Primary carbon metabolism (Populus trichocarpa)

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1, 2stromaLumenPLASMA MEMBRANEtransketolaseATPase betaO2-evolving Enhancer 1ferredoxin NADP + reductaseribulose-5-phosphate-3-epimeraseRuBisCOPSI reaction center subunit IIcarbonic acidtriose phosphate isomerasephosphoglycerate kinasesedoheptulose-1,7-bisphosphatasePSI reaction center subunit IIIglyceraldehyde-3-phosphate dehydrogenaseO2-evolving EnhancerRuBisCO subunit bindinglight-harvesting complex I protein Lhca1fructose-6-phosphateNADP malic enzymecarbon dioxidedihydroxy-acetone phosphateRuBisCO activaseNADP MDHlight harvesting complex I protein Lhca3carbonic anhydraseO2-evolving Enhancer 2light-harvesting complex II protein Lhcb1fructose-1,6-bisphosphateerythrose-4-phosphatephosphoribulokinasefructose-1,6-bisphosphatasesedoheptulose-1,7-bisphosphatasexylulose-5-phosphatefructose-1,6-bisphosphataseADPATPNADP+NADPH3-phosphoglycerateglyceraldehyde-3-phosphateribose-5-phosphatealdolaseribulose-1,5-bisphosphateribulose-5-phosphatepyruvateacetyl-CoAmalateglucosesucrosefructose-6-phosphatecitric acidcis-aconitic acidisocitric acid2-oxoglutaric acidsuccinic acidsuccinyl-CoAfructose 1,6 Bisphosphateglyceraldehyde 3-phosphate1,3-bisphosphoglycerate3-phosphoglyceric acid2-phosphoglyceric acidphosphoenolpyruvic acidpyruvateoxaloacetic acidmalic acidoxaloacetic acidDHAPglucose-6-phosphatefructose-1,6-bisphosphate aldolaseglyceraldehyde-3-phosphate dehydrogenaseCYTOSOLCHOLOROPLASTstarch1,3-bisphosphoglyceratetransketolasealdolasesedoheptulose-7-bisphosphataseribulose-5-phosphate epimeraseADPATPNADP+NADPHADPATPfumaric acidMITOCHONDRION


Description

This plant pathway represents the primary carbon metabolism in plants including Calvin cycle and Photosynthetic electron transport chain (chloroplast), Glycolysis (cytosol) and Krebs cycle (mitochondrion). The pathway was inspired from the book Plant Physiology (Third edition) by Taiz and Zeiger and by Bohler et al (Differential impact of chronic ozone exposure on expanding and fully expanded poplar leaves. Tree Physiol 2010, 30, (11), 1415-1432.) Figures 8 + 9.

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Quality Tags

Ontology Terms

 

Bibliography

  1. Lincoln Taiz, Eduardo Zeiger; ''Plant Physiology''; Sinauer Associates, third edition, 2002
  2. Bohler S, Sergeant K, Lefèvre I, Jolivet Y, Hoffmann L, Renaut J, Dizengremel P, Hausman JF; ''Differential impact of chronic ozone exposure on expanding and fully expanded poplar leaves.''; Tree Physiol, 2010 PubMed Europe PMC Scholia

History

View all...
CompareRevisionActionTimeUserComment
125290view17:15, 31 January 2023LarsgwAdd ISBN to reference
124811view21:46, 11 December 2022AlexanderPicofixed citations
124782view06:36, 11 December 2022AlexanderPicofixed citations
124470view13:50, 30 October 2022EgonwReplaced with an equivalent identifier in Wikidata
117379view10:28, 21 May 2021EweitzModified title
102770view21:08, 23 January 2019MaintBotFixed the casing of two ChEBI identifiers (prefix should be CHEBI: instead of ChEBI:)
88346view16:11, 1 August 2016FehrhartOntology Term : 'classic metabolic pathway' added !
82863view15:54, 10 November 2015JmeliusUpdate outdated id
78463view10:27, 7 January 2015MaintBotadded missing graphIds
78142view13:15, 5 December 2014AnweshaFixed metabolite and protein annotations
77847view08:36, 22 October 2014SbohlerPeriodical save, work in progress
77846view08:25, 22 October 2014SbohlerAdded NAD(H), FAD(H), and ADP/ATP couples to Krebs cycle
77742view13:03, 16 October 2014SbohlerModified description
77732view12:41, 16 October 2014AnweshaAdded literature refernce and the organelle mitochondrion
77722view12:21, 16 October 2014SbohlerModified description
77721view12:18, 16 October 2014SbohlerAdded book reference
77719view12:04, 16 October 2014AnweshaNew pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
1,3-bisphosphoglycerateMetaboliteC00236 (KEGG Compound)
2-oxoglutaric acidMetaboliteCHEBI:30915 (ChEBI)
2-phosphoglyceric acidMetaboliteCHEBI:24344 (ChEBI)
3-phosphoglycerateMetaboliteCHEBI:17050 (ChEBI)
3-phosphoglyceric acidMetaboliteCHEBI:17050 (ChEBI)
ADPMetaboliteCHEBI:16761 (ChEBI)
ATPMetaboliteCHEBI:15422 (ChEBI)
ATPase betaProteinQ8MCB3 (Uniprot-TrEMBL)
DHAPMetaboliteCHEBI:16108 (ChEBI)
NADP MDHProteinA9P8R3 (Uniprot-TrEMBL)
NADP malic enzymeProteinB9ILT5 (Uniprot-TrEMBL)
NADP+MetaboliteCHEBI:18009 (ChEBI)
NADPHMetaboliteCHEBI:16474 (ChEBI)
O2-evolving Enhancer 1ProteinB3VY32 (Uniprot-TrEMBL)
O2-evolving Enhancer 2ProteinA9PHM0 (Uniprot-TrEMBL)
O2-evolving EnhancerProteinA9PFR3 (Uniprot-TrEMBL)
PSI reaction center subunit IIProteinA9PJR8 (Uniprot-TrEMBL)
PSI reaction center subunit IIIProteinA9PCY7 (Uniprot-TrEMBL)
RuBisCO activaseProteinA9PFQ2 (Uniprot-TrEMBL)
RuBisCO subunit bindingProteinB9HQD5 (Uniprot-TrEMBL)
RuBisCOProteinB9GXY0 (Uniprot-TrEMBL)
acetyl-CoAMetaboliteCHEBI:15351 (ChEBI)
aldolaseProteinA9PJC9 (Uniprot-TrEMBL)
carbon dioxideMetaboliteCHEBI:16526 (ChEBI)
carbonic acidMetaboliteCHEBI:28976 (ChEBI)
carbonic anhydraseProteinQ41088 (Uniprot-TrEMBL)
cis-aconitic acidMetaboliteCHEBI:32805 (ChEBI)
citric acidMetaboliteCHEBI:30769 (ChEBI)
dihydroxy-acetone phosphateMetabolite
erythrose-4-phosphateMetabolite
ferredoxin NADP + reductaseProteinP00455 (Uniprot-TrEMBL)
fructose 1,6 BisphosphateMetaboliteCHEBI:78682 (ChEBI)
fructose-1,6-bisphosphataseProtein
fructose-1,6-bisphosphataseProteinB9H7R7 (Uniprot-TrEMBL)
fructose-1,6-bisphosphateMetabolite
fructose-1,6-bisphosphate aldolaseProteinA9PJC9 (Uniprot-TrEMBL)
fructose-6-phosphateMetabolite
fructose-6-phosphateMetaboliteCHEBI:78697 (ChEBI)
fumaric acidMetaboliteCHEBI:18012 (ChEBI)
glucose-6-phosphateMetaboliteCHEBI:14314 (ChEBI)
glucoseMetaboliteCHEBI:17234 (ChEBI)
glyceraldehyde 3-phosphateMetaboliteCHEBI:17138 (ChEBI)
glyceraldehyde-3-phosphate dehydrogenaseProteinQ9SNX8 (Uniprot-TrEMBL)
glyceraldehyde-3-phosphateMetaboliteCHEBI:17050 (ChEBI)
isocitric acidMetaboliteCHEBI:30887 (ChEBI)
light harvesting complex I protein Lhca3ProteinA9PK62 (Uniprot-TrEMBL)
light-harvesting complex I protein Lhca1ProteinA9PJ58 (Uniprot-TrEMBL)
light-harvesting complex II protein Lhcb1ProteinA9PJK6 (Uniprot-TrEMBL)
malateMetaboliteCHEBI:15361 (ChEBI)
malic acidMetaboliteCHEBI:6650 (ChEBI)
oxaloacetic acidMetaboliteCHEBI:30744 (ChEBI)
phosphoenolpyruvic acidMetaboliteCHEBI:44897 (ChEBI)
phosphoglycerate kinaseProteinB9HY29 (Uniprot-TrEMBL)
phosphoribulokinaseProtein
pyruvateMetaboliteCHEBI:15361 (ChEBI)
ribose-5-phosphateMetaboliteCHEBI:17050 (ChEBI)
ribulose-1,5-bisphosphateMetaboliteCHEBI:17050 (ChEBI)
ribulose-5-phosphate epimeraseProtein
ribulose-5-phosphate-3-epimeraseProtein
ribulose-5-phosphateMetaboliteCHEBI:17050 (ChEBI)
sedoheptulose-1,7-bisphosphataseProtein
sedoheptulose-7-bisphosphataseMetabolite
starchMetaboliteCHEBI:28017 (ChEBI)
succinic acidMetaboliteCHEBI:15741 (ChEBI)
succinyl-CoAMetaboliteCHEBI:15380 (ChEBI)
sucroseMetaboliteCHEBI:17992 (ChEBI)
transketolaseProteinB9GPE7 (Uniprot-TrEMBL)
triose phosphate isomeraseProteinA9PE68 (Uniprot-TrEMBL)
xylulose-5-phosphateMetabolite

Annotated Interactions

No annotated interactions

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