KEGG   PATHWAY: mea00020
Entry
mea00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Methylorubrum extorquens AM1
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
mea00020  Citrate cycle (TCA cycle)
mea00020

Module
mea_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:mea00020]
mea_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:mea00020]
mea_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:mea00020]
mea_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:mea00020]
mea_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:mea00020]
Other DBs
GO: 0006099
Organism
Methylorubrum extorquens AM1 [GN:mea]
Gene
Mex_1p1338  fumC; fumarase C [KO:K01679] [EC:4.2.1.2]
Mex_1p1401  mqo; malate dehydrogenase, FAD/NAD(P)-binding domain (tat pathway signal) [KO:K00116] [EC:1.1.5.4]
Mex_1p1533  pck; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
Mex_1p1537  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Mex_1p1538  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Mex_1p1539  sucD; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Mex_1p1540  sucA; 2-oxoglutarate dehydrogenase complex, E1 component, 2-oxoglutarate decarboxylase, thiamine binding [KO:K00164] [EC:1.2.4.2]
Mex_1p1541  sucB; dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
Mex_1p1542  lpd; dihydrolipoamide dehydrogenase, FAD/NAD(P)-binding, component of the 2-oxoglutarate dehydrogenase and the pyruvate dehydrogenase complexes [KO:K00382] [EC:1.8.1.4]
Mex_1p2828  acnA; aconitate hydratase [KO:K27802]
Mex_1p2857  fumC; fumarase C [KO:K01679] [EC:4.2.1.2]
Mex_1p2986  pdhA; pyruvate dehydrogenase E1 alpha subunit [KO:K00161] [EC:1.2.4.1]
Mex_1p2987  pdhB; pyruvate dehydrogenase E1 beta subunit [KO:K00162] [EC:1.2.4.1]
Mex_1p2989  pdhC; dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
Mex_1p2990  lpd; dihydrolipoamide dehydrogenase, E3 Component of Pyruvate dehydrogenase multienzyme complex [KO:K00382] [EC:1.8.1.4]
Mex_1p3354  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Mex_1p3859  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Mex_1p3860  sdhD; Succinate dehydrogenase delta subunit [KO:K00242]
Mex_1p3861  sdhA_B; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Mex_1p3863  sdhB; succinate dehydrogenase, iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
Mex_1p4470  [KO:K00382] [EC:1.8.1.4]
Mex_1p5129  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
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
mea00010  Glycolysis / Gluconeogenesis
mea00053  Ascorbate and aldarate metabolism
mea00061  Fatty acid biosynthesis
mea00071  Fatty acid degradation
mea00190  Oxidative phosphorylation
mea00220  Arginine biosynthesis
mea00250  Alanine, aspartate and glutamate metabolism
mea00280  Valine, leucine and isoleucine degradation
mea00350  Tyrosine metabolism
mea00470  D-Amino acid metabolism
mea00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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