KEGG   PATHWAY: bju00020
Entry
bju00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Bradyrhizobium japonicum USDA 6
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
bju00020  Citrate cycle (TCA cycle)
bju00020

Module
bju_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bju00020]
bju_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bju00020]
bju_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bju00020]
bju_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bju00020]
bju_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bju00020]
Other DBs
GO: 0006099
Organism
Bradyrhizobium japonicum USDA 6 [GN:bju]
Gene
BJ6T_48720  citrate synthase [KO:K01647] [EC:2.3.3.1]
BJ6T_01950  citrate synthase [KO:K01647] [EC:2.3.3.1]
BJ6T_01960  citrate synthase [KO:K01647] [EC:2.3.3.1]
BJ6T_04350  aconitase [KO:K01681] [EC:4.2.1.3]
BJ6T_39880  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
BJ6T_04210  alpha-ketoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
BJ6T_04200  dihydrolipoamide S-succinyltransferase [KO:K00658] [EC:2.3.1.61]
BJ6T_04180  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
BJ6T_49340  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
BJ6T_26770  ferredoxin oxidoreductase alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
BJ6T_26760  ferredoxin oxidoreductase beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
BJ6T_04220  succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
BJ6T_04240  succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
BJ6T_04840  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BJ6T_04850  succinate dehydrogenase iron-sulfur protein subunit [KO:K00240] [EC:1.3.5.1]
BJ6T_04820  succinate dehydrogenase cytochrome B-556 subunit [KO:K00241]
BJ6T_04830  succinate dehydrogenase hydrophobic membrane anchor protein subunit [KO:K00242]
BJ6T_39110  fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
BJ6T_29130  fumarase C [KO:K01679] [EC:4.2.1.2]
BJ6T_62940  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
BJ6T_04250  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BJ6T_62920  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
BJ6T_87230  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
BJ6T_69470  hypothetical protein [KO:K00163] [EC:1.2.4.1]
BJ6T_49280  pyruvate dehydrogenase alpha subunit [KO:K00161] [EC:1.2.4.1]
BJ6T_49290  pyruvate dehydrogenase beta subunit [KO:K00162] [EC:1.2.4.1]
BJ6T_49320  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
bju00010  Glycolysis / Gluconeogenesis
bju00053  Ascorbate and aldarate metabolism
bju00061  Fatty acid biosynthesis
bju00071  Fatty acid degradation
bju00190  Oxidative phosphorylation
bju00220  Arginine biosynthesis
bju00250  Alanine, aspartate and glutamate metabolism
bju00280  Valine, leucine and isoleucine degradation
bju00350  Tyrosine metabolism
bju00470  D-Amino acid metabolism
bju00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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