KEGG   PATHWAY: vij00020
Entry
vij00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Viridibacillus arvi
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
vij00020  Citrate cycle (TCA cycle)
vij00020

Module
vij_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vij00020]
vij_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vij00020]
vij_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vij00020]
vij_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vij00020]
vij_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vij00020]
Other DBs
GO: 0006099
Organism
Viridibacillus arvi [GN:vij]
Gene
JNUCC6_00170  [KO:K18118] [EC:2.8.3.18]
JNUCC6_00440  [KO:K00164] [EC:1.2.4.2]
JNUCC6_00445  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
JNUCC6_03405  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC6_03675  acnA; aconitate hydratase AcnA [KO:K27802]
JNUCC6_07320  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC6_09375  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
JNUCC6_09380  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
JNUCC6_09385  [KO:K00241]
JNUCC6_09665  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
JNUCC6_09670  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
JNUCC6_09675  citZ; citrate synthase [KO:K01659] [EC:2.3.3.5]
JNUCC6_10155  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
JNUCC6_11825  [KO:K01676] [EC:4.2.1.2]
JNUCC6_12890  [KO:K18118] [EC:2.8.3.18]
JNUCC6_13250  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
JNUCC6_14800  [KO:K00116] [EC:1.1.5.4]
JNUCC6_19175  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JNUCC6_19180  [KO:K00162] [EC:1.2.4.1]
JNUCC6_19185  [KO:K00627] [EC:2.3.1.12]
JNUCC6_19190  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC6_19300  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
JNUCC6_19880  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
JNUCC6_19885  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
JNUCC6_20330  [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JNUCC6_20335  [KO:K00175] [EC:1.2.7.3 1.2.7.11]
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
vij00010  Glycolysis / Gluconeogenesis
vij00053  Ascorbate and aldarate metabolism
vij00061  Fatty acid biosynthesis
vij00071  Fatty acid degradation
vij00190  Oxidative phosphorylation
vij00220  Arginine biosynthesis
vij00250  Alanine, aspartate and glutamate metabolism
vij00280  Valine, leucine and isoleucine degradation
vij00350  Tyrosine metabolism
vij00470  D-Amino acid metabolism
vij00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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