Plant primary metabolism (Arabidopsis thaliana)

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ADPglucose kinasehexokinasepyruvateribulose-1,5-bisphosphateHCO3-ribulose 5-phosphate 3-epimerase activitysuccinatephosphoglycerate kinasefructose 1,6-bisphosphatestarch synthasephosphoglycerate kinase activityxyluloase-5-phosphatefructose 6-phosphateglucose-6-phosphate isomeraseglucose 6-phosphatePiNAD+glucosePPi-dependent phosphofructokinasesedoheptulose 1,7-bisphosphateNADP+transketolasemalateUDP-glucoseglycerate 3-phosphateRuBisCO activaseNADPHribulose 5-phosphateglyceraldehyde 3-phosphate dehydrogenaseoxaloacetateCoAstarch posphorylasephosphoribulokinasephosphoglucomutasefructose 6-phosphateCO2H+glycerate 1,3-bisphosphatefructoseADP-glucosephosphoenolpyruvatepyruvate kinaseFADH2sedoheptulose 1,7-bisphosphataseFAD+ADP-glucose pyrophosphorylasesuccinate dehydrogenaseNADHribulose 5-phosphate isomerasesuccinyl-CoA synthetase2-oxoglutaratesucrose synthaseerythrose 4-phosphatefructose-1,6-bisphosphatephosphoglycerate mutaseinvertasefructose 1,6-bisphosphate aldolaseATPfructose-1,6-bisphosphatasemalic enzymefumarasehexose phosphate isomerasealdolaseamylaseoxaloacetatesucrosephosphoenolpyruvate carboxylase2-oxoglutarate dehydrogenaseaconitaseglucose 1-phosphate3-phosphoglyceratemalate dehydrogenaseSuccinyl-CoAglyceraldehyde-3-phosphate dehydrogenaseAcetyl-CoAcitrate1,3-bisphosphoglyceratephosphopyruvate hydratasefructose 1,6-bisphosphataseisocitratecitrate synthaseH2Ostarchisocitrate dehydrogenaseglycerate 2-phosphateUTPsedoheptulose 7-phosphatepyruvate dehydrogenasefumaratemalic enzymePPiribose 5-phosphateglucose 1-phosphateglyceraldahyde-3-phosphateDihydroxyacetone phosphatetriose phosphate isomeraseH2OaldolaseH2OPitransketolaseDihydroxyacetone phosphateglyceraldahyde-3-phosphatetriose phosphate isomeraseNADPHNADP+ATPADPmalate dehydrogenaseNAD+NADHATPADPATPADPATP-dependent phosphofructokinasePiATPADPPiH2OPihexokinaseATPADPglucose 6-phosphatePiglucoseATPADPfructose 1,6-bisphosphatealdolasefructose 6-phosphatePiH2OATPPPiphosphoglucomutaseUDP-glucose pyrophosphorylasePPiH2OpyruvateCoACO2NAD+NADHNAD+NADHCoACO2NAD+NADHCoAH2OATPADPmalateH2ONAD+NADHNAD+NADHRuBisCO SSURuBisCO LSU


Description

Plant Primary Metabolism Metapathway

Contains:

- Calvin Cycle (chloroplast) - Glycolysis (cytosol) - Krebs Cycle (mitochondria)

The pathway is currently under construction and does not yet contain A. thaliana annotations.

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Quality Tags

Ontology Terms

 

Bibliography

  1. Karve A, Rauh BL, Xia X, Kandasamy M, Meagher RB, Sheen J, Moore BD; ''Expression and evolutionary features of the hexokinase gene family in Arabidopsis.''; Planta, 2008 PubMed Europe PMC Scholia

History

View all...
CompareRevisionActionTimeUserComment
117248view09:59, 19 May 2021EweitzModified title
111815view19:09, 8 September 2020EgonwMatched the data source with the given identifier.
105896view11:36, 16 August 2019MkutmonHMDB identifier normalization
102643view07:49, 16 January 2019TokimatsuReverted to version '2018年3月5日 (月) 08:39' by Tokimatsu
102642view07:47, 16 January 2019TokimatsuFix interactions
102641view07:40, 16 January 2019TokimatsuFixed connections.
102640view07:26, 16 January 2019Tokimatsuremove reactions/metabolites undiscovered from Brassicaceae. Add reaction IDs.
102639view07:19, 16 January 2019Tokimatsuremove reactions/metabolites undiscovered from Brassicaceae. Add reaction IDs.
96282view08:39, 5 March 2018EgonwNot a chemical conversion.
82871view16:28, 10 November 2015JmeliusCorrect outdated id
78382view10:22, 7 January 2015MaintBotadded missing graphIds
76240view08:49, 21 June 2014SbohlerGrouped cytosolic malic enzymes 1, 2, and 3.
76235view06:19, 20 June 2014SbohlerCoorected myrosinase annotations (vacuole)
76234view15:37, 19 June 2014AnweshaAnnotated some nodes
75849view09:02, 11 June 2014SbohlerModified description
75847view04:59, 11 June 2014EgonwAdded two more missing metabolite IDs.
75846view04:50, 11 June 2014EgonwAdded missing database names for two protein IDs.
75331view14:45, 19 May 2014SbohlerMoved apoplastic protein out of the cell border.
75330view14:42, 19 May 2014SbohlerParts added to the pathway, including RNA for PLC1,2, NAD-ME1,2, NADP-ME2.
74123view20:17, 31 March 2014EgonwRemoved the list of Uniprot identifiers from the Xref, which can hold only one.
74122view20:16, 31 March 2014EgonwCopied the multiple identifiers to the comment field.
71812view18:17, 18 October 2013EgonwAdded a bunch of missing metabolite identifiers.
71448view19:14, 17 October 2013MaintBotAutomated update of data sources
65321view18:01, 6 June 2013SbohlerPeriodical save, work in progress
65316view17:51, 6 June 2013Sbohlerwork in progress
65312view17:40, 6 June 2013SbohlerPeriodical save, work in progress
65024view21:00, 4 June 2013MaintBotOntology Term : 'glycolysis pathway' added !
65023view21:00, 4 June 2013MaintBotOntology Term : 'Krebs cycle pathway' added !
65022view20:59, 4 June 2013MaintBotModified categories
62875view12:56, 3 May 2013SbohlerModified description
62874view12:54, 3 May 2013SbohlerModified description
62873view12:50, 3 May 2013SbohlerNew pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
1,3-bisphosphoglycerateMetabolite
2-oxoglutarate dehydrogenaseProtein
2-oxoglutarateMetaboliteCHEBI:30916 (ChEBI)
3-phosphoglycerateMetabolite
ADPMetabolite
ADP-glucose pyrophosphorylaseProtein
ADP-glucoseMetaboliteHMDB06557 (HMDB)
ADPMetaboliteCHEBI:16761 (ChEBI)
ATP-dependent phosphofructokinaseProtein
ATPMetaboliteHMDB00538 (HMDB)
Acetyl-CoAMetaboliteHMDB01206 (HMDB)
CO2MetaboliteHMDB01967 (HMDB)
CoAMetabolite
Dihydroxyacetone phosphateMetaboliteHMDB01473 (HMDB)
FAD+MetaboliteHMDB01248 (HMDB)
FADH2MetaboliteHMDB01197 (HMDB)
H+MetaboliteCHEBI:15378 (ChEBI)
H2OMetaboliteHMDB02111 (HMDB)
HCO3-MetaboliteCHEBI:17544 (ChEBI)
NAD+MetaboliteHMDB00902 (HMDB)
NADHMetaboliteHMDB01487 (HMDB)
NADP+MetaboliteHMDB00217 (HMDB)
NADPHMetaboliteHMDB00221 (HMDB)
PPiMetabolite
PPi-dependent phosphofructokinaseProtein
PiMetabolite
RuBisCO LSUProtein
RuBisCO SSUProteinQ42306 Q42046 Q0WVH4 F4HRR5 F4KA76 B3H5S2 P10795 P10796 P10797

P10798 (Uniprot-TrEMBL)
RuBisCO activaseProtein
Succinyl-CoAMetaboliteHMDB01022 (HMDB)
UDP-glucoseMetabolite
UDP-glucose pyrophosphorylaseProtein
UTPMetaboliteCHEBI:15713 (ChEBI)
aconitaseProtein
aldolaseProtein
amylaseProteinGO:0016160 (GeneOntology)
citrate synthaseProtein
citrateMetaboliteCHEBI:30769 (ChEBI)
erythrose 4-phosphateMetaboliteHMDB01321 (HMDB)
fructose 1,6-bisphosphataseProtein
fructose 1,6-bisphosphate aldolaseProteinGO:0004332 (GeneOntology)
fructose 1,6-bisphosphateMetaboliteHMDB01058 (HMDB)
fructose 6-phosphateMetaboliteHMDB00124 (HMDB)
fructose-1,6-bisphosphataseProtein
fructose-1,6-bisphosphateMetaboliteHMDB01058 (HMDB)
fructoseMetaboliteHMDB00660 (HMDB)
fumaraseProtein
fumarateMetaboliteCHEBI:29806 (ChEBI)
glucose 1-phosphateMetaboliteHMDB01586 (HMDB)
glucose 6-phosphateMetaboliteHMDB01401 (HMDB)
glucose kinaseProtein
glucose-6-phosphate isomeraseProteinGO:0004347 (GeneOntology)
glucoseMetaboliteHMDB00122 (HMDB)
glyceraldahyde-3-phosphateMetabolite
glyceraldehyde 3-phosphate dehydrogenaseProteinGO:0004365 (GeneOntology)
glyceraldehyde-3-phosphate dehydrogenaseProtein
glycerate 1,3-bisphosphateMetabolite
glycerate 2-phosphateMetabolite
glycerate 3-phosphateMetabolite
hexokinaseProteinGO:0004396 (GeneOntology)
hexose phosphate isomeraseProtein
invertaseProtein
isocitrate dehydrogenaseProteinGO:0004449 (GeneOntology)
isocitrateMetaboliteCHEBI:30887 (ChEBI)
malateMetabolite
malate dehydrogenaseProteinGO:0016615 (GeneOntology)
malate dehydrogenaseProteinGO:0016619 (GeneOntology)
malic enzymeProteinGO:0004470 (GeneOntology)
oxaloacetateMetaboliteCHEBI:16452 (ChEBI)
phosphoenolpyruvate carboxylaseProtein
phosphoenolpyruvateMetaboliteCHEBI:18021 (ChEBI)
phosphoglucomutaseProteinGO:0004614 (GeneOntology)
phosphoglycerate kinase activityProteinGO:0004618 (GeneOntology)
phosphoglycerate kinaseProteinGO:0004618 (GeneOntology)
phosphoglycerate mutaseProteinGO:0004619 (GeneOntology)
phosphopyruvate hydrataseProteinGO:0004634 (GeneOntology)
phosphoribulokinaseProtein
pyruvateMetabolite
pyruvate dehydrogenaseProteinGO:0004738 (GeneOntology)
pyruvate kinaseProteinGO:0004743 (GeneOntology)
pyruvateMetaboliteCHEBI:15361 (ChEBI)
ribose 5-phosphateMetaboliteHMDB01548 (HMDB)
ribulose 5-phosphate 3-epimerase activityProteinGO:0004750 (GeneOntology)
ribulose 5-phosphate isomeraseProtein
ribulose 5-phosphateMetaboliteHMDB00618 (HMDB)
ribulose-1,5-bisphosphateMetabolite
sedoheptulose 1,7-bisphosphataseProtein
sedoheptulose 1,7-bisphosphateMetaboliteCHEBI:17969 (ChEBI)
sedoheptulose 7-phosphateMetaboliteHMDB01068 (HMDB)
starch posphorylaseProtein
starch synthaseProtein
starchMetaboliteCHEBI:28017 (ChEBI)
succinate dehydrogenaseProteinGO:0000104 (GeneOntology)
succinateMetaboliteCHEBI:30779 (ChEBI)
succinyl-CoA synthetaseProtein
sucrose synthaseProtein
sucroseMetaboliteHMDB00258 (HMDB)
transketolaseProteinGO:0004802 (GeneOntology)
triose phosphate isomeraseProtein
xyluloase-5-phosphateMetabolite

Annotated Interactions

SourceTargetTypeDatabase referenceComment
RuBisCO LSUmim-catalysisREACT_1827.5 (Reactome)
Retrieved from "https://classic.wikipathways.org/index.php/Pathway:WP2499"
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