KEGG   PATHWAY: agq00020
Entry
agq00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Agarivorans sp. B2Z047
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
agq00020  Citrate cycle (TCA cycle)
agq00020

Module
agq_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:agq00020]
agq_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:agq00020]
agq_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:agq00020]
agq_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:agq00020]
agq_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:agq00020]
Other DBs
GO: 0006099
Organism
Agarivorans sp. B2Z047 [GN:agq]
Gene
LQZ07_15010  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
LQZ07_05220  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
LQZ07_06550  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
LQZ07_12005  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
LQZ07_09705  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
LQZ07_14985  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
LQZ07_14980  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
LQZ07_05210  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LQZ07_23610  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LQZ07_14970  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LQZ07_14975  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LQZ07_14995  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LQZ07_14990  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LQZ07_15005  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
LQZ07_15000  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
LQZ07_22275  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
LQZ07_22280  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
LQZ07_22285  fumarate reductase subunit C [KO:K00246]
LQZ07_22290  frdD; fumarate reductase subunit FrdD [KO:K00247]
LQZ07_14575  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LQZ07_05270  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
LQZ07_01550  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
LQZ07_05200  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LQZ07_05205  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue 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
agq00010  Glycolysis / Gluconeogenesis
agq00053  Ascorbate and aldarate metabolism
agq00061  Fatty acid biosynthesis
agq00071  Fatty acid degradation
agq00190  Oxidative phosphorylation
agq00220  Arginine biosynthesis
agq00250  Alanine, aspartate and glutamate metabolism
agq00280  Valine, leucine and isoleucine degradation
agq00350  Tyrosine metabolism
agq00470  D-Amino acid metabolism
agq00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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