KEGG   PATHWAY: avq00020
Entry
avq00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Agrobacterium vaccinii
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
avq00020  Citrate cycle (TCA cycle)
avq00020

Module
avq_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:avq00020]
avq_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:avq00020]
avq_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:avq00020]
avq_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:avq00020]
Other DBs
GO: 0006099
Organism
Agrobacterium vaccinii [GN:avq]
Gene
HRR99_21600  citrate synthase [KO:K01647] [EC:2.3.3.1]
HRR99_21605  citrate synthase [KO:K01647] [EC:2.3.3.1]
HRR99_07650  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
HRR99_14090  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
HRR99_08310  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HRR99_13535  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HRR99_13530  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
HRR99_07590  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HRR99_13515  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HRR99_13540  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HRR99_13545  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HRR99_13570  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HRR99_13565  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HRR99_13580  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
HRR99_13575  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
HRR99_06535  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HRR99_13550  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
HRR99_03015  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
HRR99_13845  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
HRR99_14620  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
HRR99_07615  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
HRR99_07610  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
HRR99_07600  pyruvate dehydrogenase complex dihydrolipoamide 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
avq00010  Glycolysis / Gluconeogenesis
avq00053  Ascorbate and aldarate metabolism
avq00061  Fatty acid biosynthesis
avq00071  Fatty acid degradation
avq00190  Oxidative phosphorylation
avq00220  Arginine biosynthesis
avq00250  Alanine, aspartate and glutamate metabolism
avq00280  Valine, leucine and isoleucine degradation
avq00350  Tyrosine metabolism
avq00470  D-Amino acid metabolism
avq00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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