KEGG   PATHWAY: dml00020
Entry
dml00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Desulfococcus multivorans
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
dml00020  Citrate cycle (TCA cycle)
dml00020

Module
dml_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:dml00020]
dml_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:dml00020]
dml_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:dml00020]
dml_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:dml00020]
Other DBs
GO: 0006099
Organism
Desulfococcus multivorans [GN:dml]
Gene
Dmul_01290  pckA; PckA: phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
Dmul_01970  korA1; KorA1: 2-oxoglutarate synthase, subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Dmul_01980  korB1; KorB1: 2-oxoglutarate synthase, subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Dmul_02810  korC1; KorC1: 2-oxoglutarate synthase, subunit gamma [KO:K00177] [EC:1.2.7.3]
Dmul_02820  korB2; KorB2: 2-oxoglutarate synthase, subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Dmul_02830  korA2; KorA2: 2-oxoglutarate synthase, subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Dmul_02840  [KO:K00176] [EC:1.2.7.3]
Dmul_08960  icd; Icd: isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Dmul_10470  acnA; AcnA: aconitate hydratase (aconitase) [KO:K27802]
Dmul_14930  korA3; KorA3: 2-oxoglutarate synthase, subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Dmul_14940  korB3; KorB3: 2-oxoglutarate synthase, subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Dmul_17080  korC2; KorC2: 2-oxoglutarate synthase, subunit gamma [KO:K00177] [EC:1.2.7.3]
Dmul_17090  korB4; KorB4: 2-oxoglutarate synthase, subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Dmul_17100  korA4; KorA4: 2-oxoglutarate synthase, subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Dmul_17110  [KO:K00176] [EC:1.2.7.3]
Dmul_17790  fumC; FumC: fumarate hydratase class II (fumarase C) [KO:K01679] [EC:4.2.1.2]
Dmul_18340  por; Por: pyruvate:ferredoxin oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
Dmul_18350  fumA; FumA: fumarate hydratase class I (fumarase) [KO:K01676] [EC:4.2.1.2]
Dmul_18540  porB; PorB: pyruvate synthase, subunit beta [KO:K00170] [EC:1.2.7.1]
Dmul_18550  porA; PorA: pyruvate synthase, subunit alpha [KO:K00169] [EC:1.2.7.1]
Dmul_18570  porC; PorC: pyruvate synthase, subunit gamma [KO:K00172] [EC:1.2.7.1]
Dmul_20930  lpdA1; LpdA1: dihydrolipoyl dehydrogenase (E3 component of 2-oxoglutarate dehydrogenase complex) [KO:K00382] [EC:1.8.1.4]
Dmul_20940  sucB; SucB: Dihydrolipoyllysine-residue succinyltransferase component (E2 component of 2-oxoglutarate dehydrogenase complex) [KO:K00658] [EC:2.3.1.61]
Dmul_20950  sucA; sucA: Alpha-ketoglutarate dehydrogenase (E1 component of 2-oxoglutarate dehydrogenase) [KO:K00164] [EC:1.2.4.2]
Dmul_21750  mdh; Mdh: malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Dmul_23590  pdhC1; PdhC1: pyruvate dehydrogenase E2 component, subunit gamma [KO:K00627] [EC:2.3.1.12]
Dmul_23600  pdhB1; PdhB1: pyruvate dehydrogenase E1 component, subunit beta [KO:K00162] [EC:1.2.4.1]
Dmul_23610  pdhA1; PdhA1: pyruvate dehydrogenase E1 component, subunit alpha [KO:K00161] [EC:1.2.4.1]
Dmul_25140  [KO:K00176] [EC:1.2.7.3]
Dmul_25150  vorB; VorB: 2-oxoisovalerate ferredoxin reductase, subunit beta [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Dmul_25160  vorA; VorA: 2-oxoisovalerate ferredoxin reductase, subunit alpha [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Dmul_25170  korC3; KorC3: 2-oxoglutarate synthase, subunit gamma [KO:K00177] [EC:1.2.7.3]
Dmul_27040  sdhB; SdhB: succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Dmul_27050  sdhA; SdhA: succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Dmul_27060  sdhC; SdhC: succinate dehydrogenase/fumarate reductase cytochrome b subunit [KO:K00241]
Dmul_31220  gltA1; GltA1: citrate synthase, type II [KO:K01647] [EC:2.3.3.1]
Dmul_34140  pycB; PycB: pyruvate carboxylase, subunit B [KO:K01960] [EC:6.4.1.1]
Dmul_34150  sucC2; SucC2: succinyl-CoA ligase, subunit gamma [KO:K01903] [EC:6.2.1.5]
Dmul_34160  sucD2; SucD2: succinyl-CoA ligase, subunit alpha [KO:K01902] [EC:6.2.1.5]
Dmul_34800  pdhA2; pdhA2: pyruvate dehydrogenase E1 component, subunit alpha [KO:K00161] [EC:1.2.4.1]
Dmul_34810  pdhB2; PdhB2: pyruvate dehydrogenase E1 component, subunit beta [KO:K00162] [EC:1.2.4.1]
Dmul_34820  pdhC2; PdhC2: pyruvate dehydrogenase E2 component, subunit gamma [KO:K00627] [EC:2.3.1.12]
Dmul_34830  lpdA2; LpdA2: dihydrolipoyl dehydrogenase (E3 component of 2-oxoglutarate dehydrogenase complex) [KO:K00382] [EC:1.8.1.4]
Dmul_35200  gltA2; GltA2: citrate synthase [KO:K01659] [EC:2.3.3.5]
Dmul_38090  cat1; Cat1: predicted succinyl-CoA:acetate CoA transferase [KO:K18118] [EC:2.8.3.18]
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
dml00010  Glycolysis / Gluconeogenesis
dml00053  Ascorbate and aldarate metabolism
dml00061  Fatty acid biosynthesis
dml00071  Fatty acid degradation
dml00190  Oxidative phosphorylation
dml00220  Arginine biosynthesis
dml00250  Alanine, aspartate and glutamate metabolism
dml00280  Valine, leucine and isoleucine degradation
dml00350  Tyrosine metabolism
dml00470  D-Amino acid metabolism
dml00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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