KEGG   PATHWAY: rsi00020
Entry
rsi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Runella slithyformis
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
rsi00020  Citrate cycle (TCA cycle)
rsi00020

Module
rsi_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rsi00020]
rsi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rsi00020]
rsi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rsi00020]
rsi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rsi00020]
rsi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rsi00020]
Other DBs
GO: 0006099
Organism
Runella slithyformis [GN:rsi]
Gene
Runsl_5576  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Runsl_4946  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Runsl_3388  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Runsl_1082  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Runsl_3003  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
Runsl_3004  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Runsl_5366  Dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
Runsl_3005  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Runsl_1146  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Runsl_4913  2-oxoacid:acceptor oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Runsl_4910  2-oxoglutarate synthase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Runsl_3514  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Runsl_4147  Succinyl-CoA ligase (ADP-forming) subunit beta [KO:K01903] [EC:6.2.1.5]
Runsl_4724  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Runsl_4725  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Runsl_4723  succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family [KO:K00241]
Runsl_2905  Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
Runsl_1624  Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Runsl_4380  Malate dehydrogenase (acceptor) [KO:K00116] [EC:1.1.5.4]
Runsl_5361  Phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Runsl_5450  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Runsl_0715  Pyruvate dehydrogenase (acetyl-transferring) [KO:K00162] [EC:1.2.4.1]
Runsl_0230  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
rsi00010  Glycolysis / Gluconeogenesis
rsi00053  Ascorbate and aldarate metabolism
rsi00061  Fatty acid biosynthesis
rsi00071  Fatty acid degradation
rsi00190  Oxidative phosphorylation
rsi00220  Arginine biosynthesis
rsi00250  Alanine, aspartate and glutamate metabolism
rsi00280  Valine, leucine and isoleucine degradation
rsi00350  Tyrosine metabolism
rsi00470  D-Amino acid metabolism
rsi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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