KEGG   PATHWAY: prz00020
Entry
prz00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paenibacillus rhizovicinus
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
prz00020  Citrate cycle (TCA cycle)
prz00020

Module
prz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:prz00020]
prz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:prz00020]
prz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:prz00020]
prz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:prz00020]
Other DBs
GO: 0006099
Organism
Paenibacillus rhizovicinus [GN:prz]
Gene
GZH47_07000  citZ; citrate synthase [KO:K01647] [EC:2.3.3.1]
GZH47_12180  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
GZH47_06995  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GZH47_29810  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GZH47_29815  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
GZH47_29565  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GZH47_04995  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GZH47_03520  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
GZH47_03515  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
GZH47_03990  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
GZH47_03995  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
GZH47_07495  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GZH47_07490  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GZH47_07500  succinate dehydrogenase [KO:K00241]
GZH47_23905  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
GZH47_22675  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
GZH47_06990  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GZH47_15495  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
GZH47_29550  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
GZH47_29555  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
GZH47_29560  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
GZH47_29660  pyruvate synthase [KO:K00169] [EC:1.2.7.1]
GZH47_29655  4Fe-4S dicluster domain-containing protein [KO:K00172] [EC:1.2.7.1]
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
prz00010  Glycolysis / Gluconeogenesis
prz00053  Ascorbate and aldarate metabolism
prz00061  Fatty acid biosynthesis
prz00071  Fatty acid degradation
prz00190  Oxidative phosphorylation
prz00220  Arginine biosynthesis
prz00250  Alanine, aspartate and glutamate metabolism
prz00280  Valine, leucine and isoleucine degradation
prz00350  Tyrosine metabolism
prz00470  D-Amino acid metabolism
prz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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