KEGG   PATHWAY: smil00020
Entry
smil00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Salvia miltiorrhiza (redroot sage)
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
smil00020  Citrate cycle (TCA cycle)
smil00020

Module
smil_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:smil00020]
smil_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:smil00020]
smil_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:smil00020]
Other DBs
GO: 0006099
Organism
Salvia miltiorrhiza (redroot sage) [GN:smil]
Gene
131009090  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
131012260  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
131024238  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
130993598  ATP-citrate synthase alpha chain protein 1 isoform X1 [KO:K01648] [EC:2.3.3.8]
130993625  ATP-citrate synthase alpha chain protein 1 isoform X1 [KO:K01648] [EC:2.3.3.8]
131008962  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
131024313  LOW QUALITY PROTEIN: putative aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
131009346  aconitate hydratase, cytoplasmic isoform X1 [KO:K01681] [EC:4.2.1.3]
131011338  isocitrate dehydrogenase [NADP]-like isoform X1 [KO:K00031] [EC:1.1.1.42]
131011351  isocitrate dehydrogenase [NADP]-like isoform X1 [KO:K00031] [EC:1.1.1.42]
130989401  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
131021975  isocitrate dehydrogenase [NADP], chloroplastic [KO:K00031] [EC:1.1.1.42]
130989204  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
131020538  3-isopropylmalate dehydrogenase, chloroplastic-like [KO:K00030] [EC:1.1.1.41]
131020870  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
131006829  uncharacterized protein LOC131006829 [KO:K00164] [EC:1.2.4.2]
131022446  uncharacterized protein LOC131022446 [KO:K00164] [EC:1.2.4.2]
130997493  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
131003128  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
131021055  dihydrolipoyl dehydrogenase 1, mitochondrial-like [KO:K00382] [EC:1.8.1.4]
131021059  LOW QUALITY PROTEIN: leghemoglobin reductase-like [KO:K00382] [EC:1.8.1.4]
130997436  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial-like [KO:K01899] [EC:6.2.1.4 6.2.1.5]
131005953  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
131014261  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
130999948  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial-like [KO:K01900] [EC:6.2.1.4 6.2.1.5]
131023895  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
131003467  LOW QUALITY PROTEIN: succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial-like [KO:K00234] [EC:1.3.5.1]
131012447  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
131012853  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
130985602  external alternative NAD(P)H-ubiquinone oxidoreductase B2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
130985665  external alternative NAD(P)H-ubiquinone oxidoreductase B2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
131023468  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial [KO:K00235] [EC:1.3.5.1]
131008730  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
131026521  succinate dehydrogenase subunit 4, mitochondrial [KO:K25801]
131007306  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
130999789  malate dehydrogenase isoform X1 [KO:K00025] [EC:1.1.1.37]
131001199  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
131020616  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
131008965  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
131012052  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
131012055  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
131001798  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
131020408  malate dehydrogenase, chloroplastic-like isoform X1 [KO:K00026] [EC:1.1.1.37]
131005213  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
130992567  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
130992694  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
131010634  phosphoenolpyruvate carboxykinase (ATP) 1-like [KO:K01610] [EC:4.1.1.49]
131001783  phosphoenolpyruvate carboxykinase (ATP) 1 isoform X1 [KO:K01610] [EC:4.1.1.49]
130993721  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial isoform X1 [KO:K00161] [EC:1.2.4.1]
131025258  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial-like [KO:K00161] [EC:1.2.4.1]
131004227  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
130985192  pyruvate dehydrogenase E1 component subunit beta-like isoform X1 [KO:K00162] [EC:1.2.4.1]
131026448  pyruvate dehydrogenase E1 component subunit beta-like [KO:K00162] [EC:1.2.4.1]
130987878  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
131020196  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial-like isoform X1 [KO:K00162] [EC:1.2.4.1]
131025040  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic-like isoform X1 [KO:K00627] [EC:2.3.1.12]
131010070  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
131010136  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
131014763  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial isoform X1 [KO:K00627] [EC:2.3.1.12]
130986344  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
130991178  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like 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
smil00010  Glycolysis / Gluconeogenesis
smil00053  Ascorbate and aldarate metabolism
smil00061  Fatty acid biosynthesis
smil00062  Fatty acid elongation
smil00071  Fatty acid degradation
smil00190  Oxidative phosphorylation
smil00220  Arginine biosynthesis
smil00250  Alanine, aspartate and glutamate metabolism
smil00280  Valine, leucine and isoleucine degradation
smil00350  Tyrosine metabolism
smil00470  D-Amino acid metabolism
smil00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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