KEGG   PATHWAY: xbv00020
Entry
xbv00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Xenorhabdus bovienii CS03
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
xbv00020  Citrate cycle (TCA cycle)
xbv00020

Module
xbv_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:xbv00020]
xbv_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:xbv00020]
xbv_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:xbv00020]
xbv_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:xbv00020]
xbv_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:xbv00020]
Other DBs
GO: 0006099
Organism
Xenorhabdus bovienii CS03 [GN:xbv]
Gene
XBW1_3500  gltA; Citrate synthase [KO:K01647] [EC:2.3.3.1]
XBW1_2034  acnA; Aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
XBW1_3888  acnB; Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
XBW1_2457  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
XBW1_3495  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
XBW1_3494  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
XBW1_3889  lpdA; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
XBW1_3492  sucD; Succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
XBW1_3493  sucC; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
XBW1_3497  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
XBW1_3496  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
XBW1_3499  sdhC; Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
XBW1_3498  sdhD; Succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
XBW1_0456  frdA; Fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
XBW1_0455  frdB; Fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
XBW1_0454  frdC; Fumarate reductase subunit C [KO:K00246]
XBW1_0453  frdD; Fumarate reductase subunit D [KO:K00247]
XBW1_2065  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
XBW1_4434  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
XBW1_0074  pckA; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
XBW1_3891  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
XBW1_3890  aceF; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [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
xbv00010  Glycolysis / Gluconeogenesis
xbv00053  Ascorbate and aldarate metabolism
xbv00061  Fatty acid biosynthesis
xbv00071  Fatty acid degradation
xbv00190  Oxidative phosphorylation
xbv00220  Arginine biosynthesis
xbv00250  Alanine, aspartate and glutamate metabolism
xbv00280  Valine, leucine and isoleucine degradation
xbv00350  Tyrosine metabolism
xbv00470  D-Amino acid metabolism
xbv00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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