KEGG   PATHWAY: otr00020
Entry
otr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Oryzomicrobium terrae
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
otr00020  Citrate cycle (TCA cycle)
otr00020

Module
otr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:otr00020]
otr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:otr00020]
otr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:otr00020]
otr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:otr00020]
otr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:otr00020]
Other DBs
GO: 0006099
Organism
Oryzomicrobium terrae [GN:otr]
Gene
OTERR_14490  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
OTERR_14360  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
OTERR_14370  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
OTERR_22550  idh; monomeric isocitrate dehydrogenase, NADP dependent [KO:K00031] [EC:1.1.1.42]
OTERR_22560  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
OTERR_14500  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
OTERR_14510  sucB; 2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
OTERR_14520  lpd; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
OTERR_25680  lpd; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
OTERR_24060  sucD; succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
OTERR_24070  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
OTERR_01070  aarC; succinyl-CoA:acetate CoA-transferase [KO:K18118] [EC:2.8.3.18]
OTERR_14460  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
OTERR_14470  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
OTERR_14440  sdhC; succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
OTERR_14450  sdhD; succinate dehydrogenase membrane anchor subunit [KO:K00242]
OTERR_19280  fumA; fumarate hydratase [KO:K01676] [EC:4.2.1.2]
OTERR_22180  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
OTERR_14420  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
OTERR_23230  pckA; phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
OTERR_25660  aceE; pyruvate dehydrogenase E1 component (alpha subunit) oxidoreductase protein [KO:K00163] [EC:1.2.4.1]
OTERR_25670  aceF; 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
otr00010  Glycolysis / Gluconeogenesis
otr00053  Ascorbate and aldarate metabolism
otr00061  Fatty acid biosynthesis
otr00071  Fatty acid degradation
otr00190  Oxidative phosphorylation
otr00220  Arginine biosynthesis
otr00250  Alanine, aspartate and glutamate metabolism
otr00280  Valine, leucine and isoleucine degradation
otr00350  Tyrosine metabolism
otr00470  D-Amino acid metabolism
otr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system