KEGG   PATHWAY: mgin00020
Entry
mgin00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Mucilaginibacter ginsenosidivorans
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
mgin00020  Citrate cycle (TCA cycle)
mgin00020

Module
mgin_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:mgin00020]
mgin_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:mgin00020]
mgin_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:mgin00020]
mgin_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:mgin00020]
mgin_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:mgin00020]
Other DBs
GO: 0006099
Organism
Mucilaginibacter ginsenosidivorans [GN:mgin]
Gene
FRZ54_20355  citrate synthase [KO:K01647] [EC:2.3.3.1]
FRZ54_10205  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
FRZ54_22340  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
FRZ54_23770  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
FRZ54_17450  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
FRZ54_23765  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
FRZ54_23690  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FRZ54_15130  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FRZ54_22905  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
FRZ54_15075  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
FRZ54_01860  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
FRZ54_01850  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
FRZ54_01865  succinate dehydrogenase cytochrome b subunit [KO:K00241]
FRZ54_02225  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
FRZ54_18025  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
FRZ54_00845  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
FRZ54_08425  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
FRZ54_05615  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
FRZ54_08430  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
mgin00010  Glycolysis / Gluconeogenesis
mgin00053  Ascorbate and aldarate metabolism
mgin00061  Fatty acid biosynthesis
mgin00071  Fatty acid degradation
mgin00190  Oxidative phosphorylation
mgin00220  Arginine biosynthesis
mgin00250  Alanine, aspartate and glutamate metabolism
mgin00280  Valine, leucine and isoleucine degradation
mgin00350  Tyrosine metabolism
mgin00470  D-Amino acid metabolism
mgin00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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