KEGG   PATHWAY: pand00020
Entry
pand00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pandoraea sp. XY-2
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
pand00020  Citrate cycle (TCA cycle)
pand00020

Module
pand_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pand00020]
pand_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pand00020]
pand_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pand00020]
pand_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pand00020]
pand_M00982  Methylcitrate cycle [PATH:pand00020]
Other DBs
GO: 0006099
Organism
Pandoraea sp. XY-2 [GN:pand]
Gene
DRB87_00185  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DRB87_00840  [KO:K01596] [EC:4.1.1.32]
DRB87_04445  [KO:K01676] [EC:4.2.1.2]
DRB87_05460  [KO:K01647] [EC:2.3.3.1]
DRB87_06210  acnA; aconitate hydratase AcnA [KO:K27802]
DRB87_08640  acnA; aconitate hydratase AcnA [KO:K27802]
DRB87_08650  [KO:K00024] [EC:1.1.1.37]
DRB87_08660  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DRB87_08665  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DRB87_08670  [KO:K00239] [EC:1.3.5.1]
DRB87_08675  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
DRB87_08685  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DRB87_09165  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DRB87_09170  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
DRB87_09180  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DRB87_13280  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DRB87_13285  [KO:K00658] [EC:2.3.1.61]
DRB87_13290  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
DRB87_14620  [KO:K01659] [EC:2.3.3.5]
DRB87_14690  [KO:K18118] [EC:2.8.3.18]
DRB87_15375  [KO:K00031] [EC:1.1.1.42]
DRB87_17900  [KO:K00031] [EC:1.1.1.42]
DRB87_19380  [KO:K01902] [EC:6.2.1.5]
DRB87_22805  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
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
pand00010  Glycolysis / Gluconeogenesis
pand00053  Ascorbate and aldarate metabolism
pand00061  Fatty acid biosynthesis
pand00071  Fatty acid degradation
pand00190  Oxidative phosphorylation
pand00220  Arginine biosynthesis
pand00250  Alanine, aspartate and glutamate metabolism
pand00280  Valine, leucine and isoleucine degradation
pand00350  Tyrosine metabolism
pand00470  D-Amino acid metabolism
pand00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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