KEGG   PATHWAY: ddr00020
Entry
ddr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Deinococcus deserti
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
ddr00020  Citrate cycle (TCA cycle)
ddr00020

Module
ddr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ddr00020]
ddr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ddr00020]
ddr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ddr00020]
ddr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ddr00020]
ddr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ddr00020]
Other DBs
GO: 0006099
Organism
Deinococcus deserti [GN:ddr]
Gene
Deide_06150  gltA; putative citrate (Si)-synthase (citrate synthase) [KO:K01647] [EC:2.3.3.1]
Deide_07920  acn; putative aconitate hydratase (citrate hydro-lyase) (aconitase) [KO:K01681] [EC:4.2.1.3]
Deide_13580  putative Isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
Deide_21430  sucA; putative oxoglutarate dehydrogenase (succinyl-transferring) [KO:K00164] [EC:1.2.4.2]
Deide_21440  sucB; putative dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
Deide_20540  putative dihydrolipoyl dehydrogenase (E3 component of alpha-ketoacid dehydrogenase complexes) [KO:K00382] [EC:1.8.1.4]
Deide_22710  putative dihydrolipoyl dehydrogenase (E3 component of alpha-ketoacid dehydrogenase complexes) [KO:K00382] [EC:1.8.1.4]
Deide_11700  putative succinate--CoA ligase (succinyl-CoA synthetase) alpha subunit [KO:K01902] [EC:6.2.1.5]
Deide_11710  putative succinate--CoA ligase (succinyl-CoA synthetase) beta subunit [KO:K01903] [EC:6.2.1.5]
Deide_12450  putative Succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Deide_12460  putative Succinate dehydrogenase, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Deide_12430  putative Succinate dehydrogenase, cytochrome subunit [KO:K00241]
Deide_12440  putative Succinate dehydrogenase, hydrophobic membrane anchor protein SdhD [KO:K00242]
Deide_23050  fumC; putative fumarate hydratase class II (fumarase) [KO:K01679] [EC:4.2.1.2]
Deide_20240  mdh; malate dehydrogenase (malic dehydrogenase) [KO:K00024] [EC:1.1.1.37]
Deide_12330  pckA; putative Phosphoenolpyruvate carboxykinase (ATP) (PEP carboxykinase) (Phosphoenolpyruvate carboxylase) (PEPCK) [KO:K01610] [EC:4.1.1.49]
Deide_03160  aceE; putative Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
Deide_03910  putative Pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
Deide_03900  pdhB; putative Pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
Deide_03170  aceF; putative Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex (E2) (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
ddr00010  Glycolysis / Gluconeogenesis
ddr00053  Ascorbate and aldarate metabolism
ddr00061  Fatty acid biosynthesis
ddr00071  Fatty acid degradation
ddr00190  Oxidative phosphorylation
ddr00220  Arginine biosynthesis
ddr00250  Alanine, aspartate and glutamate metabolism
ddr00280  Valine, leucine and isoleucine degradation
ddr00350  Tyrosine metabolism
ddr00470  D-Amino acid metabolism
ddr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system