KEGG   PATHWAY: apm00020
Entry
apm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Alpha proteobacterium HIMB5
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
apm00020  Citrate cycle (TCA cycle)
apm00020

Module
apm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:apm00020]
apm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:apm00020]
Other DBs
GO: 0006099
Organism
Alpha proteobacterium HIMB5 [GN:apm]
Gene
HIMB5_00009640  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
HIMB5_00002350  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
HIMB5_00000190  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HIMB5_00000200  2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
HIMB5_00000210  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HIMB5_00000180  succinyl-CoA synthetase (ADP-forming) alpha subunit [KO:K01902] [EC:6.2.1.5]
HIMB5_00000170  succinyl-CoA synthetase (ADP-forming) beta subunit [KO:K01903] [EC:6.2.1.5]
HIMB5_00000130  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HIMB5_00000140  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
HIMB5_00000110  succinate dehydrogenase subunit C [KO:K00241]
HIMB5_00000120  Succinate dehydrogenase/Fumarate reductase transmembrane subunit [KO:K00242]
HIMB5_00002120  fumarase, class II [KO:K01679] [EC:4.2.1.2]
HIMB5_00000160  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
HIMB5_00012850  pyruvate dehydrogenase E1 component, homodimeric type [KO:K00163] [EC:1.2.4.1]
HIMB5_00012840  Biotin-requiring, e3 domain-containing 2-oxoacid dehydrogenase with acyltransferase acitivity family protein [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
apm00010  Glycolysis / Gluconeogenesis
apm00053  Ascorbate and aldarate metabolism
apm00061  Fatty acid biosynthesis
apm00071  Fatty acid degradation
apm00190  Oxidative phosphorylation
apm00220  Arginine biosynthesis
apm00250  Alanine, aspartate and glutamate metabolism
apm00280  Valine, leucine and isoleucine degradation
apm00350  Tyrosine metabolism
apm00470  D-Amino acid metabolism
apm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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