KEGG   PATHWAY: nja00020
Entry
nja00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nitrospira japonica
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
nja00020  Citrate cycle (TCA cycle)
nja00020

Module
nja_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nja00020]
nja_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nja00020]
Other DBs
GO: 0006099
Organism
Nitrospira japonica [GN:nja]
Gene
NSJP_1800  aclA; ATP citrate lyase, alpha subunit [KO:K15230] [EC:2.3.3.8]
NSJP_1799  aclB; ATP-citrate lyase, beta subunit [KO:K15231] [EC:2.3.3.8]
NSJP_3431  gltA; Citrate synthase [KO:K01659] [EC:2.3.3.5]
NSJP_0558  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
NSJP_1801  acnA; Aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
NSJP_1802  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
NSJP_3562  lpd; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NSJP_3230  lpd; lipoamide dehydrogenase, E3 component is part of three enzyme complexes [KO:K00382] [EC:1.8.1.4]
NSJP_1807  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
NSJP_1805  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
NSJP_0943  Succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NSJP_0942  Succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
NSJP_0944  sdhC; Succinate dehydrogenase cytochrome B subunit, b558 family [KO:K00241]
NSJP_3428  fumC; fumarate hydratase (fumarase C),aerobic Class II [KO:K01679] [EC:4.2.1.2]
NSJP_0411  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
NSJP_2183  cfiB; 2-oxoglutarate carboxylase small subunit [KO:K01959] [EC:6.4.1.1]
NSJP_2182  cfiA; 2-oxoglutarate carboxylase large subunit [KO:K01960] [EC:6.4.1.1]
NSJP_3232  aceE; pyruvate dehydrogenase, decarboxylase component E1, thiamin-binding [KO:K00163] [EC:1.2.4.1]
NSJP_3231  Branched-chain alpha-keto acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
NSJP_1791  forA; 2-oxoglutarate:ferredoxin oxidoredutase alpha subunit [KO:K00169] [EC:1.2.7.1]
NSJP_1994  porA; Pyruvate:ferredoxin oxidoreductase alpha subunit [KO:K00169] [EC:1.2.7.1]
NSJP_1993  porB; Pyruvate:ferredoxin oxidoreductase beta subunit [KO:K00170] [EC:1.2.7.1]
NSJP_1787  forB; 2-oxoglutarate:ferredoxin oxidoredutase beta subunit [KO:K00170] [EC:1.2.7.1]
NSJP_1992  porC; Pyruvate:ferredoxin oxidoreductase gamma subunit [KO:K00172] [EC:1.2.7.1]
NSJP_1788  forC; 2-oxoglutarate:ferredoxin oxidoredutase gamma subunit [KO:K00172] [EC:1.2.7.1]
NSJP_1991  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
nja00010  Glycolysis / Gluconeogenesis
nja00053  Ascorbate and aldarate metabolism
nja00061  Fatty acid biosynthesis
nja00071  Fatty acid degradation
nja00190  Oxidative phosphorylation
nja00220  Arginine biosynthesis
nja00250  Alanine, aspartate and glutamate metabolism
nja00280  Valine, leucine and isoleucine degradation
nja00350  Tyrosine metabolism
nja00470  D-Amino acid metabolism
nja00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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