KEGG   PATHWAY: bxb00020
Entry
bxb00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paraburkholderia xenovorans LB400
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
bxb00020  Citrate cycle (TCA cycle)
bxb00020

Module
bxb_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bxb00020]
bxb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bxb00020]
bxb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bxb00020]
bxb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bxb00020]
bxb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bxb00020]
Other DBs
GO: 0006099
Organism
Paraburkholderia xenovorans LB400 [GN:bxb]
Gene
DR64_6452  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DR64_5220  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DR64_2948  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
DR64_3885  DNA binding , excisionase family domain protein [KO:K01647] [EC:2.3.3.1]
DR64_7465  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
DR64_400  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
DR64_5233  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
DR64_6840  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DR64_5865  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
DR64_2963  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
DR64_7780  isocitrate/isopropylmalate dehydrogenase family protein [KO:K00030] [EC:1.1.1.41]
DR64_494  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
DR64_493  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
DR64_3704  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DR64_5912  lpd3; dihydrolipoyl dehydrogenase 3 [KO:K00382] [EC:1.8.1.4]
DR64_492  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DR64_7594  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DR64_2843  sucD; succinate-CoA ligase, alpha subunit [KO:K01902] [EC:6.2.1.5]
DR64_2842  sucC; succinate-CoA ligase, beta subunit [KO:K01903] [EC:6.2.1.5]
DR64_5733  succinate CoA transferase family protein [KO:K18118] [EC:2.8.3.18]
DR64_5633  succinate CoA transferase family protein [KO:K18118] [EC:2.8.3.18]
DR64_7166  succinate CoA transferase family protein [KO:K18118] [EC:2.8.3.18]
DR64_5223  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DR64_5222  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
DR64_5225  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DR64_5224  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DR64_826  hydrolyase, tartrate alpha subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
DR64_3199  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
DR64_5227  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DR64_2096  phosphoenolpyruvate carboxykinase family protein [KO:K01596] [EC:4.1.1.32]
DR64_2145  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DR64_3702  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DR64_8738  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DR64_3703  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
DR64_5655  acoC; dihydrolipoyllysine-residue acetyltransferase component of acetoin cleaving system [KO:K00627] [EC:2.3.1.12]
DR64_7593  e3 binding domain protein [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
bxb00010  Glycolysis / Gluconeogenesis
bxb00053  Ascorbate and aldarate metabolism
bxb00061  Fatty acid biosynthesis
bxb00071  Fatty acid degradation
bxb00190  Oxidative phosphorylation
bxb00220  Arginine biosynthesis
bxb00250  Alanine, aspartate and glutamate metabolism
bxb00280  Valine, leucine and isoleucine degradation
bxb00350  Tyrosine metabolism
bxb00470  D-Amino acid metabolism
bxb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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