KEGG   PATHWAY: cib00020
Entry
cib00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Citrobacter sp. TSA-1
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
cib00020  Citrate cycle (TCA cycle)
cib00020

Module
cib_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cib00020]
cib_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cib00020]
cib_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cib00020]
cib_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cib00020]
cib_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cib00020]
Other DBs
GO: 0006099
Organism
Citrobacter sp. TSA-1 [GN:cib]
Gene
HF677_016320  citrate synthase [KO:K01647] [EC:2.3.3.1]
HF677_011010  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
HF677_019315  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
HF677_010160  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HF677_016295  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HF677_016290  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
HF677_019335  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HF677_016280  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HF677_016285  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HF677_016305  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HF677_016300  sdhB; succinate dehydrogenase iron-sulfur subunit SdhB [KO:K00240] [EC:1.3.5.1]
HF677_016315  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
HF677_016310  sdhD; succinate dehydrogenase membrane anchor subunit [KO:K00242]
HF677_021160  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
HF677_021165  frdB; fumarate reductase iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
HF677_021170  frdC; fumarate reductase subunit FrdC [KO:K00246]
HF677_021175  frdD; fumarate reductase subunit FrdD [KO:K00247]
HF677_016200  class I fumarate hydratase [KO:K01676] [EC:4.2.1.2]
HF677_021675  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
HF677_012285  fumB; class I fumarate hydratase [KO:K01676] [EC:4.2.1.2]
HF677_012280  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HF677_012855  fumD; fumarate hydratase FumD [KO:K01675] [EC:4.2.1.2]
HF677_003985  transcriptional regulator [KO:K01774] [EC:4.2.1.2]
HF677_002240  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
HF677_008010  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
HF677_001470  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
HF677_019345  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
HF677_019340  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
HF677_011340  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
cib00010  Glycolysis / Gluconeogenesis
cib00053  Ascorbate and aldarate metabolism
cib00061  Fatty acid biosynthesis
cib00071  Fatty acid degradation
cib00190  Oxidative phosphorylation
cib00220  Arginine biosynthesis
cib00250  Alanine, aspartate and glutamate metabolism
cib00280  Valine, leucine and isoleucine degradation
cib00350  Tyrosine metabolism
cib00470  D-Amino acid metabolism
cib00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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