KEGG   PATHWAY: gami00020
Entry
gami00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Gordonia amicalis
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
gami00020  Citrate cycle (TCA cycle)
gami00020

Module
gami_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gami00020]
gami_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gami00020]
gami_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gami00020]
gami_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gami00020]
gami_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gami00020]
Other DBs
GO: 0006099
Organism
Gordonia amicalis [GN:gami]
Gene
IHQ52_09195  citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
IHQ52_09260  citrate synthase [KO:K01647] [EC:2.3.3.1]
IHQ52_04720  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
IHQ52_15810  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
IHQ52_00125  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
IHQ52_12140  multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
IHQ52_06070  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
IHQ52_09575  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
IHQ52_09570  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
IHQ52_14655  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
IHQ52_11585  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
IHQ52_12945  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
IHQ52_11580  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
IHQ52_12950  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
IHQ52_11595  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
IHQ52_11590  succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
IHQ52_11075  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
IHQ52_11070  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
IHQ52_13600  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
IHQ52_17230  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
IHQ52_11770  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
IHQ52_01665  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
IHQ52_07380  pyruvate dehydrogenase [KO:K00163] [EC:1.2.4.1]
IHQ52_18835  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
IHQ52_14415  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
IHQ52_14420  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
IHQ52_14425  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
IHQ52_18655  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [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
gami00010  Glycolysis / Gluconeogenesis
gami00053  Ascorbate and aldarate metabolism
gami00061  Fatty acid biosynthesis
gami00071  Fatty acid degradation
gami00190  Oxidative phosphorylation
gami00220  Arginine biosynthesis
gami00250  Alanine, aspartate and glutamate metabolism
gami00280  Valine, leucine and isoleucine degradation
gami00350  Tyrosine metabolism
gami00470  D-Amino acid metabolism
gami00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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