KEGG   PATHWAY: metd00020
Entry
metd00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Methylobacterium sp. DM1
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
metd00020  Citrate cycle (TCA cycle)
metd00020

Module
metd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:metd00020]
metd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:metd00020]
metd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:metd00020]
metd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:metd00020]
metd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:metd00020]
Other DBs
GO: 0006099
Organism
Methylobacterium sp. DM1 [GN:metd]
Gene
C0214_25675  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
C0214_14830  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
C0214_17440  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
C0214_09600  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
C0214_09595  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
C0214_15615  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
C0214_09585  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
C0214_22415  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
C0214_09605  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
C0214_07120  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
C0214_09610  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
C0214_07125  succinate--CoA ligase [KO:K01903] [EC:6.2.1.5]
C0214_20465  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
C0214_20475  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
C0214_20455  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
C0214_20460  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
C0214_14975  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
C0214_09615  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
C0214_08510  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
C0214_09635  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
C0214_15595  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
C0214_15600  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
C0214_15610  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
metd00010  Glycolysis / Gluconeogenesis
metd00053  Ascorbate and aldarate metabolism
metd00061  Fatty acid biosynthesis
metd00071  Fatty acid degradation
metd00190  Oxidative phosphorylation
metd00220  Arginine biosynthesis
metd00250  Alanine, aspartate and glutamate metabolism
metd00280  Valine, leucine and isoleucine degradation
metd00350  Tyrosine metabolism
metd00470  D-Amino acid metabolism
metd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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