KEGG   PATHWAY: pdu00020
Entry
pdu00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paenibacillus durus
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
pdu00020  Citrate cycle (TCA cycle)
pdu00020

Module
pdu_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pdu00020]
pdu_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pdu00020]
pdu_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pdu00020]
pdu_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pdu00020]
Other DBs
GO: 0006099
Organism
Paenibacillus durus [GN:pdu]
Gene
PDUR_09830  citrate synthase [KO:K01647] [EC:2.3.3.1]
PDUR_03290  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PDUR_09835  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PDUR_01835  2-oxoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
PDUR_01830  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
PDUR_15605  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PDUR_17970  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PDUR_22485  hypothetical protein [KO:K00382] [EC:1.8.1.4]
PDUR_16635  succinyl-CoA synthetase subsunit alpha [KO:K01902] [EC:6.2.1.5]
PDUR_16640  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
PDUR_21920  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
PDUR_21915  sdhB; succinate dehydrogenase [KO:K00240] [EC:1.3.5.1]
PDUR_21925  succinate dehydrogenase [KO:K00241]
PDUR_09880  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
PDUR_08715  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PDUR_27325  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PDUR_15620  pyruvate dehydrogenase [KO:K00161] [EC:1.2.4.1]
PDUR_15615  2-oxoisovalerate dehydrogenase [KO:K00162] [EC:1.2.4.1]
PDUR_22490  hypothetical protein [KO:K00627] [EC:2.3.1.12]
PDUR_15610  dienelactone hydrolase [KO:K00627] [EC:2.3.1.12]
PDUR_16010  pyruvate synthase [KO:K00169] [EC:1.2.7.1]
PDUR_16015  ferredoxin [KO:K00172] [EC:1.2.7.1]
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
pdu00010  Glycolysis / Gluconeogenesis
pdu00053  Ascorbate and aldarate metabolism
pdu00061  Fatty acid biosynthesis
pdu00071  Fatty acid degradation
pdu00190  Oxidative phosphorylation
pdu00220  Arginine biosynthesis
pdu00250  Alanine, aspartate and glutamate metabolism
pdu00280  Valine, leucine and isoleucine degradation
pdu00350  Tyrosine metabolism
pdu00470  D-Amino acid metabolism
pdu00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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