KEGG   PATHWAY: rle00020
Entry
rle00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Rhizobium johnstonii
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
rle00020  Citrate cycle (TCA cycle)
rle00020

Module
rle_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rle00020]
rle_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rle00020]
rle_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rle00020]
rle_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rle00020]
Other DBs
GO: 0006099
Organism
Rhizobium johnstonii [GN:rle]
Gene
RL2234  ccsA; putative citrate synthase [KO:K01647] [EC:2.3.3.1]
RL2509  citZ; putative citrate synthase I [KO:K01647] [EC:2.3.3.1]
RL2508  gltA2; putative citrate synthase II [KO:K01647] [EC:2.3.3.1]
RL4536  acnA; putative aconitate hydratase [KO:K01681] [EC:4.2.1.3]
RL2631  icd; putative isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
RL4435  sucA; putative 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RL4433  citM; putative dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
RL2246  putative dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RL4429  lpdA; putative dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
pRL100306  lpdV; putative dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RL4436  sucD; putative succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
RL4438  sucC; putative succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
pRL90030  putative coenzyme A transferase [KO:K18118] [EC:2.8.3.18]
RL4444  sdhA; putative succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RL4443  sdhB; putative succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
RL4446  sdhC; putative succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
RL4445  sdhD; putative succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
RL2703  fumA; utative fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
RL2701  fumC; putative fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
RL4439  mdh; putative malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RL4638  putative pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
RL0037  pckA; Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) (PEP carboxykinase) (Phosphoenolpyruvate carboxylase) (PEPCK). [KO:K01610] [EC:4.1.1.49]
RL2241  pdhA; putative pyruvate dehydrogenase subunit [KO:K00161] [EC:1.2.4.1]
RL2242  pdhB; putative pyruvate dehydrogenase [KO:K00162] [EC:1.2.4.1]
RL2243  pdhC; putative dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [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
rle00010  Glycolysis / Gluconeogenesis
rle00053  Ascorbate and aldarate metabolism
rle00061  Fatty acid biosynthesis
rle00071  Fatty acid degradation
rle00190  Oxidative phosphorylation
rle00220  Arginine biosynthesis
rle00250  Alanine, aspartate and glutamate metabolism
rle00280  Valine, leucine and isoleucine degradation
rle00350  Tyrosine metabolism
rle00470  D-Amino acid metabolism
rle00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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