KEGG   PATHWAY: rpf00020
Entry
rpf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Ralstonia pickettii 12D
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
rpf00020  Citrate cycle (TCA cycle)
rpf00020

Module
rpf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rpf00020]
rpf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rpf00020]
rpf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rpf00020]
rpf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rpf00020]
rpf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rpf00020]
Other DBs
GO: 0006099
Organism
Ralstonia pickettii 12D [GN:rpf]
Gene
Rpic12D_1822  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Rpic12D_3240  DNA binding domain protein, excisionase family [KO:K01647] [EC:2.3.3.1]
Rpic12D_4153  citrate synthase [KO:K01647] [EC:2.3.3.1]
Rpic12D_1834  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
Rpic12D_3481  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Rpic12D_4613  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Rpic12D_2349  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Rpic12D_1190  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
Rpic12D_1191  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Rpic12D_1192  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Rpic12D_1616  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Rpic12D_0459  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Rpic12D_0458  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Rpic12D_1400  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
Rpic12D_1825  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Rpic12D_4491  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Rpic12D_1824  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Rpic12D_4492  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Rpic12D_1827  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Rpic12D_4489  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Rpic12D_1826  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
Rpic12D_4490  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
Rpic12D_1778  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, alpha subunit [KO:K01676] [EC:4.2.1.2]
Rpic12D_4239  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
Rpic12D_1829  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Rpic12D_3416  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
Rpic12D_1619  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
Rpic12D_3569  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Rpic12D_3570  Transketolase central region [KO:K00162] [EC:1.2.4.1]
Rpic12D_1618  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
Rpic12D_3571  catalytic domain of components of various dehydrogenase complexes [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
rpf00010  Glycolysis / Gluconeogenesis
rpf00053  Ascorbate and aldarate metabolism
rpf00061  Fatty acid biosynthesis
rpf00071  Fatty acid degradation
rpf00190  Oxidative phosphorylation
rpf00220  Arginine biosynthesis
rpf00250  Alanine, aspartate and glutamate metabolism
rpf00280  Valine, leucine and isoleucine degradation
rpf00350  Tyrosine metabolism
rpf00470  D-Amino acid metabolism
rpf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system