KEGG   PATHWAY: amyb00020
Entry
amyb00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Amycolatopsis sp. BJA-103
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
amyb00020  Citrate cycle (TCA cycle)
amyb00020

Module
amyb_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:amyb00020]
amyb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:amyb00020]
amyb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:amyb00020]
amyb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:amyb00020]
amyb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:amyb00020]
Other DBs
GO: 0006099
Organism
Amycolatopsis sp. BJA-103 [GN:amyb]
Gene
BKN51_29360  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BKN51_29535  citrate synthase [KO:K01647] [EC:2.3.3.1]
BKN51_15170  2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
BKN51_11295  acnA; aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
BKN51_38290  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
BKN51_27075  kgd; alpha-ketoglutarate decarboxylase [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
BKN51_01120  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BKN51_22300  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BKN51_36935  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
BKN51_36930  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
BKN51_38100  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
BKN51_38095  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
BKN51_04270  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BKN51_38400  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BKN51_04275  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BKN51_38395  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BKN51_38410  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
BKN51_38405  succinate dehydrogenase [KO:K00242]
BKN51_05350  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
BKN51_27655  aspA; aspartate ammonia-lyase [KO:K01679] [EC:4.2.1.2]
BKN51_13360  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BKN51_24075  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
BKN51_33375  phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
BKN51_22525  pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
BKN51_22305  2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [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
amyb00010  Glycolysis / Gluconeogenesis
amyb00053  Ascorbate and aldarate metabolism
amyb00061  Fatty acid biosynthesis
amyb00071  Fatty acid degradation
amyb00190  Oxidative phosphorylation
amyb00220  Arginine biosynthesis
amyb00250  Alanine, aspartate and glutamate metabolism
amyb00280  Valine, leucine and isoleucine degradation
amyb00350  Tyrosine metabolism
amyb00470  D-Amino acid metabolism
amyb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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