KEGG   PATHWAY: veg00020
Entry
veg00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Verrucomicrobium sp. GAS474
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
veg00020  Citrate cycle (TCA cycle)
veg00020

Module
veg_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:veg00020]
veg_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:veg00020]
veg_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:veg00020]
veg_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:veg00020]
veg_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:veg00020]
Other DBs
GO: 0006099
Organism
Verrucomicrobium sp. GAS474 [GN:veg]
Gene
SAMN05444156_2030  citrate synthase [KO:K01647] [EC:2.3.3.1]
SAMN05444156_2336  aconitase [KO:K01681] [EC:4.2.1.3]
SAMN05444156_2010  isocitrate dehydrogenase (NADP) [KO:K00031] [EC:1.1.1.42]
SAMN05444156_1598  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
SAMN05444156_1599  2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
SAMN05444156_1601  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SAMN05444156_0683  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SAMN05444156_2029  succinyl-CoA synthetase alpha subunit [KO:K01902] [EC:6.2.1.5]
SAMN05444156_2028  succinyl-CoA synthetase (ADP-forming) beta subunit [KO:K01903] [EC:6.2.1.5]
SAMN05444156_3172  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
SAMN05444156_3173  succinate dehydrogenase / fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
SAMN05444156_3171  succinate dehydrogenase / fumarate reductase cytochrome b subunit [KO:K00241]
SAMN05444156_1146  fumarate hydratase, class I [KO:K01677] [EC:4.2.1.2]
SAMN05444156_1145  fumarate hydratase, class I [KO:K01678] [EC:4.2.1.2]
SAMN05444156_1398  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
SAMN05444156_0254  malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
SAMN05444156_1379  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
SAMN05444156_2422  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
SAMN05444156_1316  pyruvate dehydrogenase E1 component alpha subunit [KO:K00161] [EC:1.2.4.1]
SAMN05444156_1315  pyruvate dehydrogenase E1 component beta subunit [KO:K00162] [EC:1.2.4.1]
SAMN05444156_1314  pyruvate dehydrogenase E2 component (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
veg00010  Glycolysis / Gluconeogenesis
veg00053  Ascorbate and aldarate metabolism
veg00061  Fatty acid biosynthesis
veg00071  Fatty acid degradation
veg00190  Oxidative phosphorylation
veg00220  Arginine biosynthesis
veg00250  Alanine, aspartate and glutamate metabolism
veg00280  Valine, leucine and isoleucine degradation
veg00350  Tyrosine metabolism
veg00470  D-Amino acid metabolism
veg00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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