KEGG   PATHWAY: mjd00020
Entry
mjd00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Mycolicibacter sinensis
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
mjd00020  Citrate cycle (TCA cycle)
mjd00020

Module
mjd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:mjd00020]
mjd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:mjd00020]
mjd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:mjd00020]
mjd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:mjd00020]
mjd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:mjd00020]
mjd_M00982  Methylcitrate cycle [PATH:mjd00020]
Other DBs
GO: 0006099
Organism
Mycolicibacter sinensis [GN:mjd]
Gene
JDM601_0174  pckA; iron-regulated phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
JDM601_0234  sdhB_1; succinate dehydrogenase (iron-sulfur subunit) SdhB_1 [KO:K00240] [EC:1.3.5.1]
JDM601_0235  sdhA; succinate dehydrogenase (iron-sulfur subunit) SdhA_1 [KO:K00239] [EC:1.3.5.1]
JDM601_0450  lpd; dihydrolipoamide dehydrogenase Lpd [KO:K00382] [EC:1.8.1.4]
JDM601_0813  citA; citrate synthase II CitA [KO:K01647] [EC:2.3.3.1]
JDM601_0816  gltA; citrate synthase I GltA2 [KO:K01647] [EC:2.3.3.1]
JDM601_0897  sucC; succinyl-CoA synthetase (beta chain) SucC [KO:K01903] [EC:6.2.1.5]
JDM601_0898  sucD; succinyl-CoA synthetase (alpha chain) SucD [KO:K01902] [EC:6.2.1.5]
JDM601_1050  fumC; fumarase Fum [KO:K01679] [EC:4.2.1.2]
JDM601_1082  gltA1; citrate synthase I GltA1 [KO:K01659] [EC:2.3.3.5]
JDM601_1212  mdh; malate dehydrogenase Mdh [KO:K00024] [EC:1.1.1.37]
JDM601_1216  kgd; alpha-ketoglutarate decarboxylase Kgd [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
JDM601_1452  porA; pyruvate:ferredoxin oxidoreductase PorA alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JDM601_1453  porB; pyruvate:ferredoxin oxidoreductase PorB beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JDM601_1654  aceE; pyruvate dehydrogenase E1 component AceE [KO:K00163] [EC:1.2.4.1]
JDM601_1688  sucB; pyruvate dehydrogenase (E2 component) SucB [KO:K00627] [EC:2.3.1.12]
JDM601_2082  acn; aconitate hydratase Acn [KO:K27802]
JDM601_2239  acn; aconitate hydratase Acn [KO:K27802]
JDM601_2572  mqo; malate:quinone oxidoreductase Mqo [KO:K00116] [EC:1.1.5.4]
JDM601_2670  pca; pyruvate carboxylase Pca [KO:K01958] [EC:6.4.1.1]
JDM601_3143  sdhC; succinate dehydrogenase (cytochrome B-556 subunit) SdhC [KO:K00241]
JDM601_3144  sdhD; succinate dehydrogenase (hydrophobic membrane anchor subunit) SdhD [KO:K00242]
JDM601_3145  sdhA; succinate dehydrogenase (flavoprotein subunit) SdhA [KO:K00239] [EC:1.3.5.1]
JDM601_3146  sdhB; succinate dehydrogenase (iron-sulfur protein subunit) SdhB [KO:K00240] [EC:1.3.5.1]
JDM601_3187  icd2; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
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
mjd00010  Glycolysis / Gluconeogenesis
mjd00061  Fatty acid biosynthesis
mjd00071  Fatty acid degradation
mjd00190  Oxidative phosphorylation
mjd00220  Arginine biosynthesis
mjd00250  Alanine, aspartate and glutamate metabolism
mjd00280  Valine, leucine and isoleucine degradation
mjd00350  Tyrosine metabolism
mjd00470  D-Amino acid metabolism
mjd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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