KEGG   PATHWAY: gen00020
Entry
gen00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Geminocystis sp. NIES-3709
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
gen00020  Citrate cycle (TCA cycle)
gen00020

Module
gen_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gen00020]
gen_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gen00020]
Other DBs
GO: 0006099
Organism
Geminocystis sp. NIES-3709 [GN:gen]
Gene
GM3709_2410  citrate synthase [KO:K01647] [EC:2.3.3.1]
GM3709_3381  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
GM3709_2783  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GM3709_2122  dihydrolipoamide dehydrogenase of pyruvate dehydrogenase complex [KO:K00382] [EC:1.8.1.4]
GM3709_2736  succinyl-CoA ligase [ADP-forming] alpha chain [KO:K01902] [EC:6.2.1.5]
GM3709_1161  succinyl-CoA ligase [ADP-forming] beta chain [KO:K01903] [EC:6.2.1.5]
GM3709_2377  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GM3709_3665  succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
GM3709_1230  putative succinate dehydrogenase cytochrome b subunit [KO:K00241]
GM3709_592  fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
GM3709_1605  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GM3709_1602  pyruvate dehydrogenase E1 component alpha subunit [KO:K00161] [EC:1.2.4.1]
GM3709_1104  pyruvate dehydrogenase E1 component beta subunit [KO:K00162] [EC:1.2.4.1]
GM3709_1338  dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [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
gen00010  Glycolysis / Gluconeogenesis
gen00053  Ascorbate and aldarate metabolism
gen00061  Fatty acid biosynthesis
gen00071  Fatty acid degradation
gen00190  Oxidative phosphorylation
gen00220  Arginine biosynthesis
gen00250  Alanine, aspartate and glutamate metabolism
gen00280  Valine, leucine and isoleucine degradation
gen00350  Tyrosine metabolism
gen00470  D-Amino acid metabolism
gen00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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