KEGG   PATHWAY: cnc00020
Entry
cnc00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Cupriavidus necator N-1
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
cnc00020  Citrate cycle (TCA cycle)
cnc00020

Module
cnc_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cnc00020]
cnc_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cnc00020]
cnc_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cnc00020]
cnc_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cnc00020]
cnc_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cnc00020]
Other DBs
GO: 0006099
Organism
Cupriavidus necator N-1 [GN:cnc]
Gene
CNE_BB2p02420  hypothetical protein [KO:K01647] [EC:2.3.3.1]
CNE_1c16890  citrate synthase [KO:K01647] [EC:2.3.3.1]
CNE_1c25100  gltA; citrate synthase GltA [KO:K01647] [EC:2.3.3.1]
CNE_BB2p00170  hypothetical protein [KO:K01647] [EC:2.3.3.1]
CNE_BB2p00460  citA; citrate synthase CitA [KO:K01647] [EC:2.3.3.1]
CNE_BB1p05490  citrate synthase [KO:K01647] [EC:2.3.3.1]
CNE_2c21900  citrate synthase [KO:K01647] [EC:2.3.3.1]
CNE_BB1p00230  citrate synthase [KO:K01647] [EC:2.3.3.1]
CNE_BB2p01580  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
CNE_1c25210  acn; aconitate hydratase Acn [KO:K01681] [EC:4.2.1.3]
CNE_BB1p05470  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
CNE_2c05150  acnB; aconitate hydratase AcnB [KO:K01682] [EC:4.2.1.3 4.2.1.99]
CNE_1c30120  icd; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
CNE_2c18920  icd; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
CNE_2c09750  leuB; 3-isopropylmalate dehydrogenase LeuB [KO:K00030] [EC:1.1.1.41]
CNE_1c22350  odhA; 2-oxoglutarate dehydrogenase E1 component OdhA [KO:K00164] [EC:1.2.4.2]
CNE_1c22340  sucB; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
CNE_1c14040  pdhL; dihydrolipoamide dehydrogenase PdhL [KO:K00382] [EC:1.8.1.4]
CNE_2c10580  pdhD; dihydrolipoyl dehydrogenase PdhD [KO:K00382] [EC:1.8.1.4]
CNE_1c22330  odhL; dihydrolipoyl dehydrogenase OdhL [KO:K00382] [EC:1.8.1.4]
CNE_1c05700  sucD1; ADP-forming succinyl-CoA ligase alpha subunit [KO:K01902] [EC:6.2.1.5]
CNE_1c05690  sucC; ADP-forming succinyl-CoA ligase beta subunit [KO:K01903] [EC:6.2.1.5]
CNE_1c13820  cat; succinyl-CoA:coenzyme A transferase Cat [KO:K18118] [EC:2.8.3.18]
CNE_1c25130  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CNE_1c25120  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CNE_1c25150  sdhC; succinate dehydrogenase cytochrome b subunit [KO:K00241]
CNE_1c25140  sdhD; succinate dehydrogenase(hydrophobic anchor subunit) [KO:K00242]
CNE_BB1p00480  fumarate reductase/succinate dehydrogenase flavoprotein protein [KO:K00244] [EC:1.3.5.1]
CNE_BB1p00450  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
CNE_BB1p00460  hypothetical membrane protein 13 [KO:K00246]
CNE_BB1p00470  succinate dehydrogenase, cytochrome b subunit [KO:K00247]
CNE_1c24130  fumA; fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
CNE_2c00900  fumC1; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
CNE_2c16030  fumC2; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
CNE_1c25170  mdh; malate dehydrogenase Mdh [KO:K00024] [EC:1.1.1.37]
CNE_1c12350  pyc1; pyruvate carboxylase Pyc [KO:K01958] [EC:6.4.1.1]
CNE_BB1p09460  pyc1; pyruvate carboxylase Pyc [KO:K01958] [EC:6.4.1.1]
CNE_BB1p09790  pyc2; pyruvate carboxylase Pyc [KO:K01958] [EC:6.4.1.1]
CNE_1c36630  hypothetical protein [KO:K01596] [EC:4.1.1.32]
CNE_BB2p02460  pdhA4; pyruvate dehydrogenase E1 component PdhA [KO:K00163] [EC:1.2.4.1]
CNE_1c14010  pdhA; pyruvate dehydrogenase E1 component PdhA [KO:K00163] [EC:1.2.4.1]
CNE_2c12710  pdhA; pyruvate dehydrogenase E1 component PdhA [KO:K00163] [EC:1.2.4.1]
CNE_BB2p00410  pdhA1; pyruvate dehydrogenase E1 component PdhA [KO:K00163] [EC:1.2.4.1]
CNE_1c14020  pdhB; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
CNE_2c01310  acoC; dihydrolipoyllysine-residue acetyltransferase component of acetoin cleaving system [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
cnc00010  Glycolysis / Gluconeogenesis
cnc00053  Ascorbate and aldarate metabolism
cnc00061  Fatty acid biosynthesis
cnc00071  Fatty acid degradation
cnc00190  Oxidative phosphorylation
cnc00220  Arginine biosynthesis
cnc00250  Alanine, aspartate and glutamate metabolism
cnc00280  Valine, leucine and isoleucine degradation
cnc00350  Tyrosine metabolism
cnc00470  D-Amino acid metabolism
cnc00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system