KEGG   PATHWAY: afo00020
Entry
afo00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Acidimicrobium ferrooxidans
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
afo00020  Citrate cycle (TCA cycle)
afo00020

Module
afo_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:afo00020]
afo_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:afo00020]
afo_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:afo00020]
Other DBs
GO: 0006099
Organism
Acidimicrobium ferrooxidans [GN:afo]
Gene
Afer_1835  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Afer_2022  citrate synthase [KO:K01647] [EC:2.3.3.1]
Afer_1408  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Afer_1881  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Afer_1984  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Afer_0293  pyridine nucleotide-disulphide oxidoreductase dimerization region [KO:K00382] [EC:1.8.1.4]
Afer_0717  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Afer_0826  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Afer_0320  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Afer_0319  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Afer_0312  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Afer_0313  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Afer_0188  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Afer_0187  succinate dehydrogenase subunit D [KO:K00242]
Afer_1786  fumarate lyase [KO:K01679] [EC:4.2.1.2]
Afer_1880  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Afer_0693  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
Afer_0713  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
Afer_0823  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Afer_0824  Transketolase central region [KO:K00162] [EC:1.2.4.1]
Afer_0718  catalytic domain of components of various dehydrogenase complexes [KO:K00627] [EC:2.3.1.12]
Afer_0825  catalytic domain of components of various dehydrogenase complexes [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
afo00010  Glycolysis / Gluconeogenesis
afo00061  Fatty acid biosynthesis
afo00071  Fatty acid degradation
afo00190  Oxidative phosphorylation
afo00220  Arginine biosynthesis
afo00250  Alanine, aspartate and glutamate metabolism
afo00280  Valine, leucine and isoleucine degradation
afo00350  Tyrosine metabolism
afo00470  D-Amino acid metabolism
afo00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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