KEGG   PATHWAY: bmk00020
Entry
bmk00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Burkholderia multivorans DDS 15A-1
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
bmk00020  Citrate cycle (TCA cycle)
bmk00020

Module
bmk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bmk00020]
bmk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bmk00020]
bmk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bmk00020]
bmk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bmk00020]
bmk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bmk00020]
Other DBs
GO: 0006099
Organism
Burkholderia multivorans DDS 15A-1 [GN:bmk]
Gene
DM80_2428  merR regulatory family protein [KO:K01647] [EC:2.3.3.1]
DM80_3844  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DM80_1414  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
DM80_3855  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
DM80_4326  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DM80_2437  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
DM80_2438  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
DM80_151  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
DM80_150  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
DM80_2832  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DM80_149  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DM80_2322  sucD; succinate-CoA ligase, alpha subunit [KO:K01902] [EC:6.2.1.5]
DM80_2321  sucC; succinate-CoA ligase, beta subunit [KO:K01903] [EC:6.2.1.5]
DM80_3627  succinate CoA transferase family protein [KO:K18118] [EC:2.8.3.18]
DM80_6285  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DM80_3847  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DM80_6220  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
DM80_6284  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
DM80_3846  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
DM80_5718  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
DM80_6287  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DM80_3849  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DM80_6286  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DM80_3848  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DM80_2776  hydrolyase, tartrate alpha subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
DM80_552  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
DM80_3851  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DM80_5494  phosphoenolpyruvate carboxykinase family protein [KO:K01596] [EC:4.1.1.32]
DM80_2830  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DM80_3190  acoC; dihydrolipoyllysine-residue acetyltransferase component of acetoin cleaving system [KO:K00627] [EC:2.3.1.12]
DM80_2831  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
bmk00010  Glycolysis / Gluconeogenesis
bmk00053  Ascorbate and aldarate metabolism
bmk00061  Fatty acid biosynthesis
bmk00071  Fatty acid degradation
bmk00190  Oxidative phosphorylation
bmk00220  Arginine biosynthesis
bmk00250  Alanine, aspartate and glutamate metabolism
bmk00280  Valine, leucine and isoleucine degradation
bmk00350  Tyrosine metabolism
bmk00470  D-Amino acid metabolism
bmk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system