KEGG   PATHWAY: xyl00020
Entry
xyl00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Xylanimonas allomyrinae
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
xyl00020  Citrate cycle (TCA cycle)
xyl00020

Module
xyl_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:xyl00020]
xyl_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:xyl00020]
Other DBs
GO: 0006099
Organism
Xylanimonas allomyrinae [GN:xyl]
Gene
ET495_00500  citrate synthase [KO:K01647] [EC:2.3.3.1]
ET495_08565  bifunctional 2-methylcitrate synthase/citrate synthase [KO:K01659] [EC:2.3.3.5]
ET495_05800  aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
ET495_11520  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
ET495_08605  multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
ET495_07590  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
ET495_16245  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
ET495_00610  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
ET495_00605  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
ET495_00620  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
ET495_00615  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
ET495_13700  FAD-binding protein [KO:K00244] [EC:1.3.5.1]
ET495_13705  4Fe-4S dicluster domain-containing protein [KO:K00245] [EC:1.3.5.1]
ET495_09455  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
ET495_16350  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
ET495_07380  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
ET495_14945  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
ET495_06690  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
ET495_06410  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [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
xyl00010  Glycolysis / Gluconeogenesis
xyl00053  Ascorbate and aldarate metabolism
xyl00061  Fatty acid biosynthesis
xyl00071  Fatty acid degradation
xyl00190  Oxidative phosphorylation
xyl00220  Arginine biosynthesis
xyl00250  Alanine, aspartate and glutamate metabolism
xyl00280  Valine, leucine and isoleucine degradation
xyl00350  Tyrosine metabolism
xyl00470  D-Amino acid metabolism
xyl00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system