KEGG   PATHWAY: amq00020
Entry
amq00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Amycolatopsis methanolica
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
amq00020  Citrate cycle (TCA cycle)
amq00020

Module
amq_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:amq00020]
amq_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:amq00020]
amq_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:amq00020]
amq_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:amq00020]
amq_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:amq00020]
Other DBs
GO: 0006099
Organism
Amycolatopsis methanolica [GN:amq]
Gene
AMETH_2152  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
AMETH_6208  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
AMETH_6228  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
AMETH_3020  acn; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
AMETH_0794  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
AMETH_5760  kgd; alpha-ketoglutarate decarboxylase [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
AMETH_5332  pdhD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
AMETH_5142  pdhD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
AMETH_0502  korA; 2-oxoglutarate ferredoxin oxidoreductase [KO:K00174] [EC:1.2.7.3 1.2.7.11]
AMETH_0501  korB; 2-oxoglutarate synthase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
AMETH_0767  sucD; succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
AMETH_0766  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
AMETH_0810  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AMETH_5012  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AMETH_4770  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AMETH_0809  sdhB; succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
AMETH_5011  sdhB; succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
AMETH_4771  sdhB; succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
AMETH_0812  sdhC; succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
AMETH_4769  sdhC; succinate dehydrogenase/fumarate reductase cytochrome b subunit [KO:K00241]
AMETH_0811  sdhD; succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
AMETH_4807  fumB; fumarase [KO:K01676] [EC:4.2.1.2]
AMETH_5855  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
AMETH_3421  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
AMETH_1552  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
AMETH_6972  pckA; phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
AMETH_2324  aceE; pyruvate dehydrogenase complex, dehydrogenase (E1) component [KO:K00163] [EC:1.2.4.1]
AMETH_5177  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
AMETH_2385  pdhC; dihydrolipoyllysine-residue succinyltransferase [KO:K00627] [EC:2.3.1.12]
AMETH_5143  sucB; 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
amq00010  Glycolysis / Gluconeogenesis
amq00053  Ascorbate and aldarate metabolism
amq00061  Fatty acid biosynthesis
amq00071  Fatty acid degradation
amq00190  Oxidative phosphorylation
amq00220  Arginine biosynthesis
amq00250  Alanine, aspartate and glutamate metabolism
amq00280  Valine, leucine and isoleucine degradation
amq00350  Tyrosine metabolism
amq00470  D-Amino acid metabolism
amq00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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