KEGG   PATHWAY: ebv00020
Entry
ebv00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Empedobacter brevis
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
ebv00020  Citrate cycle (TCA cycle)
ebv00020

Module
ebv_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ebv00020]
ebv_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ebv00020]
ebv_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ebv00020]
ebv_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ebv00020]
ebv_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ebv00020]
Other DBs
GO: 0006099
Organism
Empedobacter brevis [GN:ebv]
Gene
F0358_01065  citrate synthase [KO:K01647] [EC:2.3.3.1]
F0358_03575  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
F0358_03580  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
F0358_06040  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
F0358_00020  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
F0358_02500  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
F0358_00015  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
F0358_13595  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
F0358_11940  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
F0358_14350  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
F0358_00110  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
F0358_02270  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
F0358_00075  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
F0358_16150  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
F0358_16145  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
F0358_16155  succinate dehydrogenase cytochrome b subunit [KO:K00241]
F0358_12745  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
F0358_07570  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
F0358_04280  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
F0358_01690  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
F0358_05790  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
F0358_01685  pyruvate dehydrogenase [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
ebv00010  Glycolysis / Gluconeogenesis
ebv00053  Ascorbate and aldarate metabolism
ebv00061  Fatty acid biosynthesis
ebv00071  Fatty acid degradation
ebv00190  Oxidative phosphorylation
ebv00220  Arginine biosynthesis
ebv00250  Alanine, aspartate and glutamate metabolism
ebv00280  Valine, leucine and isoleucine degradation
ebv00350  Tyrosine metabolism
ebv00470  D-Amino acid metabolism
ebv00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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