KEGG   PATHWAY: pagc00020
Entry
pagc00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pantoea agglomerans C410P1
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
pagc00020  Citrate cycle (TCA cycle)
pagc00020

Module
pagc_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pagc00020]
pagc_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pagc00020]
pagc_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pagc00020]
pagc_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pagc00020]
pagc_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pagc00020]
Other DBs
GO: 0006099
Organism
Pantoea agglomerans C410P1 [GN:pagc]
Gene
BEE12_12505  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BEE12_17405  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
BEE12_10490  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
BEE12_14435  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
BEE12_12530  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
BEE12_12535  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
BEE12_10465  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BEE12_12545  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
BEE12_12540  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
BEE12_12520  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BEE12_12525  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BEE12_12510  succinate dehydrogenase cytochrome b556 large subunit [KO:K00241]
BEE12_12515  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BEE12_20065  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
BEE12_15970  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BEE12_04525  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BEE12_20095  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
BEE12_05940  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
BEE12_05225  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
BEE12_10455  pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
BEE12_10460  aceF; pyruvate dehydrogenase complex 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
pagc00010  Glycolysis / Gluconeogenesis
pagc00053  Ascorbate and aldarate metabolism
pagc00061  Fatty acid biosynthesis
pagc00071  Fatty acid degradation
pagc00190  Oxidative phosphorylation
pagc00220  Arginine biosynthesis
pagc00250  Alanine, aspartate and glutamate metabolism
pagc00280  Valine, leucine and isoleucine degradation
pagc00350  Tyrosine metabolism
pagc00470  D-Amino acid metabolism
pagc00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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