KEGG   PATHWAY: kvr00020
Entry
kvr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Kocuria varians
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
kvr00020  Citrate cycle (TCA cycle)
kvr00020

Module
kvr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:kvr00020]
kvr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:kvr00020]
kvr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:kvr00020]
kvr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:kvr00020]
kvr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:kvr00020]
Other DBs
GO: 0006099
Organism
Kocuria varians [GN:kvr]
Gene
CIB50_0002332  gltA2; Citrate synthase 1 [KO:K01647] [EC:2.3.3.1]
CIB50_0001711  acnA; Aconitate hydratase A [KO:K01681] [EC:4.2.1.3]
CIB50_0002356  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
CIB50_0002230  kgd; Multifunctional 2-oxoglutarate metabolism enzyme [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
CIB50_0001685  pdhD; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CIB50_0001279  sucD; Succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
CIB50_0001278  sucC; Succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
CIB50_0001304  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CIB50_0002410  frdA; Fumarate reductase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CIB50_0001303  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CIB50_0002411  frdB_2; Fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CIB50_0000442  frdB_1; Fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CIB50_0001306  sdhC_1; Succinate dehydrogenase 2 membrane subunit SdhC [KO:K00241]
CIB50_0002409  sdhC_2; Succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
CIB50_0000441  hypothetical protein [KO:K00241]
CIB50_0001305  hypothetical protein [KO:K00242]
CIB50_0001345  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
CIB50_0002358  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
CIB50_0002162  mqo1; putative malate:quinone oxidoreductase 1 [KO:K00116] [EC:1.1.5.4]
CIB50_0001617  accC_2; Biotin carboxylase [KO:K01958] [EC:6.4.1.1]
CIB50_0000371  pckG; Phosphoenolpyruvate carboxykinase [GTP] [KO:K01596] [EC:4.1.1.32]
CIB50_0002093  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
CIB50_0001684  aceF; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [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
kvr00010  Glycolysis / Gluconeogenesis
kvr00061  Fatty acid biosynthesis
kvr00071  Fatty acid degradation
kvr00190  Oxidative phosphorylation
kvr00220  Arginine biosynthesis
kvr00250  Alanine, aspartate and glutamate metabolism
kvr00280  Valine, leucine and isoleucine degradation
kvr00350  Tyrosine metabolism
kvr00470  D-Amino acid metabolism
kvr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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