KEGG   PATHWAY: lacs00020
Entry
lacs00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Lacibacter sediminis
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
lacs00020  Citrate cycle (TCA cycle)
lacs00020

Module
lacs_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:lacs00020]
lacs_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:lacs00020]
lacs_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:lacs00020]
lacs_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:lacs00020]
lacs_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:lacs00020]
Other DBs
GO: 0006099
Organism
Lacibacter sediminis [GN:lacs]
Gene
H4075_16275  citrate (Si)-synthase, eukaryotic [KO:K01647] [EC:2.3.3.1]
H4075_04220  aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
H4075_04305  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
H4075_19110  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
H4075_14845  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
H4075_12460  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
H4075_14835  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
H4075_09645  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
H4075_17830  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
H4075_20560  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
H4075_03650  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
H4075_16205  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
H4075_11965  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
H4075_11970  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
H4075_11960  succinate dehydrogenase cytochrome b subunit [KO:K00241]
H4075_02765  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
H4075_14515  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
H4075_16355  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
H4075_19180  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
H4075_08015  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
H4075_10970  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
H4075_17080  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
H4075_17010  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
lacs00010  Glycolysis / Gluconeogenesis
lacs00053  Ascorbate and aldarate metabolism
lacs00061  Fatty acid biosynthesis
lacs00071  Fatty acid degradation
lacs00190  Oxidative phosphorylation
lacs00220  Arginine biosynthesis
lacs00250  Alanine, aspartate and glutamate metabolism
lacs00280  Valine, leucine and isoleucine degradation
lacs00350  Tyrosine metabolism
lacs00470  D-Amino acid metabolism
lacs00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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