KEGG   PATHWAY: pbon00020
Entry
pbon00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Paraburkholderia bonniea
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
pbon00020  Citrate cycle (TCA cycle)
pbon00020

Module
pbon_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pbon00020]
pbon_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pbon00020]
pbon_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pbon00020]
pbon_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pbon00020]
pbon_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pbon00020]
Other DBs
GO: 0006099
Organism
Paraburkholderia bonniea [GN:pbon]
Gene
QS306_16850  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
QS306_16915  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
QS306_11050  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
QS306_06470  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
QS306_06475  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
QS306_05775  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QS306_06480  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QS306_11640  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
QS306_11645  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
QS306_14770  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
QS306_16865  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
QS306_16860  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
QS306_16875  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
QS306_16870  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
QS306_05590  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
QS306_13205  fumarate hydratase [KO:K01677] [EC:4.2.1.2]
QS306_13200  fumarate hydratase C-terminal domain-containing protein [KO:K01678] [EC:4.2.1.2]
QS306_10415  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
QS306_16885  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
QS306_13320  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
QS306_05765  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
QS306_05770  aceF; 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
pbon00010  Glycolysis / Gluconeogenesis
pbon00053  Ascorbate and aldarate metabolism
pbon00061  Fatty acid biosynthesis
pbon00071  Fatty acid degradation
pbon00190  Oxidative phosphorylation
pbon00220  Arginine biosynthesis
pbon00250  Alanine, aspartate and glutamate metabolism
pbon00280  Valine, leucine and isoleucine degradation
pbon00350  Tyrosine metabolism
pbon00470  D-Amino acid metabolism
pbon00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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