KEGG   PATHWAY: hnv00020
Entry
hnv00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Hymenobacter nivis
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
hnv00020  Citrate cycle (TCA cycle)
hnv00020

Module
hnv_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:hnv00020]
hnv_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:hnv00020]
hnv_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:hnv00020]
Other DBs
GO: 0006099
Organism
Hymenobacter nivis [GN:hnv]
Gene
DDQ68_02625  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DDQ68_19295  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DDQ68_01045  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DDQ68_14740  NAD-dependent isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
DDQ68_17385  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
DDQ68_17400  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
DDQ68_03655  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
DDQ68_17415  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DDQ68_21390  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DDQ68_19435  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
DDQ68_00380  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
DDQ68_22205  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DDQ68_22200  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
DDQ68_22210  succinate dehydrogenase [KO:K00241]
DDQ68_15180  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
DDQ68_20665  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DDQ68_02495  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
DDQ68_07315  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
DDQ68_06435  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
DDQ68_15445  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
DDQ68_04365  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
DDQ68_08825  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [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
hnv00010  Glycolysis / Gluconeogenesis
hnv00053  Ascorbate and aldarate metabolism
hnv00061  Fatty acid biosynthesis
hnv00071  Fatty acid degradation
hnv00190  Oxidative phosphorylation
hnv00220  Arginine biosynthesis
hnv00250  Alanine, aspartate and glutamate metabolism
hnv00280  Valine, leucine and isoleucine degradation
hnv00350  Tyrosine metabolism
hnv00470  D-Amino acid metabolism
hnv00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system