KEGG   PATHWAY: mex00020
Entry
mex00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Methylorubrum extorquens PA1
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
mex00020  Citrate cycle (TCA cycle)
mex00020

Module
mex_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:mex00020]
mex_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:mex00020]
mex_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:mex00020]
mex_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:mex00020]
mex_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:mex00020]
Other DBs
GO: 0006099
Organism
Methylorubrum extorquens PA1 [GN:mex]
Gene
Mext_4680  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Mext_2637  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
Mext_3141  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Mext_1646  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
Mext_1647  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Mext_4080  FAD-dependent pyridine nucleotide-disulphide oxidoreductase [KO:K00382] [EC:1.8.1.4]
Mext_2790  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Mext_1648  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Mext_1645  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Mext_1644  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Mext_3602  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Mext_3604  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Mext_3600  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Mext_3601  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
Mext_1449  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
Mext_2664  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
Mext_1643  malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
Mext_1509  malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Mext_1639  Phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Mext_2786  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Mext_2787  Transketolase central region [KO:K00162] [EC:1.2.4.1]
Mext_2789  pyruvate dehydrogenase complex dihydrolipoamide 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
mex00010  Glycolysis / Gluconeogenesis
mex00053  Ascorbate and aldarate metabolism
mex00061  Fatty acid biosynthesis
mex00071  Fatty acid degradation
mex00190  Oxidative phosphorylation
mex00220  Arginine biosynthesis
mex00250  Alanine, aspartate and glutamate metabolism
mex00280  Valine, leucine and isoleucine degradation
mex00350  Tyrosine metabolism
mex00470  D-Amino acid metabolism
mex00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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