KEGG   PATHWAY: cup00020
Entry
cup00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Cupriavidus malaysiensis
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
cup00020  Citrate cycle (TCA cycle)
cup00020

Module
cup_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cup00020]
cup_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cup00020]
cup_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cup00020]
cup_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cup00020]
cup_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cup00020]
Other DBs
GO: 0006099
Organism
Cupriavidus malaysiensis [GN:cup]
Gene
BKK80_28425  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
BKK80_15870  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BKK80_30010  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
BKK80_15930  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
BKK80_31940  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
BKK80_24610  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
BKK80_17700  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
BKK80_14565  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
BKK80_14560  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
BKK80_14555  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BKK80_31530  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BKK80_29170  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BKK80_13110  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BKK80_04680  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
BKK80_04675  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
BKK80_13220  propionyl-CoA--succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
BKK80_15885  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BKK80_15880  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BKK80_15895  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
BKK80_15890  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BKK80_15410  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
BKK80_21450  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
BKK80_34475  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BKK80_15905  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BKK80_29070  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
BKK80_01025  phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
BKK80_13125  pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
BKK80_20765  acetoin dehydrogenase dihydrolipoyllysine-residue acetyltransferase subunit [KO:K00627] [EC:2.3.1.12]
BKK80_31525  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
BKK80_13120  dihydrolipoyllysine-residue 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
cup00010  Glycolysis / Gluconeogenesis
cup00053  Ascorbate and aldarate metabolism
cup00061  Fatty acid biosynthesis
cup00071  Fatty acid degradation
cup00190  Oxidative phosphorylation
cup00220  Arginine biosynthesis
cup00250  Alanine, aspartate and glutamate metabolism
cup00280  Valine, leucine and isoleucine degradation
cup00350  Tyrosine metabolism
cup00470  D-Amino acid metabolism
cup00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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