KEGG   PATHWAY: ngn00020
Entry
ngn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nonomuraea gerenzanensis
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
ngn00020  Citrate cycle (TCA cycle)
ngn00020

Module
ngn_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ngn00020]
ngn_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ngn00020]
ngn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ngn00020]
ngn_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ngn00020]
ngn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ngn00020]
Other DBs
GO: 0006099
Organism
Nonomuraea gerenzanensis [GN:ngn]
Gene
LCN96_40140  citrate synthase [KO:K01647] [EC:2.3.3.1]
LCN96_04305  citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
LCN96_32195  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
LCN96_40145  hypothetical protein [KO:K05942] [EC:2.3.3.3]
LCN96_05500  citrate synthase [KO:K01659] [EC:2.3.3.5]
LCN96_41360  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
LCN96_05510  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
LCN96_02925  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
LCN96_48675  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]
LCN96_52985  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LCN96_15665  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LCN96_17420  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LCN96_02670  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
LCN96_02665  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
LCN96_05420  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LCN96_12555  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LCN96_05415  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LCN96_12550  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LCN96_49815  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LCN96_49850  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LCN96_32600  FAD-dependent oxidoreductase [KO:K00239] [EC:1.3.5.1]
LCN96_49810  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LCN96_49855  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LCN96_49820  succinate dehydrogenase cytochrome b subunit [KO:K00241]
LCN96_39825  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
LCN96_39820  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
LCN96_39815  hypothetical protein [KO:K00246]
LCN96_39810  hypothetical protein [KO:K00247]
LCN96_50020  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LCN96_50045  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LCN96_05535  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
LCN96_33905  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
LCN96_50145  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
LCN96_42275  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LCN96_17415  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
ngn00010  Glycolysis / Gluconeogenesis
ngn00053  Ascorbate and aldarate metabolism
ngn00061  Fatty acid biosynthesis
ngn00071  Fatty acid degradation
ngn00190  Oxidative phosphorylation
ngn00220  Arginine biosynthesis
ngn00250  Alanine, aspartate and glutamate metabolism
ngn00280  Valine, leucine and isoleucine degradation
ngn00350  Tyrosine metabolism
ngn00470  D-Amino acid metabolism
ngn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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