KEGG   PATHWAY: hyd00020
Entry
hyd00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Hymenobacter sp. DG25B
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
hyd00020  Citrate cycle (TCA cycle)
hyd00020

Module
hyd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:hyd00020]
hyd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:hyd00020]
hyd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:hyd00020]
hyd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:hyd00020]
hyd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:hyd00020]
Other DBs
GO: 0006099
Organism
Hymenobacter sp. DG25B [GN:hyd]
Gene
PK28_09710  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
PK28_07065  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PK28_04925  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PK28_02240  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
PK28_00365  2-oxoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
PK28_09180  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
PK28_00360  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
PK28_00265  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PK28_05070  succinate--CoA ligase [KO:K01902] [EC:6.2.1.5]
PK28_07290  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
PK28_06975  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
PK28_06970  fumarate reductase [KO:K00240] [EC:1.3.5.1]
PK28_06980  succinate dehydrogenase [KO:K00241]
PK28_01750  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PK28_05915  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PK28_12325  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PK28_08200  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
PK28_10840  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
PK28_01945  pyruvate dehydrogenase [KO:K00161] [EC:1.2.4.1]
PK28_08535  pyruvate dehydrogenase [KO:K00162] [EC:1.2.4.1]
PK28_12835  pyruvate dehydrogenase [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
hyd00010  Glycolysis / Gluconeogenesis
hyd00053  Ascorbate and aldarate metabolism
hyd00061  Fatty acid biosynthesis
hyd00071  Fatty acid degradation
hyd00190  Oxidative phosphorylation
hyd00220  Arginine biosynthesis
hyd00250  Alanine, aspartate and glutamate metabolism
hyd00280  Valine, leucine and isoleucine degradation
hyd00350  Tyrosine metabolism
hyd00470  D-Amino acid metabolism
hyd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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