll0455  sucC; succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
bll0456  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
bll0466  acnA; aconitase [KO:K27802]
bll4778  bll4778; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
bll4779  bll4779; dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
bll4782  pdhB; pyruvate dehydrogenase beta subunit [KO:K00162] [EC:1.2.4.1]
bll4783  pdhA; pyruvate dehydrogenase alpha subunit [KO:K00161] [EC:1.2.4.1]
bll5796  bll5796; Fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
bll6374  bll6374; ORF_ID:bll6374; hypothetical protein [KO:K01647] [EC:2.3.3.1]
bll8141  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
blr0183  cis; citrate synthase [KO:K01647] [EC:2.3.3.1]
blr0512  sdhC; succinate dehydrogenase cytochrome B-556 subunit [KO:K00241]
blr0513  sdhD; succinate dehydrogenase hydrophobic membrane anchor protein subunit [KO:K00242]
blr0514  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
blr0515  sdhB; succinate dehydrogenase iron-sulfur protein subunit [KO:K00240] [EC:1.3.5.1]
blr2815  blr2815; ORF_ID:blr2815; putative transketolase family protein [KO:K00163] [EC:1.2.4.1]
blr3720  blr3720; ORF_ID:blr3720; probable pyruvate dehydrogenase [KO:K00163] [EC:1.2.4.1]
blr3721  aceF; dihydrolipoamide S-acetyltransferase [KO:K00627] [EC:2.3.1.12]
blr3722  lpd; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
blr4839  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
blr5747  icdA; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
blr6334  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
blr6519  fumC; fumarase C [KO:K01679] [EC:4.2.1.2]
blr6743  blr6743; ORF_ID:blr6743; putative ferredoxin oxidoreductase alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
blr6744  blr6744; ORF_ID:blr6744; putative ferredoxin oxidoreductase beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
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
bja00010  Glycolysis / Gluconeogenesis
bja00053  Ascorbate and aldarate metabolism
bja00061  Fatty acid biosynthesis
bja00071  Fatty acid degradation
bja00190  Oxidative phosphorylation
bja00220  Arginine biosynthesis
bja00250  Alanine, aspartate and glutamate metabolism
bja00280  Valine, leucine and isoleucine degradation
bja00350  Tyrosine metabolism
bja00470  D-Amino acid metabolism
bja00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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