KEGG   PATHWAY: lut00020
Entry
lut00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Lutibacter profundi
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
lut00020  Citrate cycle (TCA cycle)
lut00020

Module
lut_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:lut00020]
lut_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:lut00020]
lut_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:lut00020]
lut_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:lut00020]
lut_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:lut00020]
Other DBs
GO: 0006099
Organism
Lutibacter profundi [GN:lut]
Gene
Lupro_04930  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
Lupro_04935  type I citrate synthase [KO:K01647] [EC:2.3.3.1]
Lupro_01520  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Lupro_13005  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Lupro_09825  2-oxoglutarate dehydrogenase subunit E1 [KO:K00164] [EC:1.2.4.2]
Lupro_12590  diapophytoene dehydrogenase [KO:K00658] [EC:2.3.1.61]
Lupro_09820  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
Lupro_03770  hypothetical protein [KO:K00382] [EC:1.8.1.4]
Lupro_10670  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Lupro_10540  hypothetical protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Lupro_04520  2-ketoisovalerate ferredoxin oxidoreductase [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Lupro_10545  hypothetical protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Lupro_09980  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Lupro_04525  2-oxoglutarate oxidoreductase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Lupro_04530  2-oxoglutarate ferredoxin oxidoreductase subunit gamma [KO:K00177] [EC:1.2.7.3]
Lupro_04515  ferredoxin [KO:K00176] [EC:1.2.7.3]
Lupro_01685  succinate--CoA ligase [KO:K01902] [EC:6.2.1.5]
Lupro_03565  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
Lupro_09480  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
Lupro_09495  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
Lupro_09475  fumarate reductase [KO:K00240] [EC:1.3.5.1]
Lupro_09500  fumarate reductase [KO:K00240] [EC:1.3.5.1]
Lupro_09485  hypothetical protein [KO:K00241]
Lupro_09490  succinate dehydrogenase [KO:K00241]
Lupro_01135  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
Lupro_11510  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Lupro_05980  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
Lupro_12365  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
Lupro_06465  pyruvate dehydrogenase [KO:K00162] [EC:1.2.4.1]
Lupro_12360  hypothetical protein [KO:K00627] [EC:2.3.1.12]
Lupro_00440  pyruvate-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
lut00010  Glycolysis / Gluconeogenesis
lut00053  Ascorbate and aldarate metabolism
lut00061  Fatty acid biosynthesis
lut00071  Fatty acid degradation
lut00190  Oxidative phosphorylation
lut00220  Arginine biosynthesis
lut00250  Alanine, aspartate and glutamate metabolism
lut00280  Valine, leucine and isoleucine degradation
lut00350  Tyrosine metabolism
lut00470  D-Amino acid metabolism
lut00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system