KEGG   PATHWAY: medk00020
Entry
medk00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Methylocapsa sp. D3K7
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
medk00020  Citrate cycle (TCA cycle)
medk00020

Module
medk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:medk00020]
medk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:medk00020]
medk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:medk00020]
medk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:medk00020]
medk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:medk00020]
Other DBs
GO: 0006099
Organism
Methylocapsa sp. D3K7 [GN:medk]
Gene
QEV83_11985  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
QEV83_14025  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
QEV83_17600  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
QEV83_10060  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
QEV83_10065  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
QEV83_02320  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QEV83_10080  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QEV83_10055  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
QEV83_10050  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
QEV83_03550  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
QEV83_03545  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
QEV83_03560  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
QEV83_03555  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
QEV83_11610  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
QEV83_15325  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
QEV83_10045  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
QEV83_06270  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
QEV83_12940  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
QEV83_02335  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
QEV83_02330  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
QEV83_02325  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
medk00010  Glycolysis / Gluconeogenesis
medk00053  Ascorbate and aldarate metabolism
medk00061  Fatty acid biosynthesis
medk00071  Fatty acid degradation
medk00190  Oxidative phosphorylation
medk00220  Arginine biosynthesis
medk00250  Alanine, aspartate and glutamate metabolism
medk00280  Valine, leucine and isoleucine degradation
medk00350  Tyrosine metabolism
medk00470  D-Amino acid metabolism
medk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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