Computational Model of Aerobic Glycolysis - Augmented (Homo sapiens)

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ATPAMPO2eHHKGLUT1Applies to PKA and PKL; does not apply to PKMx 12.5MAL_2PGBPGPYRGAPPGKENOTriglyceride synthesisATPGPILDHG6PSerine biosynthesisGlycogen metabolismLACCytosolExtracellular environmentPEPG6PDHPKGSYNGPHOSPentose Phosphate Pathway_3PGHGLUF6PDHAPALDPFKGLUeGAPDHADPFBPPGMTPIATPADPAMP2NADPNADHHATPADPATPADPLACeNADNADHLACTCytosolExtracellular environmentADPPATPO2x 12.5x 12.5x 3OXPHOSO2NADHMASCytosolMitochondrionx 2.5ADPPATPx 2.5x 2.5NADOXYTATPATPaseADPHPADPADPAKPYRF26BPATPADPCRPCRCKSERNADNADHHPHGDHGLYGHMTGRPDHATPADPGPSALTGPTSPTStimulationCatalysisConversionPathwayBranch pathway originatingfrom the glycolysisMetaboliteGlycolytic metaboliteEnzymeEnzyme or processMetaboliteMetabolite that is only in the supplementEnzymeEnzyme or process that isonly in the supplementNADPHATPChemicals; colour codedfor better visualisationEffector of the reactionpointed atConversion of acatalysing chemicalMetaboliteMetabolite that is fixedin the computer modelPDHASPH2OMetaboliteMetaboliteMetabolite that is only in the article figureMetabolite that is in the supplement and article figure,but not in the modelEnzymeEnzyme or process that isonly the article figureEnzymeEnzyme or process that isin the supplement and articlefigure, but not in the model


Description

Glycolysis is the metabolic pathway that converts glucose C6H12O6, into pyruvate, CH3COCOO- and H+. The free energy released in this process is used to form the ATP and NADH.

This pathway was made during a research project at the UMCG, concerning changed glycolytic fluxes during the Warburg Effect. It is an extended version of the glycolysis pathway (WP534), and is descriptive of the content that is provided in the computer model the corresponding supplement, and the article of Shestov et al (2014). A second version, only containing the content of the model itself, can be found here [1].

This pathway was uploaded to provide a high resolution version to readers of the thesis. Description and pathway adapted from [2]

Referred article: Shestov et al., 2014 [3]

Quality Tags

Ontology Terms

 

Bibliography

  1. Carbonell J, Felíu JE, Marco R, Sols A; ''''; , PubMed Europe PMC
  2. Berg JM, Tymoczko JL, Stryer L; ''Biochemistry''; https://www.ncbi.nlm.nih.gov/books/NBK22395/, 2002
  3. Bricker DK, Taylor EB, Schell JC, Orsak T, Boutron A, Chen YC, Cox JE, Cardon CM, Van Vranken JG, Dephoure N, Redin C, Boudina S, Gygi SP, Brivet M, Thummel CS, Rutter J; ''A mitochondrial pyruvate carrier required for pyruvate uptake in yeast, Drosophila, and humans.''; Science, 2012 PubMed Europe PMC

History

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CompareRevisionActionTimeUserComment
107176view14:26, 17 September 2019MaintBotChEBI identifier normalization
106805view13:28, 17 September 2019MaintBotHMDB identifier normalization
105520view08:43, 8 August 2019KJanssenChanged descriptions in legend
105419view16:31, 7 August 2019DeSlRemoved licence number and last modified part.
105417view16:30, 7 August 2019DeSlRemoved reference which was not connected to anything
105416view16:28, 7 August 2019DeSlRemoved weird signs in another lit. ref
105415view16:25, 7 August 2019DeSlRemoved weird signs in lit. ref
105414view16:20, 7 August 2019DeSlConverted interactions in legend to graphical lines, to avoid unconnected lines warning
105134view11:43, 10 July 2019EgonwRemoved a few '0' identifiers.
104985view20:32, 27 June 2019KJanssenChanged colour coding and legend
104935view00:26, 26 June 2019AlexanderPicoModified title
104903view07:09, 24 June 2019KJanssenAdded PDH
104640view07:00, 7 June 2019EgonwA few more.
104636view06:02, 7 June 2019EgonwIf there is no identifier, plz leave the Xref fields empty.
104616view08:07, 4 June 2019KJanssenModified description
104614view08:05, 4 June 2019KJanssen
104612view08:02, 4 June 2019KJanssenUpdated legend
104611view07:53, 4 June 2019KJanssen
104609view07:42, 4 June 2019KJanssenUpdated legend, also some minor changes in the pathway.
104608view07:18, 4 June 2019KJanssenModified title
104605view07:16, 4 June 2019KJanssenModified title
104604view07:15, 4 June 2019KJanssenModified title
104602view16:53, 3 June 2019KJanssenModified description
104600view16:52, 3 June 2019KJanssenModified description
104596view16:42, 3 June 2019KJanssenModified description
104595view16:33, 3 June 2019KJanssenModified description
104594view16:25, 3 June 2019KJanssenModified description
104593view16:24, 3 June 2019KJanssenTrying to get the horizontal lines in for cytosol
104592view15:52, 3 June 2019KJanssenModified title
104591view15:51, 3 June 2019KJanssenNew pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
ADPMetaboliteCHEBI:16761 (ChEBI)
AKGeneProduct
ALDGeneProduct226 (Entrez Gene)
ALTGeneProduct
AMPMetaboliteCHEBI:16027 (ChEBI)
ASPGeneProduct
ATPMetaboliteCHEBI:15422 (ChEBI)
ATPaseGeneProduct
BPGMetaboliteHMDB0001270 (HMDB)
CKGeneProduct
CRMetaboliteHMDB0000064 (HMDB)
DHAPMetaboliteHMDB0001473 (HMDB)
ENOGeneProduct2023 (Entrez Gene)
EnzymeMetabolite
EnzymeGeneProduct2821 (Entrez Gene) glucose-6-phosphate isomerase
F26BPMetaboliteHMDB0001047 (HMDB)
F6PMetaboliteCHEBI:61527 (ChEBI)
FBPMetaboliteHMDB0001058 (HMDB)
G6PMetaboliteCHEBI:75052 (ChEBI) Glucose-6-Phosphate (2-)
G6PDHGeneProduct4057 (HGNC)
GAPDHGeneProductENSG00000111640 (Ensembl)
GAPMetaboliteHMDB0001112 (HMDB)
GHMTGeneProduct
GLUMetaboliteHMDB0000122 (HMDB)
GLUTGeneProduct6513 (Entrez Gene)
GLUeMetaboliteHMDB0000122 (HMDB)
GLYMetaboliteHMDB0000187 (HMDB)
GPHOSGeneProduct1 (HGNC)
GPIGeneProduct2821 (Entrez Gene) glucose-6-phosphate isomerase
GPSGeneProduct
GPTGeneProduct
GRPDHGeneProduct
GSYNGeneProduct1 (HGNC)
Glycogen metabolismPathwayWP500 (WikiPathways)
H2OMetaboliteCHEBI:26689 (ChEBI)
HMetaboliteCHEBI:49637 (ChEBI)
HKGeneProduct3098 (Entrez Gene)
LACMetaboliteHMDB0000190 (HMDB)
LACTGeneProduct
LACeMetaboliteHMDB0000190 (HMDB)
LDH GeneProduct3939 (Entrez Gene)
MALGeneProduct
MAS
MetaboliteMetabolite
MetaboliteMetaboliteHMDB0001047 (HMDB)
NADMetaboliteCHEBI:15846 (ChEBI)
NADHMetaboliteCHEBI:16908 (ChEBI)
O2MetaboliteCHEBI:26689 (ChEBI)
O2eMetaboliteCHEBI:26689 (ChEBI)
OXPHOS
OXYT
PMetaboliteCHEBI:28659 (ChEBI)
PCRMetaboliteHMDB0001511 (HMDB)
PDHGeneProduct
PEPMetaboliteHMDB0000263 (HMDB)
PFKGeneProduct5213 (Entrez Gene) Type your comment here
PGK GeneProduct5230 (Entrez Gene)
PGM GeneProduct5224 (Entrez Gene)
PHGDHGeneProduct
PKGeneProduct5315 (Entrez Gene)
PYRMetaboliteHMDB0000243 (HMDB)
PathwayPathway
Pentose Phosphate PathwayPathwayWP134 (WikiPathways)
SERMetaboliteHMDB0000187 (HMDB)
SPTGeneProduct
Serine biosynthesisPathway
TPIGeneProduct7167 (Entrez Gene)
Triglyceride synthesisPathwayWP325 (WikiPathways)
_2PGMetaboliteHMDB0000362 (HMDB)
_3PGMetaboliteHMDB0000807 (HMDB)

Annotated Interactions

No annotated interactions

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