KEGG   PATHWAY: pnr00020
Entry
pnr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pandoraea norimbergensis
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
pnr00020  Citrate cycle (TCA cycle)
pnr00020

Module
pnr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pnr00020]
pnr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pnr00020]
pnr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pnr00020]
pnr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pnr00020]
pnr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pnr00020]
Other DBs
GO: 0006099
Organism
Pandoraea norimbergensis [GN:pnr]
Gene
AT302_21035  excisionase [KO:K01647] [EC:2.3.3.1]
AT302_26795  citrate synthase [KO:K01647] [EC:2.3.3.1]
AT302_24410  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
AT302_19505  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
AT302_25925  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
AT302_24455  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
AT302_16640  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
AT302_15490  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
AT302_02815  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
AT302_17560  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
AT302_17565  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
AT302_17570  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AT302_23875  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AT302_04520  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
AT302_04525  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
AT302_16205  acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
AT302_16655  hypothetical protein [KO:K00239] [EC:1.3.5.1]
AT302_24425  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AT302_24420  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
AT302_16665  hypothetical protein [KO:K00241]
AT302_24435  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
AT302_24430  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
AT302_13195  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
AT302_07870  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
AT302_24445  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
AT302_20685  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
AT302_08840  phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
AT302_08395  pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
AT302_23890  pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
AT302_23885  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
pnr00010  Glycolysis / Gluconeogenesis
pnr00053  Ascorbate and aldarate metabolism
pnr00061  Fatty acid biosynthesis
pnr00071  Fatty acid degradation
pnr00190  Oxidative phosphorylation
pnr00220  Arginine biosynthesis
pnr00250  Alanine, aspartate and glutamate metabolism
pnr00280  Valine, leucine and isoleucine degradation
pnr00350  Tyrosine metabolism
pnr00470  D-Amino acid metabolism
pnr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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