KEGG   PATHWAY: nde00020
Entry
nde00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nitrospira defluvii
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
nde00020  Citrate cycle (TCA cycle)
nde00020

Module
nde_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nde00020]
nde_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nde00020]
Other DBs
GO: 0006099
Organism
Nitrospira defluvii [GN:nde]
Gene
NIDE2451  gltA; Citrate synthase [KO:K01647] [EC:2.3.3.1]
NIDE0835  aclA; ATP citrate lyase, alpha subunit [KO:K15230] [EC:2.3.3.8]
NIDE0834  aclB; ATP-citrate lyase, beta subunit [KO:K15231] [EC:2.3.3.8]
NIDE0836  acnA; Aconitate hydratase [KO:K01681] [EC:4.2.1.3]
NIDE0837  idh; Isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
NIDE2727  lpd; Dihydrolipoyl dehydrogenase, E3 component of Pyruvate and 2-oxoglutarate dehydrogenase complexes [KO:K00382] [EC:1.8.1.4]
NIDE0841  sucD; Succinyl-CoA synthetase, NAD(P)-binding, alpha subunit [KO:K01902] [EC:6.2.1.5]
NIDE0840  sucC; Succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
NIDE0310  sdhA; Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NIDE2517  sdhB; Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [KO:K00240] [EC:1.3.5.1]
NIDE2527  sdhE; Succinate dehydrogenase, subunit C [KO:K00241]
NIDE2454  fumC; Fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
NIDE3562  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
NIDE1205  pycA; Pyruvate carboxylase, subunit A [KO:K01959] [EC:6.4.1.1]
NIDE1204  pycB; Pyruvate carboxylase, subunit B [KO:K01960] [EC:6.4.1.1]
NIDE3852  pdhA; Pyruvate dehydrogenase E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
NIDE3953  pdhA; Dehydrogenase (E1) component of pyruvate dehydrogenase complex, alpha subunit (acetyl-transferring) [KO:K00161] [EC:1.2.4.1]
NIDE3853  pdhB; Pyruvate dehydrogenase E1 component, beta subunit (Transketolase) [KO:K00162] [EC:1.2.4.1]
NIDE3952  pdhB; Dehydrogenase (E1) component of pyruvate dehydrogenase complex, beta subunit (Transketolase) [KO:K00162] [EC:1.2.4.1]
NIDE3854  putative Pyruvate dehydrogenase complex, dihydrolipoamide acetyltransferase (E2) component [KO:K00627] [EC:2.3.1.12]
NIDE3951  pdhC; Dihydrolipoamide acetyltransferase (E2) component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
NIDE0827  forA; 2-oxoglutarate:ferredoxin oxidoredutase alpha subunit [KO:K00169] [EC:1.2.7.1]
NIDE0971  porA; Pyruvate:ferredoxin oxidoreductase alpha subunit [KO:K00169] [EC:1.2.7.1]
NIDE3874  vorA; 2-ketoisovalerate ferredoxin reductase, alpha subunit [KO:K00169] [EC:1.2.7.1]
NIDE1465  forB2; 2-oxoacid:ferredoxin oxidoreductase beta subunit [KO:K00170] [EC:1.2.7.1]
NIDE0823  forB; 2-oxoglutarate:ferredoxin oxidoredutase beta subunit [KO:K00170] [EC:1.2.7.1]
NIDE0970  porB; Pyruvate:ferredoxin oxidoreductase beta subunit [KO:K00170] [EC:1.2.7.1]
NIDE3873  vorB; 2-ketoisovalerate ferredoxin reductase, beta subunit [KO:K00170] [EC:1.2.7.1]
NIDE1464  porB2-C; partial 2-oxoacid:ferredoxin oxidoreductase beta subunit (fragment C-terminal) [KO:K00170] [EC:1.2.7.1]
NIDE3875  vorCD; 2-ketoisovalerate ferredoxin reductase, fused gamma and delta subunit [KO:K00172] [EC:1.2.7.1]
NIDE0969  porC; Pyruvate:ferredoxin oxidoreductase gamma subunit [KO:K00172] [EC:1.2.7.1]
NIDE0824  forC; 2-oxoglutarate:ferredoxin oxidoredutase gamma subunit [KO:K00172] [EC:1.2.7.1]
NIDE0968  porE; Pyruvate:ferredoxin oxidoreductase epsilon subunit [KO:K00171] [EC:1.2.7.1]
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
nde00010  Glycolysis / Gluconeogenesis
nde00053  Ascorbate and aldarate metabolism
nde00061  Fatty acid biosynthesis
nde00071  Fatty acid degradation
nde00190  Oxidative phosphorylation
nde00220  Arginine biosynthesis
nde00250  Alanine, aspartate and glutamate metabolism
nde00280  Valine, leucine and isoleucine degradation
nde00350  Tyrosine metabolism
nde00470  D-Amino acid metabolism
nde00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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