KEGG   PATHWAY: ppno00020
Entry
ppno00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pandoraea pnomenusa RB38
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
ppno00020  Citrate cycle (TCA cycle)
ppno00020

Module
ppno_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ppno00020]
ppno_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppno00020]
ppno_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppno00020]
ppno_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppno00020]
ppno_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppno00020]
Other DBs
GO: 0006099
Organism
Pandoraea pnomenusa RB38 [GN:ppno]
Gene
DA70_09265  citrate synthase [KO:K01647] [EC:2.3.3.1]
DA70_06775  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DA70_04495  excisionase [KO:K01647] [EC:2.3.3.1]
DA70_01065  citrate synthase/methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
DA70_06820  acnA; aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
DA70_01410  aconitate hydratase B [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DA70_21340  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
DA70_24380  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DA70_02260  sucA; 2-oxoglutarate dehydrogenase subunit E1 [KO:K00164] [EC:1.2.4.2]
DA70_02265  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
DA70_06275  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
DA70_02270  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DA70_19775  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
DA70_19770  sucC; succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
DA70_00945  acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
DA70_06790  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DA70_06785  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
DA70_06800  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DA70_06795  succinate dehydrogenase [KO:K00242]
DA70_11870  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
DA70_16490  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
DA70_06810  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DA70_15670  phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
DA70_06290  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DA70_20035  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DA70_06285  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
ppno00010  Glycolysis / Gluconeogenesis
ppno00053  Ascorbate and aldarate metabolism
ppno00061  Fatty acid biosynthesis
ppno00071  Fatty acid degradation
ppno00190  Oxidative phosphorylation
ppno00220  Arginine biosynthesis
ppno00250  Alanine, aspartate and glutamate metabolism
ppno00280  Valine, leucine and isoleucine degradation
ppno00350  Tyrosine metabolism
ppno00470  D-Amino acid metabolism
ppno00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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