KEGG   PATHWAY: rhm00020
Entry
rhm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Rhodovulum sp. MB263
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
rhm00020  Citrate cycle (TCA cycle)
rhm00020

Module
rhm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rhm00020]
rhm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rhm00020]
rhm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rhm00020]
rhm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rhm00020]
rhm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rhm00020]
Other DBs
GO: 0006099
Organism
Rhodovulum sp. MB263 [GN:rhm]
Gene
B5V46_07495  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
B5V46_05600  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
B5V46_07625  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
B5V46_14575  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
B5V46_14580  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
B5V46_10055  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
B5V46_14600  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
B5V46_14565  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
B5V46_14560  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
B5V46_13530  propionyl-CoA--succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
B5V46_04510  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
B5V46_04525  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
B5V46_04500  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
B5V46_04505  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
B5V46_14150  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
B5V46_04460  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
B5V46_12780  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
B5V46_16390  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
B5V46_11570  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
B5V46_11575  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
B5V46_11580  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
B5V46_18675  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
rhm00010  Glycolysis / Gluconeogenesis
rhm00053  Ascorbate and aldarate metabolism
rhm00061  Fatty acid biosynthesis
rhm00071  Fatty acid degradation
rhm00190  Oxidative phosphorylation
rhm00220  Arginine biosynthesis
rhm00250  Alanine, aspartate and glutamate metabolism
rhm00280  Valine, leucine and isoleucine degradation
rhm00350  Tyrosine metabolism
rhm00470  D-Amino acid metabolism
rhm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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