KEGG   PATHWAY: nsy00020
Entry
nsy00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nicotiana sylvestris (wood tobacco)
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
nsy00020  Citrate cycle (TCA cycle)
nsy00020

Module
nsy_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nsy00020]
nsy_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nsy00020]
nsy_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nsy00020]
nsy_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nsy00020]
nsy_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nsy00020]
Other DBs
GO: 0006099
Organism
Nicotiana sylvestris (wood tobacco) [GN:nsy]
Gene
104228294  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
104240548  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
104236939  ATP-citrate synthase beta chain protein 2 isoform X1 [KO:K01648] [EC:2.3.3.8]
104238143  ATP-citrate synthase alpha chain protein 2-like [KO:K01648] [EC:2.3.3.8]
104238819  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
104224302  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
104245638  ATP-citrate synthase alpha chain protein 2 isoform X1 [KO:K01648] [EC:2.3.3.8]
104219955  aconitate hydratase, cytoplasmic-like [KO:K01681] [EC:4.2.1.3]
104235290  aconitate hydratase, cytoplasmic-like isoform X1 [KO:K01681] [EC:4.2.1.3]
104221546  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
104226236  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
104229811  isocitrate dehydrogenase [NADP]-like isoform X1 [KO:K00031] [EC:1.1.1.42]
104219254  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
104233900  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
104219458  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
104234078  3-isopropylmalate dehydrogenase, chloroplastic [KO:K00030] [EC:1.1.1.41]
104229441  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
104244628  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
104213194  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
104218123  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
104248227  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
104246152  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
104240233  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
104223186  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
104225038  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
104214154  dihydrolipoyl dehydrogenase 2, chloroplastic-like isoform X1 [KO:K00382] [EC:1.8.1.4]
104230423  succinyl-CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
104225736  succinyl-CoA ligase [ADP-forming] subunit alpha-2, mitochondrial-like [KO:K01899] [EC:6.2.1.4 6.2.1.5]
104238071  succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
104241425  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial isoform X1 [KO:K00234] [EC:1.3.5.1]
104246486  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
104211919  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial [KO:K00235] [EC:1.3.5.1]
27214839  sdh3; succinate dehydrogenase subunit 3 [KO:K00236]
27214871  sdh3; succinate dehydrogenase subunit 3 [KO:K00236]
27214890  sdh3; succinate dehydrogenase subunit 3 [KO:K00236]
104227969  uncharacterized mitochondrial protein ymf17 [KO:K25801]
104227687  fumarate hydratase 1, mitochondrial-like [KO:K01679] [EC:4.2.1.2]
104248356  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
104231246  malate dehydrogenase, cytoplasmic-like isoform X1 [KO:K00025] [EC:1.1.1.37]
104220782  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
104219296  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
104228472  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
104249082  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
104238088  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
104227965  malate dehydrogenase, chloroplastic isoform X1 [KO:K00026] [EC:1.1.1.37]
104212592  malate dehydrogenase 2, mitochondrial [KO:K00026] [EC:1.1.1.37]
104235885  phosphoenolpyruvate carboxykinase [ATP]-like [KO:K01610] [EC:4.1.1.49]
104224234  phosphoenolpyruvate carboxykinase [ATP]-like isoform X1 [KO:K01610] [EC:4.1.1.49]
104240753  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic-like [KO:K00161] [EC:1.2.4.1]
104215850  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
104232648  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial-like [KO:K00161] [EC:1.2.4.1]
104240579  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic-like [KO:K00161] [EC:1.2.4.1]
104234378  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
104211755  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
104227541  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial-like [KO:K00162] [EC:1.2.4.1]
104229379  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
104249392  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial-like isoform X1 [KO:K00162] [EC:1.2.4.1]
104222549  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
104241914  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like isoform X1 [KO:K00627] [EC:2.3.1.12]
104239158  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
104229812  LOW QUALITY PROTEIN: dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
104224582  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
104235087  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial isoform X1 [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
nsy00010  Glycolysis / Gluconeogenesis
nsy00053  Ascorbate and aldarate metabolism
nsy00061  Fatty acid biosynthesis
nsy00062  Fatty acid elongation
nsy00071  Fatty acid degradation
nsy00190  Oxidative phosphorylation
nsy00220  Arginine biosynthesis
nsy00250  Alanine, aspartate and glutamate metabolism
nsy00280  Valine, leucine and isoleucine degradation
nsy00350  Tyrosine metabolism
nsy00470  D-Amino acid metabolism
nsy00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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