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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View approved pathways at the new wikipathways.org. This website will shutdown soon.

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-oxoglutarateMetabolite
2-oxoglutarate dehydrogenaseProtein
3-phosphoglycerateMetabolite
ADPMetabolite
ADP-glucose pyrophosphorylaseProtein
ADP-glucoseMetaboliteHMDB06557 (HMDB)
ATP-dependent phosphofructokinaseProtein
ATPMetaboliteHMDB00538 (HMDB)
Acetyl-CoAMetaboliteHMDB01206 (HMDB)
CO2MetaboliteHMDB01967 (HMDB)
CoAMetabolite
Dihydroxyacetone phosphateMetaboliteHMDB01473 (HMDB)
FAD+MetaboliteHMDB01248 (HMDB)
FADH2MetaboliteHMDB01197 (HMDB)
H+Metabolite
H2OMetaboliteHMDB02111 (HMDB)
HCO3-Metabolite
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
UTPMetabolite
aconitaseProtein
aldolaseProtein
amylaseProteinGO:0016160 (GeneOntology)
citrateMetabolite
citrate synthaseProtein
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
fumarateMetabolite
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
isocitrateMetabolite
isocitrate dehydrogenaseProteinGO:0004449 (GeneOntology)
malateMetabolite
malate dehydrogenaseProteinGO:0016615 (GeneOntology)
malate dehydrogenaseProteinGO:0016619 (GeneOntology)
malic enzymeProteinGO:0004470 (GeneOntology)
oxaloacetateMetabolite
phosphoenolpyruvateMetabolite
phosphoenolpyruvate carboxylaseProtein
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)
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-bisphosphateMetabolite
sedoheptulose 7-phosphateMetaboliteHMDB01068 (HMDB)
starchMetabolite
starch posphorylaseProtein
starch synthaseProtein
succinateMetabolite
succinate dehydrogenaseProteinGO:0000104 (GeneOntology)
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://oldclassic.wikipathways.org/index.php/Pathway:WP2499"
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