KEGG   PATHWAY: paga00020
Entry
paga00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudoalteromonas agarivorans
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
paga00020  Citrate cycle (TCA cycle)
paga00020

Module
paga_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:paga00020]
paga_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:paga00020]
paga_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:paga00020]
paga_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:paga00020]
paga_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:paga00020]
Other DBs
GO: 0006099
Organism
Pseudoalteromonas agarivorans [GN:paga]
Gene
PAGA_a1846  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
PAGA_a0199  acnA; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PAGA_a0229  acnB; aconitate hydratase 2 / 2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PAGA_a1680  icd; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PAGA_a1752  icd; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PAGA_b0853  isocitrate dehydrogenase (NAD+) [KO:K00030] [EC:1.1.1.41]
PAGA_a1851  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
PAGA_a1852  sucB; 2-oxoglutarate dehydrogenase E2 component (dihydrolipoamide succinyltransferase) [KO:K00658] [EC:2.3.1.61]
PAGA_a3412  pdhD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PAGA_a1036  pdhD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PAGA_a1854  sucD; succinyl-CoA synthetase alpha subunit [KO:K01902] [EC:6.2.1.5]
PAGA_a1853  sucC; succinyl-CoA synthetase beta subunit [KO:K01903] [EC:6.2.1.5]
PAGA_a1849  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PAGA_a1850  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PAGA_a1847  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
PAGA_a1486  fumA; fumarate hydratase, class I [KO:K01676] [EC:4.2.1.2]
PAGA_a0057  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
PAGA_a3403  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PAGA_a3625  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
PAGA_a3416  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
PAGA_a3414  pdhC; pyruvate dehydrogenase E2 component (dihydrolipoamide 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
paga00010  Glycolysis / Gluconeogenesis
paga00053  Ascorbate and aldarate metabolism
paga00061  Fatty acid biosynthesis
paga00071  Fatty acid degradation
paga00190  Oxidative phosphorylation
paga00220  Arginine biosynthesis
paga00250  Alanine, aspartate and glutamate metabolism
paga00280  Valine, leucine and isoleucine degradation
paga00350  Tyrosine metabolism
paga00470  D-Amino acid metabolism
paga00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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