KEGG   PATHWAY: merd00020
Entry
merd00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Mesorhizobium erdmanii
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
merd00020  Citrate cycle (TCA cycle)
merd00020

Module
merd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:merd00020]
merd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:merd00020]
merd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:merd00020]
merd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:merd00020]
merd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:merd00020]
Other DBs
GO: 0006099
Organism
Mesorhizobium erdmanii [GN:merd]
Gene
EB233_19395  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
EB233_06755  citrate synthase [KO:K01647] [EC:2.3.3.1]
EB233_06760  citrate synthase/methylcitrate synthase [KO:K01647] [EC:2.3.3.1]
EB233_04995  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
EB233_21475  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EB233_05125  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
EB233_05130  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
EB233_20095  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EB233_04455  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EB233_05150  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EB233_05120  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
EB233_05105  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
EB233_05260  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
EB233_05270  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
EB233_05250  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
EB233_05255  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
EB233_30040  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
EB233_23170  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
EB233_05100  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
EB233_06300  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
EB233_02050  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
EB233_20115  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
EB233_20110  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
EB233_20105  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
EB233_07580  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [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
merd00010  Glycolysis / Gluconeogenesis
merd00053  Ascorbate and aldarate metabolism
merd00061  Fatty acid biosynthesis
merd00071  Fatty acid degradation
merd00190  Oxidative phosphorylation
merd00220  Arginine biosynthesis
merd00250  Alanine, aspartate and glutamate metabolism
merd00280  Valine, leucine and isoleucine degradation
merd00350  Tyrosine metabolism
merd00470  D-Amino acid metabolism
merd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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