KEGG   PATHWAY: agra00020
Entry
agra00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Actinomadura graeca
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
agra00020  Citrate cycle (TCA cycle)
agra00020

Module
agra_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:agra00020]
agra_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:agra00020]
agra_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:agra00020]
agra_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:agra00020]
agra_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:agra00020]
Other DBs
GO: 0006099
Organism
Actinomadura graeca [GN:agra]
Gene
AGRA3207_001214  hypothetical protein [KO:K01647] [EC:2.3.3.1]
AGRA3207_001906  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
AGRA3207_005380  citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
AGRA3207_007610  citrate synthase [KO:K01647] [EC:2.3.3.1]
AGRA3207_001215  hypothetical protein [KO:K05942] [EC:2.3.3.3]
AGRA3207_001317  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
AGRA3207_003090  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
AGRA3207_006045  multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
AGRA3207_002497  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AGRA3207_006700  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AGRA3207_004776  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
AGRA3207_004775  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
AGRA3207_003100  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
AGRA3207_003101  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
AGRA3207_005806  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AGRA3207_005816  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AGRA3207_005807  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
AGRA3207_005815  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
AGRA3207_005817  succinate dehydrogenase cytochrome b subunit [KO:K00241]
AGRA3207_005765  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
AGRA3207_005763  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
AGRA3207_003089  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
AGRA3207_005453  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
AGRA3207_007009  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
AGRA3207_001530  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
AGRA3207_001351  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
AGRA3207_001352  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
AGRA3207_001353  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
AGRA3207_006699  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
agra00010  Glycolysis / Gluconeogenesis
agra00053  Ascorbate and aldarate metabolism
agra00061  Fatty acid biosynthesis
agra00071  Fatty acid degradation
agra00190  Oxidative phosphorylation
agra00220  Arginine biosynthesis
agra00250  Alanine, aspartate and glutamate metabolism
agra00280  Valine, leucine and isoleucine degradation
agra00350  Tyrosine metabolism
agra00470  D-Amino acid metabolism
agra00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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