KEGG   PATHWAY: hyr00020
Entry
hyr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Hydrogenophaga sp. RAC07
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
hyr00020  Citrate cycle (TCA cycle)
hyr00020

Module
hyr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:hyr00020]
hyr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:hyr00020]
hyr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:hyr00020]
hyr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:hyr00020]
hyr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:hyr00020]
Other DBs
GO: 0006099
Organism
Hydrogenophaga sp. RAC07 [GN:hyr]
Gene
BSY239_3469  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
BSY239_2496  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BSY239_2815  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
BSY239_2473  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
BSY239_2487  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
BSY239_1811  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
BSY239_1813  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
BSY239_1922  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
BSY239_1921  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
BSY239_1920  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BSY239_1928  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BSY239_4181  sucD; succinate-CoA ligase, alpha subunit [KO:K01902] [EC:6.2.1.5]
BSY239_4180  sucC; succinate-CoA ligase, beta subunit [KO:K01903] [EC:6.2.1.5]
BSY239_2493  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BSY239_2494  succinate dehydrogenase and fumarate reductase iron-sulfur family protein [KO:K00240] [EC:1.3.5.1]
BSY239_2491  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
BSY239_2492  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BSY239_1417  hydrolyase, tartrate alpha subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
BSY239_1418  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BSY239_2489  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BSY239_3953  phosphoenolpyruvate carboxykinase family protein [KO:K01596] [EC:4.1.1.32]
BSY239_1930  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
BSY239_2576  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
BSY239_2577  transketolase, pyrimidine binding domain protein [KO:K00162] [EC:1.2.4.1]
BSY239_2578  2-oxoacid dehydrogenases acyltransferase family protein [KO:K00627] [EC:2.3.1.12]
BSY239_1929  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
hyr00010  Glycolysis / Gluconeogenesis
hyr00053  Ascorbate and aldarate metabolism
hyr00061  Fatty acid biosynthesis
hyr00071  Fatty acid degradation
hyr00190  Oxidative phosphorylation
hyr00220  Arginine biosynthesis
hyr00250  Alanine, aspartate and glutamate metabolism
hyr00280  Valine, leucine and isoleucine degradation
hyr00350  Tyrosine metabolism
hyr00470  D-Amino acid metabolism
hyr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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