KEGG   PATHWAY: xyk00020
Entry
xyk00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Xylophilus rhododendri
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
xyk00020  Citrate cycle (TCA cycle)
xyk00020

Module
xyk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:xyk00020]
xyk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:xyk00020]
xyk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:xyk00020]
xyk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:xyk00020]
xyk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:xyk00020]
Other DBs
GO: 0006099
Organism
Xylophilus rhododendri [GN:xyk]
Gene
GT347_24770  citrate synthase [KO:K01647] [EC:2.3.3.1]
GT347_13890  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
GT347_20895  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
GT347_23375  citrate synthase [KO:K01647] [EC:2.3.3.1]
GT347_08720  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
GT347_23430  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
GT347_04200  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GT347_26480  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GT347_23870  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GT347_23875  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
GT347_23890  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GT347_03765  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GT347_13910  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
GT347_13905  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
GT347_23385  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GT347_23400  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
GT347_23395  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
GT347_23520  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
GT347_23560  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
GT347_26700  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
GT347_23410  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GT347_06610  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
GT347_12680  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
GT347_03780  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
GT347_03775  aceF; dihydrolipoyllysine-residue 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
xyk00010  Glycolysis / Gluconeogenesis
xyk00053  Ascorbate and aldarate metabolism
xyk00061  Fatty acid biosynthesis
xyk00071  Fatty acid degradation
xyk00190  Oxidative phosphorylation
xyk00220  Arginine biosynthesis
xyk00250  Alanine, aspartate and glutamate metabolism
xyk00280  Valine, leucine and isoleucine degradation
xyk00350  Tyrosine metabolism
xyk00470  D-Amino acid metabolism
xyk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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