KEGG   PATHWAY: perj00020
Entry
perj00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Peribacillus sp. JNUCC41
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
perj00020  Citrate cycle (TCA cycle)
perj00020

Module
perj_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:perj00020]
perj_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:perj00020]
perj_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:perj00020]
perj_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:perj00020]
perj_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:perj00020]
Other DBs
GO: 0006099
Organism
Peribacillus sp. JNUCC41 [GN:perj]
Gene
JNUCC41_01060  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
JNUCC41_01065  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
JNUCC41_01070  [KO:K00241]
JNUCC41_01360  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
JNUCC41_01365  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
JNUCC41_01370  citZ; citrate synthase [KO:K01659] [EC:2.3.3.5]
JNUCC41_05940  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
JNUCC41_11775  [KO:K18118] [EC:2.8.3.18]
JNUCC41_12045  [KO:K01676] [EC:4.2.1.2]
JNUCC41_12115  [KO:K00116] [EC:1.1.5.4]
JNUCC41_14310  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JNUCC41_14315  [KO:K00162] [EC:1.2.4.1]
JNUCC41_14320  [KO:K00627] [EC:2.3.1.12]
JNUCC41_14325  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC41_14445  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
JNUCC41_16170  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JNUCC41_16175  [KO:K00162] [EC:1.2.4.1]
JNUCC41_16180  [KO:K00627] [EC:2.3.1.12]
JNUCC41_16185  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC41_16320  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
JNUCC41_16910  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
JNUCC41_16915  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
JNUCC41_17390  [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JNUCC41_17395  [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JNUCC41_20435  acnA; aconitate hydratase AcnA [KO:K27802]
JNUCC41_21710  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC41_21775  [KO:K00627] [EC:2.3.1.12]
JNUCC41_21780  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JNUCC41_23685  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
JNUCC41_23690  [KO:K00164] [EC:1.2.4.2]
JNUCC41_25680  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
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
perj00010  Glycolysis / Gluconeogenesis
perj00053  Ascorbate and aldarate metabolism
perj00061  Fatty acid biosynthesis
perj00071  Fatty acid degradation
perj00190  Oxidative phosphorylation
perj00220  Arginine biosynthesis
perj00250  Alanine, aspartate and glutamate metabolism
perj00280  Valine, leucine and isoleucine degradation
perj00350  Tyrosine metabolism
perj00470  D-Amino acid metabolism
perj00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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