KEGG   PATHWAY: dom00020
Entry
dom00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Domibacillus sp. DTU_2020_1001157_1_SI_ALB_TIR_016
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
dom00020  Citrate cycle (TCA cycle)
dom00020

Module
dom_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:dom00020]
dom_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:dom00020]
dom_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:dom00020]
dom_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:dom00020]
dom_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:dom00020]
Other DBs
GO: 0006099
Organism
Domibacillus sp. DTU_2020_1001157_1_SI_ALB_TIR_016 [GN:dom]
Gene
RRU94_13345  citZ; citrate synthase [KO:K01647] [EC:2.3.3.1]
RRU94_06385  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
RRU94_17530  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
RRU94_13350  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RRU94_17070  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RRU94_16410  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RRU94_16415  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
RRU94_09390  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RRU94_14750  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RRU94_20295  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RRU94_19250  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
RRU94_19245  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
RRU94_19690  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
RRU94_19695  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
RRU94_09580  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
RRU94_00710  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RRU94_13530  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RRU94_00715  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RRU94_13535  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RRU94_00705  succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
RRU94_13525  succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
RRU94_21970  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
RRU94_01735  fumarate hydratase [KO:K01677] [EC:4.2.1.2]
RRU94_01730  FumA C-terminus/TtdB family hydratase beta subunit [KO:K01678] [EC:4.2.1.2]
RRU94_21615  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
RRU94_13355  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RRU94_00930  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
RRU94_05720  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
RRU94_20205  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
RRU94_13000  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
RRU94_20310  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
RRU94_20305  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
RRU94_09385  dihydrolipoamide acetyltransferase family protein [KO:K00627] [EC:2.3.1.12]
RRU94_10780  dihydrolipoamide acetyltransferase family protein [KO:K00627] [EC:2.3.1.12]
RRU94_20300  dihydrolipoamide acetyltransferase family protein [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
dom00010  Glycolysis / Gluconeogenesis
dom00053  Ascorbate and aldarate metabolism
dom00061  Fatty acid biosynthesis
dom00071  Fatty acid degradation
dom00190  Oxidative phosphorylation
dom00220  Arginine biosynthesis
dom00250  Alanine, aspartate and glutamate metabolism
dom00280  Valine, leucine and isoleucine degradation
dom00350  Tyrosine metabolism
dom00470  D-Amino acid metabolism
dom00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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