KEGG   PATHWAY: gbe00020
Entry
gbe00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Granulibacter bethesdensis CGDNIH1
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
gbe00020  Citrate cycle (TCA cycle)
gbe00020

Module
gbe_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gbe00020]
gbe_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gbe00020]
gbe_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gbe00020]
gbe_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gbe00020]
Other DBs
GO: 0006099
Organism
Granulibacter bethesdensis CGDNIH1 [GN:gbe]
Gene
GbCGDNIH1_0896  Citrate synthase [KO:K01647] [EC:2.3.3.1]
GbCGDNIH1_0404  Aconitate hydratase [KO:K01681] [EC:4.2.1.3]
GbCGDNIH1_1366  Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
GbCGDNIH1_2050  Isocitrate dehydrogenase [NADP] [KO:K00030] [EC:1.1.1.41]
GbCGDNIH1_2068  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GbCGDNIH1_2067  Dihydrolipoamide succinyltransferase component (E2) of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
GbCGDNIH1_1187  Dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
GbCGDNIH1_2066  Dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
GbCGDNIH1_2069  Succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
GbCGDNIH1_2070  Succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
GbCGDNIH1_2078  Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GbCGDNIH1_2077  Succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
GbCGDNIH1_2080  Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
GbCGDNIH1_2079  Succinate dehydrogenase membrane anchor subunit [KO:K00242]
GbCGDNIH1_1807  Fumarate hydratase [KO:K01676] [EC:4.2.1.2]
GbCGDNIH1_1041  Fumarate hydratase [KO:K01679] [EC:4.2.1.2]
GbCGDNIH1_2071  Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GbCGDNIH1_1044  Malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
GbCGDNIH1_1183  Pyruvate dehydrogenase E1 component alpha subunit [KO:K00161] [EC:1.2.4.1]
GbCGDNIH1_1184  Pyruvate dehydrogenase E1 component beta subunit [KO:K00162] [EC:1.2.4.1]
GbCGDNIH1_1185  Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [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
gbe00010  Glycolysis / Gluconeogenesis
gbe00053  Ascorbate and aldarate metabolism
gbe00061  Fatty acid biosynthesis
gbe00071  Fatty acid degradation
gbe00190  Oxidative phosphorylation
gbe00220  Arginine biosynthesis
gbe00250  Alanine, aspartate and glutamate metabolism
gbe00280  Valine, leucine and isoleucine degradation
gbe00350  Tyrosine metabolism
gbe00470  D-Amino acid metabolism
gbe00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system