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Information on EC 1.2.1.12 - glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) and Organism(s) Escherichia coli and UniProt Accession P0A9B2

for references in articles please use BRENDA:EC1.2.1.12
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EC Tree
IUBMB Comments
Also acts very slowly on D-glyceraldehyde and some other aldehydes; thiols can replace phosphate.
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This record set is specific for:
Escherichia coli
UNIPROT: P0A9B2
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Word Map
The taxonomic range for the selected organisms is: Escherichia coli
The expected taxonomic range for this enzyme is: Eukaryota, Bacteria, Archaea
Synonyms
gapdhs, d-glyceraldehyde-3-phosphate dehydrogenase, gapds, gadph, glyceraldehyde-3-phosphate dehydrogenases, plasmin receptor, gapc1, plasminogen-binding protein, gapcp, glyceraldehyde-3 phosphate dehydrogenase, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
GAPDH type 1
-
glyceraldehyde 3-phosphate dehydrogenase
-
glyceraldehyde-3-phosphate dehydrogenase
-
NAD+-dependent GAPDH
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NAD+-dependent glyceraldehyde 3-phosphate dehydrogenase
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3-phosphoglyceraldehyde dehydrogenase
-
-
-
-
BARS-38
-
-
-
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CP 17/CP 18
-
-
-
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dehydrogenase, glyceraldehyde phosphate
-
-
-
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dihydrogenase, glyceraldehyde phosphate
-
-
-
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G3PD
-
-
-
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GAPDH
GAPDH1
-
-
-
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GAPDH2
-
-
-
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glyceraldehyde phosphate dehydrogenase (NAD)
-
-
-
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glyceraldehyde-3-P-dehydrogenase
-
-
-
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glyceraldehyde-3-phosphate dehydrogenase
-
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glyceraldehyde-3-phosphate dehydrogenase (NAD)
-
-
-
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GPD
-
-
-
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Gra3PDH
-
-
-
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GraP-DH
-
-
-
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Larval antigen OVB95
-
-
-
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Major larval surface antigen
-
-
-
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NAD+-G-3-P dehydrogenase
-
-
-
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NAD-dependent glyceraldehyde phosphate dehydrogenase
-
-
-
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NAD-dependent glyceraldehyde-3-phosphate dehydrogenase
-
-
-
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NAD-G3PDH
-
-
-
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NADH-glyceraldehyde phosphate dehydrogenase
-
-
-
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P-37
-
-
-
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phosphoglyceraldehyde dehydrogenase
-
-
-
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Plasmin receptor
-
-
-
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Plasminogen-binding protein
-
-
-
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TLAb
-
-
-
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triose phosphate dehydrogenase
-
-
-
-
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
D-glyceraldehyde 3-phosphate + phosphate + NAD+ = 3-phospho-D-glyceroyl phosphate + NADH + H+
show the reaction diagram
B-specific oxidoreductase
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
redox reaction
-
-
-
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oxidation
-
-
-
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reduction
-
-
-
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SYSTEMATIC NAME
IUBMB Comments
D-glyceraldehyde-3-phosphate:NAD+ oxidoreductase (phosphorylating)
Also acts very slowly on D-glyceraldehyde and some other aldehydes; thiols can replace phosphate.
CAS REGISTRY NUMBER
COMMENTARY hide
9001-50-7
-
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH
show the reaction diagram
-
-
?
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH + H+
show the reaction diagram
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH
show the reaction diagram
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH + H+
show the reaction diagram
-
-
-
-
?
p-nitrophenyl acetate + H2O
p-nitrophenol + acetate
show the reaction diagram
-
-
-
-
?
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH + H+
show the reaction diagram
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH
show the reaction diagram
-
key enzyme of glycolysis
-
-
?
D-glyceraldehyde 3-phosphate + phosphate + NAD+
3-phospho-D-glyceroyl phosphate + NADH + H+
show the reaction diagram
-
-
-
-
?
COFACTOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
acetone
inhibits about 60% at 15%
acetonitril
inhibits about 90% at 15%
ethanol
inhibits about 55% at 15%
H2O2
irreversible inhibition
Isopropanol
inhibits about 60% at 15%
trehalose
might be an inhibitor, trehalose induces a conformational change in ecGAPDH in the current structure. The rotation of GAPDH also induced a conformational change in its active site. This suggests that the binding of trehalose to GAPDH induced a conformational change in its active site to prevent the binding of NAD+, although the NAD+- and trehalose-binding sites differ from one another
Tween 20
inhibits about 60% at 1%
ADP
-
inhibition of esterase activity with p-nitrophenyl acetate
AMP
-
inhibition of esterase activity with p-nitrophenyl acetate
ATP
-
inhibition of esterase activity with p-nitrophenyl acetate
iodoacetate
-
-
additional information
-
ACTIVATING COMPOUND
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
Triton X-100
activates 30% at 1%
additional information
-
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.29 - 2.05
D-glyceraldehyde 3-phosphate
0.045 - 0.19
NAD+
0.53 - 35.1
phosphate
TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
additional information
additional information
-
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
8
-
50 mM Tris-chloride buffer and triethanolamine-chloride buffer
8.8
-
50 mM sodium diphosphate buffer
pH RANGE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
8 - 10.5
over 40% of maximal activity within this range, profile overview
7.5 - 8.5
-
about 85% of maximal activity at pH 7.5 and pH 8.5, 50 mM Tris-chloride buffer. About 75% of maximal activity at pH 7.5 and pH 8.5, 50 mM triethanolamine-chloride buffer
8.3 - 9.3
-
85% of maximal activity at pH 8.3 and pH 9.3, 50 mM sodium diphosphate buffer
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
TEMPERATURE RANGE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
45 - 60
over 50% of maximal activity within this range, profile overview
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
malfunction
when the cell is exposed to high levels of H2O2, GAPDH is irreversibly inhibited presumably by the formation of sulphenic acid in the active site cysteine, becoming a switch that balances the equilibrium between the glycolytic cycle and the pentose phosphate metabolic pathway and promoting the formation of NADPH to combat ROS-produced cell stress
metabolism
physiological function
malfunction
-
GAPDH-deficient cells are more sensitive to bleomycin or methyl methanesulfonate. In cells challenged with these genotoxic agents, GAPDH deficiency results in reduced cell viability and filamentous growth
metabolism
physiological function
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GAPDH is required for the efficient repair of DNA lesions in Escherichia coli. Interaction occur between GAPDH and enzymes of the base excision repair pathway, namely the AP-endonuclease Endo IV and uracil DNA glycosylase. GAPDH is a component of a protein complex dedicated to the maintenance of genomic DNA integrity. Interaction of GAPDH with the single-stranded DNA binding protein may recruit GAPDH to the repair sites and implicates GAPDH in DNA repair pathways activated by profuse DNA damage, such as homologous recombination or the SOS response.
additional information
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
35000
-
x * 35000, high speed equilibrium sedimentation after treatment with 5 M guanidine hydrochloride containing 0.01 M dithiothreitol
36000
-
SDS-PAGE
SUBUNIT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
tetramer
?
-
x * 35000, high speed equilibrium sedimentation after treatment with 5 M guanidine hydrochloride containing 0.01 M dithiothreitol
POSTTRANSLATIONAL MODIFICATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
additional information
-
GAPDH of enterohemorrhagic and enteropathogenic Escherichia coli-strains is ADP-ribosylated either in the cytoplasm or in the extracellular medium. GAPDH catalyzes its own modification involving residue C149 at the active site, reaction requires NAD+
CRYSTALLIZATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
native, non-modified and selenium-modified enzymes, 5.5 mg/ml protein in 10 mM HEPES, pH 7.5, and 1.43 M sodium citrate, 18°C, 3 days, method optimization, crystals from the selenium modified enzyme are soaked for 10 min in 5 mM NAD+ dissolved in mother liquor with or without 25% trehalose, X-ray diffraction structure determination and analysis at 1.64-2.14 A resolution using single-wavelength anomalous dispersion (SAD) phasing with a selenium-modified enzyme, molecular replacement
purified recombinant enzyme GAPDH complexed with trehalose, hanging drop vapour diffusion method, mixing of 20 mg/ml protein in 20 mM Tris, 130 mM NaCl pH 7.5, with reservoir solution containing 2.8 M ammonium sulfate, 0.1 M MES, pH 5.5-6.5, 4°C, two to three weeks, GAPDH crystals are treated with a cryoprotectant consisting of 15% v/v trehalose at -173°C, X-ray diffraction structure determination and analysis at 2.1 A resolution, molecular replacement using the Escherichia coli GAPDH structure (PDB ID 1s7c) as a starting model
purified recombinant isozyme EcGAPDH1, sitting drop vapour diffusion method, mixing of 240 nl of 30 mg/ml protein in 4 mM NaCl, and 5 mM Tris-HCl pH 8.0, with 240 nl of reservoir solution containing reservoir solution consisting of 100 mM sodium acetate, pH 4.6, 30% w/v PEG 400,and 200 mM calcium acetate, and equilibration against 0.1 ml of reservoir solution, 1 week, method optimization, X-ray diffraction structure determination and analysis at 1.88 A resolution, molecular replacement using the structure of GAPDH from methicillin-resistant Staphylococcus aureus MRSA252 (PDB ID 3lvf) as search model, model building
structure determination by formation of soluble recombinant rat sperm glyceraldehyde-3-phosphate dehydrogenase as a heterotetramer with the Escherichia coli glyceraldehyde-3-phosphate dehydrogenase in a ratio of 1:3. Glyceraldehyde 3-phosphate binds in the Ps pocket in the active site of the sperm enzyme subunit in the presence of NAD
after addition of NAD+ to the apoprotein
-
PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
N313T/Y317G
dissociation constant for NAD+ is 300times higher than that of the wild-type enzyme. Conformational equilibrium between the syn and the anti forms with a preference for the anti conformer
Y317A
dissociation constant for NAD+ is 5times higher than that of the wild-type enzyme. Wild-type syn orientation of bound nicotinamide remains unchanged
Y317G
dissociation constant for NAD+ is 13times higher than that of the wild-type enzyme. Wild-type syn orientation of bound nicotinamide remains unchanged
C149A
C153A
-
site-directed mutagenesis
additional information
pH STABILITY
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
1 - 2
purified recombinant His-tagged enzyme, loss of 80% activity
762579
7 - 10
purified recombinant His-tagged enzyme, completely stable
762579
TEMPERATURE STABILITY
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
22
purified recombinant ecGAPDH is stable at room temperature
50
purified recombinant His-tagged enzyme, completely stable up to
55
purified recombinant His-tagged enzyme, loss of 70-80% activity
65
purified recombinant His-tagged enzyme, inactivation
PURIFICATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
recombinant His-tagged engineered enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography, gel filtration, and ultrafiltration
recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography, dialysis, and ultrafiltration
recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography, gel filtration, and ultrafiltratioon
glutathione Sepharose 4B resin column chromatography
-
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
gene gapA, complementation of the mutant Escherichia coli strain MG1655DELTAgapA by the Streptococcus mutans gapN gene, EC 1.2.1.9, UniProt ID Q59931, expressed from plasmid pTrcgapN
gene gapA, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3)
recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3)
expressed in Escherichia coli strain BL21(DE3)
-
gene gapA, recombinant expression of GST-tagged wild-type and mutant enzymes in Escherichia coli strain BL21(DE3)
-
APPLICATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
analysis
GAPDH is a multi-functional protein that is used as a control marker for basal function, it is known to undergo cysteine oxidation under different types of cellular stress
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Eyschen, J.; Vitoux, B.; Marraud, M.; Cung, M.T.; Branlant, G.
Engineered glycolytic glyceraldehyde-3-phosphate dehydrogenase binds the anti conformation of NAD+ nicotinamide but does not experience A-specific hydride transfer
Arch. Biochem. Biophys.
364
219-227
1999
Escherichia coli (P0A9B2), Escherichia coli
Manually annotated by BRENDA team
Harris, J.I.; Waters, M.
Glyceraldehyde-3-phosphate dehydrogenase
The Enzymes, 3rd Ed. (Boyer, P. D. , ed. )
13
1-49
1976
Geobacillus stearothermophilus, Bacillus cereus, Bos taurus, Saccharomyces cerevisiae, Canis lupus familiaris, Gallus gallus, Oryctolagus cuniculus, Escherichia coli, Felis catus, Hippoglossus sp., Homo sapiens, Lobster, Meleagris gallopavo, Pisum sativum, Rattus norvegicus, Acipenser sp., Sus scrofa, Thermus aquaticus
-
Manually annotated by BRENDA team
D'Alessio, G.; Josse, J.
Glyceraldehyde phosphate dehydrogenase of Escherichia coli. Structural and catalytic properties
J. Biol. Chem.
246
4326-4333
1971
Escherichia coli
Manually annotated by BRENDA team
Olivier, L.; Buisson, G.; Fanchon, E.; Corbier, C.; Branlant, G.; Dideberg, O.
Crystallization and preliminary x-ray diffraction studies of Escherichia coli glyceraldehyde-3-phosphate dehydrogenase
Acta Crystallogr. Sect. D
51
245-247
1995
Escherichia coli
Manually annotated by BRENDA team
Egea, L.; Aguilera, L.; Gimenez, R.; Sorolla, M.A.; Aguilar, J.; Badia, J.; Baldoma, L.
Role of secreted glyceraldehyde-3-phosphate dehydrogenase in the infection mechanism of enterohemorrhagic and enteropathogenic Escherichia coli: interaction of the extracellular enzyme with human plasminogen and fibrinogen
Int. J. Biochem. Cell Biol.
39
1190-1203
2007
Escherichia coli
Manually annotated by BRENDA team
Aguilera, L.; Gimenez, R.; Badia, J.; Aguilar, J.; Baldoma, L.
NAD+-dependent post-translational modification of Escherichia coli glyceraldehyde-3-phosphate dehydrogenase
Int. Microbiol.
12
187-192
2009
Escherichia coli
Manually annotated by BRENDA team
Frayne, J.; Taylor, A.; Cameron, G.; Hadfield, A.T.
Structure of insoluble rat sperm glyceraldehyde-3-phosphate dehydrogenase (GAPDH) via heterotetramer formation with Escherichia coli GAPDH reveals target for contraceptive design
J. Biol. Chem.
284
22703-22712
2009
Escherichia coli (P0A9B2), Escherichia coli, Rattus norvegicus (Q9ESV6)
Manually annotated by BRENDA team
Martinez, I.; Zhu, J.; Lin, H.; Bennett, G.N.; San, K.Y.
Replacing Escherichia coli NAD-dependent glyceraldehyde 3-phosphate dehydrogenase (GAPDH) with a NADP-dependent enzyme from Clostridium acetobutylicum facilitates NADPH dependent pathways
Metab. Eng.
10
352-359
2008
Escherichia coli
Manually annotated by BRENDA team
Centeno-Leija, S.; Utrilla, J.; Flores, N.; Rodriguez, A.; Gosset, G.; Martinez, A.
Metabolic and transcriptional response of Escherichia coli with a NADP+-dependent glyceraldehyde 3-phosphate dehydrogenase from Streptococcus mutans
Antonie van Leeuwenhoek
104
913-924
2013
Escherichia coli (P0A9B2)
Manually annotated by BRENDA team
Ferreira, E.; Gimenez, R.; Canas, M.A.; Aguilera, L.; Aguilar, J.; Badia, J.; Baldoma, L.
Glyceraldehyde-3-phosphate dehydrogenase is required for efficient repair of cytotoxic DNA lesions in Escherichia coli
Int. J. Biochem. Cell Biol.
60
202-212
2015
Escherichia coli
Manually annotated by BRENDA team
Kim, Y.J.
A cryoprotectant induces conformational change in glyceraldehyde-3-phosphate dehydrogenase
Acta Crystallogr. Sect. F
74
277-282
2018
Escherichia coli (P0A9B2), Escherichia coli
Manually annotated by BRENDA team
Zhang, L.; Liu, M.; Yao, Y.; Bostrom, I.; Wang, Y.; Chen, A.; Li, J.; Gu, S.; Ji, C.
Characterization and structure of glyceraldehyde-3-phosphate dehydrogenase type 1 from Escherichia coli
Acta Crystallogr. Sect. F
76
406-413
2020
Escherichia coli (P0A9B2), Escherichia coli
Manually annotated by BRENDA team
Rodriguez-Hernandez, A.; Romo-Arevalo, E.; Rodriguez-Romero, A.
A novel substrate-binding site in the X-ray structure of an oxidized E. coli glyceraldehyde 3-phosphate dehydrogenase elucidated by single-wavelength anomalous dispersion
Crystals
9
622
2019
Escherichia coli (P0A9B2)
-
Manually annotated by BRENDA team