KEGG   PATHWAY: nre00020
Entry
nre00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Novosphingobium resinovorum
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
nre00020  Citrate cycle (TCA cycle)
nre00020

Module
nre_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nre00020]
nre_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nre00020]
nre_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nre00020]
nre_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nre00020]
nre_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nre00020]
Other DBs
GO: 0006099
Organism
Novosphingobium resinovorum [GN:nre]
Gene
BES08_03200  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BES08_11685  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
BES08_24930  aconitate hydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
BES08_07705  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
BES08_09060  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
BES08_09065  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
BES08_09070  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BES08_03990  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BES08_07800  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
BES08_07795  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
BES08_09055  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
BES08_13395  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
BES08_19510  acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
BES08_07860  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BES08_05075  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BES08_07870  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
BES08_07865  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BES08_13705  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
BES08_00605  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BES08_09050  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BES08_29845  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BES08_04595  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
BES08_22540  transketolase [KO:K00163] [EC:1.2.4.1]
BES08_04335  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
BES08_04330  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
BES08_18280  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
BES08_24665  dehydrogenase [KO:K00627] [EC:2.3.1.12]
BES08_03975  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
BES08_00900  dehydrogenase [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
nre00010  Glycolysis / Gluconeogenesis
nre00053  Ascorbate and aldarate metabolism
nre00061  Fatty acid biosynthesis
nre00062  Fatty acid elongation
nre00071  Fatty acid degradation
nre00190  Oxidative phosphorylation
nre00220  Arginine biosynthesis
nre00250  Alanine, aspartate and glutamate metabolism
nre00280  Valine, leucine and isoleucine degradation
nre00350  Tyrosine metabolism
nre00470  D-Amino acid metabolism
nre00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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