KEGG   PATHWAY: bub00020
Entry
bub00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Burkholderia ubonensis
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
bub00020  Citrate cycle (TCA cycle)
bub00020

Module
bub_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bub00020]
bub_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bub00020]
bub_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bub00020]
bub_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bub00020]
bub_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bub00020]
Other DBs
GO: 0006099
Organism
Burkholderia ubonensis [GN:bub]
Gene
BW23_2352  merR regulatory family protein [KO:K01647] [EC:2.3.3.1]
BW23_4695  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BW23_3901  2-methylcitrate synthase/citrate synthase II family protein [KO:K01659] [EC:2.3.3.5]
BW23_4684  acnA; aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
BW23_4277  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
BW23_2362  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
BW23_2363  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
BW23_239  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
BW23_238  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
BW23_237  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BW23_2781  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BW23_5911  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BW23_2249  sucD; succinate-CoA ligase, alpha subunit [KO:K01902] [EC:6.2.1.5]
BW23_2248  sucC; succinate-CoA ligase, beta subunit [KO:K01903] [EC:6.2.1.5]
BW23_4924  succinate CoA transferase family protein [KO:K18118] [EC:2.8.3.18]
BW23_4692  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BW23_4693  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
BW23_4690  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
BW23_4691  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BW23_2672  hydrolyase, tartrate alpha subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
BW23_642  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BW23_4688  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BW23_4163  mqo; malate dehydrogenase [KO:K00116] [EC:1.1.5.4]
BW23_5194  phosphoenolpyruvate carboxykinase family protein [KO:K01596] [EC:4.1.1.32]
BW23_2779  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
BW23_2780  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
bub00010  Glycolysis / Gluconeogenesis
bub00053  Ascorbate and aldarate metabolism
bub00061  Fatty acid biosynthesis
bub00071  Fatty acid degradation
bub00190  Oxidative phosphorylation
bub00220  Arginine biosynthesis
bub00250  Alanine, aspartate and glutamate metabolism
bub00280  Valine, leucine and isoleucine degradation
bub00350  Tyrosine metabolism
bub00470  D-Amino acid metabolism
bub00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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